Annotations: 7NKY

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J [auth I]	SCOP2B Superfamily	Zinc beta-ribbon	8042690	3001238	SCOP2B (2022-06-29)
J [auth I]	SCOP2B Superfamily	Zinc beta-ribbon	8042689	3001238	SCOP2B (2022-06-29)
K [auth J]	SCOP2B Superfamily	RNA polymerase subunit RPB10	8042692	3001213	SCOP2B (2022-06-29)
L [auth K]	SCOP2B Superfamily	RBP11-like subunits of RNA polymerase	8042694	3001655	SCOP2B (2022-06-29)
M [auth L]	SCOP2B Superfamily	RNA polymerase subunits	8042695	3001823	SCOP2B (2022-06-29)
Q [auth G]	SCOP2B Superfamily	N-terminal, heterodimerisation domain of RBP7 (RpoE)	8044252	3001137	SCOP2B (2022-06-29)
Q [auth G]	SCOP2B Superfamily	Nucleic acid-binding proteins	8044251	3000135	SCOP2B (2022-06-29)
R [auth O]	SCOP2B Superfamily	PH domain-like	8051654	3000134	SCOP2B (2022-06-29)
R [auth O]	SCOP2B Superfamily	PH domain-like	8041841	3000134	SCOP2B (2022-06-29)
R [auth O]	SCOP2B Superfamily	PH domain-like	8103655	3000134	SCOP2B (2022-06-29)
S [auth Q]	SCOP2B Superfamily	PH domain-like	8103656	3000134	SCOP2B (2022-06-29)
S [auth Q]	SCOP2B Superfamily	PH domain-like	8103650	3000134	SCOP2B (2022-06-29)
T [auth a]	SCOP2B Superfamily	Core histone-like	8041272	3001387	SCOP2B (2022-06-29)
X [auth e]	SCOP2B Superfamily	Core histone-like	8041272	3001387	SCOP2B (2022-06-29)
U [auth b]	SCOP2B Superfamily	Core histone-like	8042439	3001387	SCOP2B (2022-06-29)
Y [auth f]	SCOP2B Superfamily	Core histone-like	8042439	3001387	SCOP2B (2022-06-29)
V [auth c]	SCOP2B Superfamily	Core histone-like	8041278	3001387	SCOP2B (2022-06-29)
Z [auth g]	SCOP2B Superfamily	Core histone-like	8041278	3001387	SCOP2B (2022-06-29)
AA [auth h]	SCOP2B Superfamily	Core histone-like	8041279	3001387	SCOP2B (2022-06-29)
W [auth d]	SCOP2B Superfamily	Core histone-like	8041279	3001387	SCOP2B (2022-06-29)
D [auth A]	SCOP2B Superfamily	Two-barrel nucleic acid polymerases	8042682	3001330	SCOP2B (2022-06-29)
E [auth B]	SCOP2B Superfamily	Two-barrel nucleic acid polymerases	8042684	3001330	SCOP2B (2022-06-29)
E [auth B]	SCOP2B Superfamily	Two-barrel nucleic acid polymerases	8042684	3001330	SCOP2B (2022-06-29)
F [auth C]	SCOP2B Superfamily	RBP11-like subunits of RNA polymerase	8042685	3001655	SCOP2B (2022-06-29)
F [auth C]	SCOP2B Superfamily	Insert subdomain of RNA polymerase alpha subunit	8042687	3001500	SCOP2B (2022-06-29)
F [auth C]	SCOP2B Superfamily	RBP11-like subunits of RNA polymerase	8042685	3001655	SCOP2B (2022-06-29)
G [auth E]	SCOP2B Superfamily	Eukaryotic RPB5 N-terminal domain	8044454	3000444	SCOP2B (2022-06-29)
G [auth E]	SCOP2B Superfamily	RPB5-like RNA polymerase subunit	8035939	3001722	SCOP2B (2022-06-29)
H [auth F]	SCOP2B Superfamily	RPB6/omega subunit-like	8042688	3000189	SCOP2B (2022-06-29)
I [auth H]	SCOP2B Superfamily	RBP8/CHS5 N-terminal domain-like	8041967	3002702	SCOP2B (2022-06-29)
I [auth H]	SCOP2B Superfamily	RBP8/CHS5 N-terminal domain-like	8093392	3002702	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
J [auth I]	RNA_POL_M_15KD	e7nkyI2	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: RNA_POL_M_15KD	ECOD (1.6)
J [auth I]	TFIIS_C	e7nkyI1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: TFIIS_C	ECOD (1.6)
K [auth J]	RNA_pol_N	e7nkyJ1	A: alpha arrays	X: HTH	H: RPB10 (From Topology)	T: RPB10	F: RNA_pol_N	ECOD (1.6)
L [auth K]	RNA_pol_L_2	e7nkyK1	A: a+b two layers	X: DCoH-like	H: RBP11-like subunits of RNA polymerase (From Topology)	T: RBP11-like subunits of RNA polymerase	F: RNA_pol_L_2	ECOD (1.6)
M [auth L]	DNA_RNApol_7kD	e7nkyL1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: DNA_RNApol_7kD	ECOD (1.6)
N [auth Y]	Spt4	e7nkyY1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Spt4	ECOD (1.6)
O [auth Z]	Ribosomal_L26_1	e7nkyZ2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: Ribosomal_L26_1	ECOD (1.6)
O [auth Z]	Spt5-NGN	e7nkyZ1	A: a+b two layers	X: Alpha-beta plaits	H: N-utilization substance G protein NusG, N-terminal domain (From Topology)	T: N-utilization substance G protein NusG, N-terminal domain	F: Spt5-NGN	ECOD (1.6)
P [auth D]	RNA_pol_Rpb4	e7nkyD1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: RNA_pol_Rpb4	ECOD (1.6)
Q [auth G]	S1_1	e7nkyG2	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: S1_1	ECOD (1.6)
Q [auth G]	SHS2_Rpb7-N	e7nkyG1	A: a+b two layers	X: Dodecin subunit-like	H: Flavin-binding protein dodecin-like (From Topology)	T: Flavin-binding protein dodecin-like	F: SHS2_Rpb7-N	ECOD (1.6)
R [auth O]	Rtt106	e7nkyO3	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Rtt106	ECOD (1.6)
R [auth O]	POB3_N	e7nkyO2	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: POB3_N	ECOD (1.6)
R [auth O]	PH1_SSRP1-like	e7nkyO1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH1_SSRP1-like	ECOD (1.6)
R [auth O]	SSrecog	e7nkyO4	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: SSrecog	ECOD (1.6)
S [auth Q]	Rtt106	e7nkyQ2	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: Rtt106	ECOD (1.6)
S [auth Q]	SPT16	e7nkyQ3	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: SPT16	ECOD (1.6)
T [auth a]	Histone	e7nkya1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone	ECOD (1.6)
X [auth e]	Histone	e7nkye1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone	ECOD (1.6)
U [auth b]	Histone_1	e7nkyb1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone_1	ECOD (1.6)
Y [auth f]	Histone_1	e7nkyf1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone_1	ECOD (1.6)
V [auth c]	Histone_1	e7nkyc1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone_1	ECOD (1.6)
Z [auth g]	Histone_1	e7nkyg1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone_1	ECOD (1.6)
AA [auth h]	Histone	e7nkyh1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone	ECOD (1.6)
W [auth d]	Histone	e7nkyd1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: Histone	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_2	e7nkyA4	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: RNA_pol_Rpb1_2	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_2_1	e7nkyA5	A: a+b two layers	X: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase (From Topology)	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase (From Topology)	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: RNA_pol_Rpb1_2_1	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_7	e7nkyA3	A: a+b two layers	X: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology)	H: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology)	T: permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	F: RNA_pol_Rpb1_7	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_7_1	e7nkyA9	A: a+b two layers	X: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology)	H: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit (From Topology)	T: ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit	F: RNA_pol_Rpb1_7_1	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_1	e7nkyA6	A: a+b complex topology	X: N-terminal domain in RNA-polymerase beta-prime subunit (From Topology)	H: N-terminal domain in RNA-polymerase beta-prime subunit (From Topology)	T: N-terminal domain in RNA-polymerase beta-prime subunit	F: RNA_pol_Rpb1_1	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_5_3rd	e7nkyA8	A: a+b complex topology	X: central helical domain in RNA-polymerase beta-prime subunit (From Topology)	H: central helical domain in RNA-polymerase beta-prime subunit (From Topology)	T: central helical domain in RNA-polymerase beta-prime subunit	F: RNA_pol_Rpb1_5_3rd	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_6	e7nkyA7	A: a+b complex topology	X: helical domain in yeast RNA-polymerases	H: third helical domain in yeast RNA-polymerase II beta-prime subunit (From Topology)	T: third helical domain in yeast RNA-polymerase II beta-prime subunit	F: RNA_pol_Rpb1_6	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_4	e7nkyA1	A: a+b complex topology	X: second helical domain in RNA-polymerase beta-prime subunit (From Topology)	H: second helical domain in RNA-polymerase beta-prime subunit (From Topology)	T: second helical domain in RNA-polymerase beta-prime subunit	F: RNA_pol_Rpb1_4	ECOD (1.6)
D [auth A]	RNA_pol_Rpb1_3	e7nkyA2	A: a+b complex topology	X: first helical domain in RNA-polymerase beta-prime subunit (From Topology)	H: first helical domain in RNA-polymerase beta-prime subunit (From Topology)	T: first helical domain in RNA-polymerase beta-prime subunit	F: RNA_pol_Rpb1_3	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_6_3rd_2	e7nkyB6	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: RNA_pol_Rpb2_6_3rd_2	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_6_2nd_1	e7nkyB4	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd_1	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_3	e7nkyB1	A: a+b complex topology	X: N-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: N-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: N-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_3	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_1	e7nkyB5	A: a+b complex topology	X: insertion domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: insertion domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: insertion domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_1	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_45_1	e7nkyB7	A: a+b complex topology	X: barrel domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: barrel domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: barrel domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_45_1	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_7	e7nkyB3	A: a+b complex topology	X: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: C-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_7	ECOD (1.6)
E [auth B]	RNA_pol_Rpb2_4	e7nkyB2	A: a+b complex topology	X: inserted a+b domain in yeast RNA polymerase beta subunit (From Topology)	H: inserted a+b domain in yeast RNA polymerase beta subunit (From Topology)	T: inserted a+b domain in yeast RNA polymerase beta subunit	F: RNA_pol_Rpb2_4	ECOD (1.6)
F [auth C]	RNA_pol_L_1	e7nkyC2	A: a+b two layers	X: DCoH-like	H: RBP11-like subunits of RNA polymerase (From Topology)	T: RBP11-like subunits of RNA polymerase	F: RNA_pol_L_1	ECOD (1.6)
F [auth C]	RNA_pol_A_bac_1	e7nkyC1	A: a+b complex topology	X: Ribosomal protein TL5/L25 C-terminal domain-like	H: Insert subdomain of RNA polymerase alpha subunit (From Topology)	T: Insert subdomain of RNA polymerase alpha subunit	F: RNA_pol_A_bac_1	ECOD (1.6)
G [auth E]	RNA_pol_Rpb5_C	e7nkyE2	A: a+b two layers	X: RPB5-like RNA polymerase subunit (From Topology)	H: RPB5-like RNA polymerase subunit (From Topology)	T: RPB5-like RNA polymerase subunit	F: RNA_pol_Rpb5_C	ECOD (1.6)
G [auth E]	RNA_pol_Rpb5_N	e7nkyE1	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Eukaryotic RPB5 N-terminal domain (From Topology)	T: Eukaryotic RPB5 N-terminal domain	F: RNA_pol_Rpb5_N	ECOD (1.6)
H [auth F]	RNA_pol_Rpb6_1	e7nkyF1	A: alpha arrays	X: RPB6/omega subunit-like (From Homology)	H: RPB6/omega subunit-like	T: RPB6	F: RNA_pol_Rpb6_1	ECOD (1.6)
I [auth H]	RNA_pol_Rpb8	e7nkyH1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RNA_pol_Rpb8	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J [auth I]	PF02150	RNA polymerases M/15 Kd subunit (RNA_POL_M_15KD)	RNA polymerases M/15 Kd subunit	-	Domain
J [auth I]	PF01096	Transcription factor S-II (TFIIS) (TFIIS_C)	Transcription factor S-II (TFIIS)	-	Domain
K [auth J]	PF01194	RNA polymerases N / 8 kDa subunit (RNA_pol_N)	RNA polymerases N / 8 kDa subunit	-	Domain
L [auth K]	PF13656	RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L_2)	RNA polymerase Rpb3/Rpb11 dimerisation domain	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation do ...	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation domain of the alpha subunit/Rpb3 is interrupted by an insert domain (Pfam:PF01000). Some of the alpha subunits also contain iron-sulphur binding domains (Pfam:PF00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp. Many of the members of this family carry only the N-terminal region of Rpb11.	Domain
M [auth L]	PF03604	DNA directed RNA polymerase, 7 kDa subunit (DNA_RNApol_7kD)	DNA directed RNA polymerase, 7 kDa subunit	-	Domain
N [auth Y]	PF06093	Spt4/RpoE2 zinc finger (Spt4)	Spt4/RpoE2 zinc finger	This family consists of several eukaryotic transcription elongation Spt4 proteins as well as archaebacterial RpoE2 [2]. Three transcription-elongation factors Spt4, Spt5, and Spt6 are conserved among eukaryotes and are essential for transcription via ...	This family consists of several eukaryotic transcription elongation Spt4 proteins as well as archaebacterial RpoE2 [2]. Three transcription-elongation factors Spt4, Spt5, and Spt6 are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. Spt4 and Spt5 are tightly associated in a complex, while the physical association of the Spt4-Spt5 complex with Spt6 is considerably weaker. It has been demonstrated that Spt4, Spt5, and Spt6 play roles in transcription elongation in both yeast and humans including a role in activation by Tat. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles [1]. RpoE2 is one of 13 subunits in the archaeal RNA polymerase. These proteins contain a C4-type zinc finger, and the structure has been solved in [3]. The structure reveals that Spt4-Spt5 binding is governed by an acid-dipole interaction between Spt5 and Spt4, and the complex binds to and travels along the elongating RNA polymerase. The Spt4-Spt5 complex is likely to be an ancient, core component of the transcription elongation machinery.	Domain
O [auth Z]	PF03439	Early transcription elongation factor of RNA pol II, NGN section (Spt5-NGN)	Early transcription elongation factor of RNA pol II, NGN section	-	Family
O [auth Z]	PF00467	KOW motif (KOW)	KOW motif	-	Family
P [auth D]	PF03874	RNA polymerase Rpb4 (RNA_pol_Rpb4)	RNA polymerase Rpb4	-	Family
Q [auth G]	PF16211	C-terminus of histone H2A (Histone_H2A_C)	C-terminus of histone H2A	-	Family
Q [auth G]	PF03876	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 (SHS2_Rpb7-N)	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397	Rpb7 bind to Rpb4 to form a heterodimer. This complex is thought to interact with the nascent RNA strand during RNA polymerase II elongation[1]. This family includes the homologs from RNA polymerase I and III. In RNA polymerase I, Rpa43 is at leas ...	Rpb7 bind to Rpb4 to form a heterodimer. This complex is thought to interact with the nascent RNA strand during RNA polymerase II elongation[1]. This family includes the homologs from RNA polymerase I and III. In RNA polymerase I, Rpa43 is at least one of the subunits contacted by the transcription factor TIF-IA [2]. The N terminus of Rpb7p/Rpc25p/MJ0397 has a SHS2 domain that is involved in protein-protein interaction [3].	Domain
Q [auth G]	PF00575	S1 RNA binding domain (S1)	S1 RNA binding domain	The S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.	Domain
R [auth O]	PF21103	SSRP1 PH domain (PH1_SSRP1-like)	SSRP1 PH domain	SSRP1 is a component of FACT (facilitator of chromatin transcription), an essential chromatin reorganizing factor. This entry represents the first of two PH-like domains in these proteins [1-3].	Domain
R [auth O]	PF03531	Structure-specific recognition protein (SSRP1) (SSrecog)	Structure-specific recognition protein (SSRP1)	SSRP1 has been implicated in transcriptional initiation and elongation and in DNA replication and repair [1]. This domain belongs to the Pleckstrin homology fold superfamily.	Domain
R [auth O]	PF08512	Histone chaperone Rttp106-like, middle domain (Rttp106-like_middle)	Histone chaperone Rttp106-like, middle domain	This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin tran ...	This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin transactions) complex subunits, such as Spt16 and either Pob3 (yeast) or the related SSRP1 (higher eukaryotes). This domain plays a role in DNA binding [2-4].	Domain
R [auth O]	PF17292	POB3-like N-terminal PH domain (POB3_N)	POB3-like N-terminal PH domain	This domain is found at the N-terminus of POB3 and related proteins.	Domain
S [auth Q]	PF08512	Histone chaperone Rttp106-like, middle domain (Rttp106-like_middle)	Histone chaperone Rttp106-like, middle domain	This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin tran ...	This Pleckstrin homology (PH) domain is found in the middle region of Rttp106, a histone chaperone involved in heterochromatin-mediated silencing [1]. It is also found in the final part of the middle domain of various FACT (facilitates chromatin transactions) complex subunits, such as Spt16 and either Pob3 (yeast) or the related SSRP1 (higher eukaryotes). This domain plays a role in DNA binding [2-4].	Domain
S [auth Q]	PF08644	FACT complex subunit (SPT16/CDC68) (SPT16)	FACT complex subunit (SPT16/CDC68)	Proteins in this family are subunits the FACT complex. The FACT complex plays a role in transcription initiation and promotes binding of TATA-binding protein (TBP) to a TATA box in chromatin [2].	Domain
S [auth Q]	PF21091	FACT complex subunit SPT16, C-terminal domain (SPT16_C)	FACT complex subunit SPT16, C-terminal domain	FACT (facilitates chromatin transactions) is a general chromatin factor that acts to reorganise nucleosomes. SPT16 is a subunit of this complex that is conserved among eukaryotes, from yeast to humans. This entry represents the C-terminal domain of S ...	FACT (facilitates chromatin transactions) is a general chromatin factor that acts to reorganise nucleosomes. SPT16 is a subunit of this complex that is conserved among eukaryotes, from yeast to humans. This entry represents the C-terminal domain of SPT16, which wraps around the DNA binding surface of H2A-H2B [1,2].	Domain
D [auth A]	PF00623	RNA polymerase Rpb1, domain 2 (RNA_pol_Rpb1_2)	RNA polymerase Rpb1, domain 2	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 2, contains the active site ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 2, contains the active site. The invariant motif -NADFDGD- binds the active site magnesium ion [1,2].	Domain
D [auth A]	PF04990	RNA polymerase Rpb1, domain 7 (RNA_pol_Rpb1_7)	RNA polymerase Rpb1, domain 7	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 7, represents a mobile modu ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 7, represents a mobile module of the RNA polymerase. Domain 7 forms a substantial interaction with the lobe domain of Rpb2 (Pfam:PF04561) [1,2].	Domain
D [auth A]	PF05000	RNA polymerase Rpb1, domain 4 (RNA_pol_Rpb1_4)	RNA polymerase Rpb1, domain 4	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 4, represents the funnel do ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 4, represents the funnel domain. The funnel contain the binding site for some elongation factors [1,2].	Domain
D [auth A]	PF04983	RNA polymerase Rpb1, domain 3 (RNA_pol_Rpb1_3)	RNA polymerase Rpb1, domain 3	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore doma ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking [1,2].	Domain
D [auth A]	PF04992	RNA polymerase Rpb1, domain 6 (RNA_pol_Rpb1_6)	RNA polymerase Rpb1, domain 6	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 6, represents a mobile modu ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 6, represents a mobile module of the RNA polymerase. Domain 6 forms part of the shelf module [1,2]. This family appears to be specific to the largest subunit of RNA polymerase II.	Domain
D [auth A]	PF04998	RNA polymerase Rpb1, domain 5 (RNA_pol_Rpb1_5)	RNA polymerase Rpb1, domain 5	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 5, represents the discontin ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 5, represents the discontinuous cleft domain that is required to from the central cleft or channel where the DNA is bound [1,2].	Domain
D [auth A]	PF04997	RNA polymerase Rpb1, domain 1 (RNA_pol_Rpb1_1)	RNA polymerase Rpb1, domain 1	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 1, represents the clamp do ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 1, represents the clamp domain, which a mobile domain involved in positioning the DNA, maintenance of the transcription bubble and positioning of the nascent RNA strand [1,2].	Domain
E [auth B]	PF04561	RNA polymerase Rpb2, domain 2 (RNA_pol_Rpb2_2)	RNA polymerase Rpb2, domain 2	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA po ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain [1]. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble [1]. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 1 (DRI).	Domain
E [auth B]	PF04560	RNA polymerase Rpb2, domain 7 (RNA_pol_Rpb2_7)	RNA polymerase Rpb2, domain 7	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA p ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain comprised of the structural domains anchor and clamp [1]. The clamp region (C-terminal) contains a zinc-binding motif [1]. The clamp region is named due to its interaction with the clamp domain found in Rpb1. The domain also contains a region termed "switch 4". The switches within the polymerase are thought to signal different stages of transcription [1].	Domain
E [auth B]	PF04565	RNA polymerase Rpb2, domain 3 (RNA_pol_Rpb2_3)	RNA polymerase Rpb2, domain 3	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 3, s also known as the fork domain and is ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 3, s also known as the fork domain and is proximal to catalytic site [1].	Domain
E [auth B]	PF04566	RNA polymerase Rpb2, domain 4 (RNA_pol_Rpb2_4)	RNA polymerase Rpb2, domain 4	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 4, is also known as the external 2 domain ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 4, is also known as the external 2 domain [1].	Domain
E [auth B]	PF04563	RNA polymerase beta subunit (RNA_pol_Rpb2_1)	RNA polymerase beta subunit	-	Family
E [auth B]	PF15511	Centromere kinetochore component CENP-T histone fold (CENP-T_C)	Centromere kinetochore component CENP-T histone fold	CENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly asso ...	CENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly associate with CENP-A, but with histone H3 in the centromere region. CENP-T and -W form a hetero-tetramer with CENP-S and -X and bind to a ~100 bp region of nucleosome-free DNA forming a nucleosome-like structure. The DNA-CENP-T-W-S-X complex is likely to be associated with histone H3-containing nucleosomes rather than with CENP-nucleosomes. This domain is the C-terminal histone fold domain of CENP-T, which associates with chromatin [2-3].	Domain
E [auth B]	PF00562	RNA polymerase Rpb2, domain 6 (RNA_pol_Rpb2_6)	RNA polymerase Rpb2, domain 6	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain represents the hybrid binding domain ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain represents the hybrid binding domain and the wall domain [1]. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion[1]. This domain is also involved in binding to Rpb1 and Rpb3 [1]. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).	Domain
E [auth B]	PF04567	RNA polymerase Rpb2, domain 5 (RNA_pol_Rpb2_5)	RNA polymerase Rpb2, domain 5	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 5, is also known as the external 2 domain ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 5, is also known as the external 2 domain [1].	Domain
F [auth C]	PF01193	RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L)	RNA polymerase Rpb3/Rpb11 dimerisation domain	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation do ...	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation domain of the alpha subunit/Rpb3 is interrupted by an insert domain (Pfam:PF01000). Some of the alpha subunits also contain iron-sulphur binding domains (Pfam:PF00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp.	Domain
F [auth C]	PF16211	C-terminus of histone H2A (Histone_H2A_C)	C-terminus of histone H2A	-	Family
F [auth C]	PF01000	RNA polymerase Rpb3/RpoA insert domain (RNA_pol_A_bac)	RNA polymerase Rpb3/RpoA insert domain	Members of this family include: alpha subunit from eubacteria alpha subunits from chloroplasts Rpb3 subunits from eukaryotes RpoD subunits from archaeal	Domain
G [auth E]	PF01191	RNA polymerase Rpb5, C-terminal domain (RNA_pol_Rpb5_C)	RNA polymerase Rpb5, C-terminal domain	The assembly domain of Rpb5 [1]. The archaeal equivalent to this domain is subunit H. Subunit H lacks the N-terminal domain.	Domain
G [auth E]	PF03871	RNA polymerase Rpb5, N-terminal domain (RNA_pol_Rpb5_N)	RNA polymerase Rpb5, N-terminal domain	Rpb5 has a bipartite structure which includes a eukaryote-specific N-terminal domain and a C-terminal domain resembling the archaeal RNAP subunit H [1,2]. The N-terminal domain is involved in DNA binding and is part of the jaw module in the RNA p ...	Rpb5 has a bipartite structure which includes a eukaryote-specific N-terminal domain and a C-terminal domain resembling the archaeal RNAP subunit H [1,2]. The N-terminal domain is involved in DNA binding and is part of the jaw module in the RNA pol II structure [3]. This module is important for positioning the downstream DNA.	Domain
H [auth F]	PF01192	RNA polymerase Rpb6 (RNA_pol_Rpb6)	RNA polymerase Rpb6	-	Family
I [auth H]	PF03870	RNA polymerase Rpb8 (RNA_pol_Rpb8)	RNA polymerase Rpb8	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth P]	RNA (5'-R(PUPCPUPUPUPUPAPUPUPUPUPUPUPCPUPG)-3')	-	-	-
J [auth I]	DNA-directed RNA polymerase II subunit RPB9	binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding transition metal ion binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process DNA-templated transcription initiation DNA-templated transcription transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation maintenance of transcriptional fidelity during transcription elongation maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II cellular response to stimulus response to stimulus transcription-coupled nucleotide-excision repair DNA metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen RNA polymerase II, holoenzyme protein-containing complex nuclear protein-containing complex transferase complex nucleoplasm RNA polymerase II, core complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex
K [auth J]	DNA-directed RNA polymerases I, II, and III subunit RPABC5	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process macromolecule metabolic process tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription by RNA polymerase III nucleolar large rRNA transcription by RNA polymerase I transcription by RNA polymerase I rRNA transcription rRNA metabolic process DNA-templated transcription termination termination of RNA polymerase I transcription RNA-templated transcription termination of RNA polymerase III transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription initiation at RNA polymerase III promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription elongation by RNA polymerase I transcription initiation at RNA polymerase I promoter	membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex RNA polymerase III complex
L [auth K]	DNA-directed RNA polymerase II subunit RPB11	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase II activity RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase II activity RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups protein binding protein dimerization activity	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process DNA-templated transcription termination DNA-templated transcription transcription by RNA polymerase II termination of RNA polymerase II transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
M [auth L]	DNA-directed RNA polymerases I, II, and III subunit RPABC4	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process macromolecule metabolic process tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription by RNA polymerase III nucleolar large rRNA transcription by RNA polymerase I transcription by RNA polymerase I rRNA transcription rRNA metabolic process DNA-templated transcription termination termination of RNA polymerase I transcription RNA-templated transcription termination of RNA polymerase III transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription initiation at RNA polymerase III promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription elongation by RNA polymerase I transcription initiation at RNA polymerase I promoter	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen protein-containing complex RNA polymerase I complex nuclear protein-containing complex transferase complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex RNA polymerase III complex cytoplasm peroxisome microbody
N [auth Y]	Chromatin elongation factor SPT4	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding rDNA binding protein-containing complex binding basal transcription machinery binding RNA polymerase binding protein binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding rDNA binding protein-containing complex binding basal transcription machinery binding RNA polymerase binding protein binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase core enzyme binding enzyme binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	ribonucleoprotein complex biogenesis regulation of cellular process RNA metabolic process rRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process cellular component organization or biogenesis RNA processing ribonucleoprotein complex biogenesis regulation of cellular process RNA metabolic process rRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process cellular component organization or biogenesis RNA processing rRNA metabolic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process regulation of rRNA processing macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process positive regulation of macromolecule biosynthetic process transcription elongation by RNA polymerase I DNA-templated transcription positive regulation of metabolic process transcription by RNA polymerase I rRNA transcription positive regulation of macromolecule metabolic process regulation of DNA-templated transcription elongation positive regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase I positive regulation of RNA metabolic process positive regulation of transcription elongation by RNA polymerase I regulation of DNA-templated transcription positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of DNA-templated transcription, elongation positive regulation of biosynthetic process positive regulation of transcription by RNA polymerase I positive regulation of cellular process regulation of RNA biosynthetic process nucleolar large rRNA transcription by RNA polymerase I DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase I positive regulation of RNA biosynthetic process negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of DNA-templated transcription, elongation negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process negative regulation of transcription by RNA polymerase I negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of transcription elongation by RNA polymerase I negative regulation of biosynthetic process localization cellular localization cellular macromolecule localization macromolecule localization intracellular mRNA localization RNA localization transcription elongation by RNA polymerase II transcription elongation-coupled chromatin remodeling cellular component organization transcription by RNA polymerase II chromatin organization chromatin remodeling heterochromatin formation epigenetic regulation of gene expression negative regulation of gene expression negative regulation of gene expression, epigenetic negative regulation of catabolic process catabolic process autophagy regulation of catabolic process regulation of autophagy negative regulation of autophagy process utilizing autophagic mechanism positive regulation of transcription elongation by RNA polymerase II regulation of transcription by RNA polymerase II regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II cellular response to stimulus response to stimulus transcription-coupled nucleotide-excision repair regulation of cellular response to stress cellular response to stress nucleotide-excision repair response to stress regulation of response to stress DNA repair regulation of transcription-coupled nucleotide-excision repair DNA metabolic process regulation of DNA repair DNA damage response regulation of response to stimulus regulation of nucleotide-excision repair regulation of DNA metabolic process 7-methylguanosine mRNA capping 7-methylguanosine RNA capping RNA capping mRNA processing mRNA metabolic process RNA 5'-end processing	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex DSIF complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex DSIF complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle mating-type region heterochromatin chromatin chromosome heterochromatin chromosomal region kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome rDNA heterochromatin
O [auth Z]	Transcription elongation factor SPT5	protein binding binding histone binding RNA binding snRNA binding organic cyclic compound binding nucleic acid binding U1 snRNA binding U6 snRNA binding rRNA binding RNA polymerase I core binding RNA polymerase binding RNA polymerase core enzyme binding enzyme binding protein binding binding histone binding RNA binding snRNA binding organic cyclic compound binding nucleic acid binding U1 snRNA binding U6 snRNA binding rRNA binding RNA polymerase I core binding RNA polymerase binding RNA polymerase core enzyme binding enzyme binding U4 snRNA binding DNA binding mRNA binding protein-containing complex binding basal transcription machinery binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding U5 snRNA binding transcription factor binding RNA polymerase I general transcription initiation factor binding general transcription initiation factor binding ribonucleoprotein complex binding snRNP binding U2 snRNA binding	ribonucleoprotein complex biogenesis regulation of cellular process RNA metabolic process rRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process cellular component organization or biogenesis RNA processing ribonucleoprotein complex biogenesis regulation of cellular process RNA metabolic process rRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process cellular component organization or biogenesis RNA processing rRNA metabolic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process regulation of rRNA processing macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process positive regulation of macromolecule biosynthetic process transcription elongation by RNA polymerase I DNA-templated transcription positive regulation of metabolic process transcription by RNA polymerase I rRNA transcription positive regulation of macromolecule metabolic process regulation of DNA-templated transcription elongation positive regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase I positive regulation of RNA metabolic process positive regulation of transcription elongation by RNA polymerase I regulation of DNA-templated transcription positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of DNA-templated transcription, elongation positive regulation of biosynthetic process positive regulation of transcription by RNA polymerase I positive regulation of cellular process regulation of RNA biosynthetic process nucleolar large rRNA transcription by RNA polymerase I DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase I positive regulation of RNA biosynthetic process negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of DNA-templated transcription, elongation negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process negative regulation of transcription by RNA polymerase I negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of transcription elongation by RNA polymerase I negative regulation of biosynthetic process mRNA processing protein-RNA complex assembly cellular component organization spliceosomal complex assembly protein-RNA complex organization cellular component assembly protein-containing complex assembly RNA splicing protein-containing complex organization mRNA metabolic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile localization cellular localization cellular macromolecule localization macromolecule localization intracellular mRNA localization RNA localization transcription elongation by RNA polymerase II transcription elongation-coupled chromatin remodeling transcription by RNA polymerase II chromatin organization chromatin remodeling positive regulation of transcription elongation by RNA polymerase II regulation of transcription by RNA polymerase II regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II cellular response to stimulus response to stimulus transcription-coupled nucleotide-excision repair regulation of cellular response to stress cellular response to stress nucleotide-excision repair response to stress regulation of response to stress DNA repair regulation of transcription-coupled nucleotide-excision repair DNA metabolic process regulation of DNA repair DNA damage response regulation of response to stimulus regulation of nucleotide-excision repair regulation of DNA metabolic process positive regulation of autophagy catabolic process autophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process process utilizing autophagic mechanism	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex transcription elongation factor complex DSIF complex nucleus membrane-enclosed lumen nuclear protein-containing complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex transcription elongation factor complex DSIF complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome rDNA heterochromatin heterochromatin
P [auth D]	DNA-directed RNA polymerase II subunit RPB4	protein binding binding translation initiation factor binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process DNA-templated transcription initiation DNA-templated transcription transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation regulation of cellular process positive regulation of protein metabolic process positive regulation of biological process positive regulation of translation positive regulation of macromolecule biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process translational initiation protein metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process regulation of translational initiation regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process translation regulation of gene expression positive regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process positive regulation of translational initiation regulation of metabolic process mRNA processing mRNA metabolic process RNA processing negative regulation of biological process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process positive regulation of nucleobase-containing compound metabolic process negative regulation of metabolic process positive regulation of mRNA metabolic process nucleobase-containing compound catabolic process positive regulation of RNA metabolic process negative regulation of gene expression negative regulation of macromolecule biosynthetic process nucleic acid catabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay catabolic process mRNA destabilization macromolecule catabolic process regulation of mRNA catabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process RNA destabilization nuclear-transcribed mRNA catabolic process regulation of catabolic process positive regulation of catabolic process regulation of mRNA stability negative regulation of biosynthetic process positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RPB4-RPB7 complex cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle cytoplasm supramolecular complex P-body
Q [auth G]	DNA-directed RNA polymerase II subunit RPB7	protein binding binding translation initiation factor binding RNA binding organic cyclic compound binding nucleic acid binding single-stranded RNA binding DNA binding single-stranded DNA binding	regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process negative regulation of cellular process RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process nuclear-transcribed mRNA catabolic process regulation of biological process negative regulation of metabolic process regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process negative regulation of cellular process RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process nuclear-transcribed mRNA catabolic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process nucleobase-containing compound biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process RNA-templated transcription DNA-templated transcription initiation DNA-templated transcription transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation positive regulation of protein metabolic process positive regulation of biological process positive regulation of translation positive regulation of macromolecule biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process translational initiation protein metabolic process positive regulation of cellular process regulation of translational initiation regulation of protein metabolic process translation positive regulation of gene expression regulation of translation positive regulation of translational initiation regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality positive regulation of nucleobase-containing compound metabolic process positive regulation of mRNA metabolic process positive regulation of RNA metabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay mRNA destabilization regulation of mRNA catabolic process RNA destabilization regulation of catabolic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process positive regulation of nuclear-transcribed mRNA poly(A) tail shortening nuclear-transcribed mRNA poly(A) tail shortening regulation of nuclear-transcribed mRNA poly(A) tail shortening	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RPB4-RPB7 complex cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle cytoplasm supramolecular complex P-body
R [auth O]	FACT complex subunit POB3	DNA binding binding organic cyclic compound binding nucleic acid binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair DNA-templated DNA replication cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair DNA-templated DNA replication DNA replication cellular component organization protein-DNA complex organization protein-containing complex organization chromatin organization chromatin remodeling cellular component organization or biogenesis nucleosome organization regulation of cellular process transcription preinitiation complex assembly positive regulation of macromolecule biosynthetic process regulation of primary metabolic process cellular component biogenesis DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process cellular component assembly transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process transcription initiation at RNA polymerase II promoter regulation of transcription by RNA polymerase II regulation of biological process positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process regulation of gene expression biosynthetic process RNA polymerase II preinitiation complex assembly regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process regulation of RNA polymerase II transcription preinitiation complex assembly regulation of cellular component organization positive regulation of cellular component organization positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of biosynthetic process protein-containing complex assembly positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of RNA polymerase II transcription preinitiation complex assembly positive regulation of cellular component biogenesis positive regulation of transcription initiation by RNA polymerase II biological regulation protein-DNA complex assembly regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression regulation of cellular component biogenesis macromolecule biosynthetic process DNA-templated transcription initiation positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II regulation of chromatin organization	membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork intracellular membraneless organelle nuclear chromosome chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork intracellular membraneless organelle nuclear chromosome chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle replication fork nuclear lumen transcription elongation factor complex chromatin FACT complex nucleoplasm
S [auth Q]	FACT complex subunit SPT16	-	protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization regulation of cellular process protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription positive regulation of metabolic process regulation of DNA-templated transcription initiation regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process transcription initiation at RNA polymerase II promoter positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of biological process positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription initiation by RNA polymerase II biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression positive regulation of transcription by RNA polymerase II macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular response to stimulus response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair DNA-templated DNA replication DNA replication transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription preinitiation complex assembly RNA polymerase II preinitiation complex assembly regulation of RNA polymerase II transcription preinitiation complex assembly regulation of cellular component organization positive regulation of cellular component organization regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of RNA polymerase II transcription preinitiation complex assembly positive regulation of cellular component biogenesis regulation of cellular component biogenesis regulation of chromatin organization regulation of cell cycle process chromosome organization sister chromatid cohesion regulation of chromosome organization regulation of organelle organization organelle organization regulation of sister chromatid cohesion cell cycle regulation of cell cycle cell cycle process	membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork intracellular membraneless organelle nuclear chromosome chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork intracellular membraneless organelle nuclear chromosome chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle replication fork nuclear lumen transcription elongation factor complex chromatin FACT complex nucleoplasm
B [auth N]	DNA (138-MER)	-	-	-
T [auth a], X [auth e]	Histone H3.2	DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	-	protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome intracellular membraneless organelle chromatin chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle membrane-bounded organelle nucleus membrane-enclosed lumen protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome intracellular membraneless organelle chromatin chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
U [auth b], Y [auth f]	Histone H4	DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization	protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome intracellular membraneless organelle chromatin chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle membrane-bounded organelle nucleus intracellular membrane-bounded organelle
V [auth c], Z [auth g]	Histone H2A type 1	DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	-	protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome intracellular membraneless organelle chromatin chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle membrane-bounded organelle nucleus intracellular membrane-bounded organelle
AA [auth h], W [auth d]	Histone H2B 1.1	DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	-	protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome intracellular membraneless organelle chromatin chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle membrane-bounded organelle nucleus intracellular membrane-bounded organelle
C [auth T]	DNA (148-MER)	-	-	-
D [auth A]	DNA-directed RNA polymerase II subunit RPB1	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding ion binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process translesion synthesis cellular response to stimulus postreplication repair response to stimulus DNA metabolic process DNA synthesis involved in DNA repair cellular response to stress DNA damage response response to stress DNA biosynthetic process DNA repair RNA-templated transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule RNA polymerase II, holoenzyme protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen nucleoplasm RNA polymerase II, core complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
E [auth B]	DNA-directed RNA polymerase II subunit RPB2	ribonucleoside binding binding organic cyclic compound binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA binding nucleic acid binding RNA binding mRNA binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA ribonucleoside binding binding organic cyclic compound binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA binding nucleic acid binding RNA binding mRNA binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding ion binding metal ion binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process RNA-templated transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule RNA polymerase II, holoenzyme protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen nucleoplasm RNA polymerase II, core complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
F [auth C]	DNA-directed RNA polymerase II subunit RPB3	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups protein binding DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups protein binding protein dimerization activity cation binding ion binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA-templated transcription metabolic process cellular process macromolecule metabolic process DNA-templated transcription termination DNA-templated transcription transcription by RNA polymerase II termination of RNA polymerase II transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
G [auth E]	DNA-directed RNA polymerases I, II, and III subunit RPABC1	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process macromolecule metabolic process tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription by RNA polymerase III nucleolar large rRNA transcription by RNA polymerase I transcription by RNA polymerase I rRNA transcription rRNA metabolic process DNA-templated transcription termination termination of RNA polymerase I transcription RNA-templated transcription termination of RNA polymerase III transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription initiation at RNA polymerase III promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription elongation by RNA polymerase I transcription initiation at RNA polymerase I promoter	membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex RNA polymerase III complex
H [auth F]	DNA-directed RNA polymerases I, II, and III subunit RPABC2	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process macromolecule metabolic process tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription by RNA polymerase III nucleolar large rRNA transcription by RNA polymerase I transcription by RNA polymerase I rRNA transcription rRNA metabolic process DNA-templated transcription termination termination of RNA polymerase I transcription RNA-templated transcription termination of RNA polymerase III transcription DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter transcription initiation at RNA polymerase III promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription elongation by RNA polymerase I transcription initiation at RNA polymerase I promoter	membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex RNA polymerase III complex cytoplasm
I [auth H]	DNA-directed RNA polymerases I, II, and III subunit RPABC3	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	nucleolar large rRNA transcription by RNA polymerase I RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process transcription by RNA polymerase I rRNA transcription nucleolar large rRNA transcription by RNA polymerase I RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process transcription by RNA polymerase I rRNA transcription metabolic process cellular process macromolecule metabolic process rRNA metabolic process DNA-templated transcription termination termination of RNA polymerase I transcription RNA-templated transcription termination of RNA polymerase III transcription transcription by RNA polymerase III DNA-templated transcription initiation transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter transcription initiation at RNA polymerase III promoter cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular component organization or biogenesis transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription elongation by RNA polymerase I tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription initiation at RNA polymerase I promoter	membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex RNA polymerase III complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth I]	IPR012164	DNA-directed RNA polymerase subunit/transcription factor S	Family
J [auth I]	IPR001222	Zinc finger, TFIIS-type	Domain
J [auth I]	IPR034012	Pol II subunit B9, C-terminal zinc ribbon	Domain
J [auth I]	IPR019761	DNA-directed RNA polymerase M, 15kDa subunit, conserved site	Conserved Site
J [auth I]	IPR001529	DNA-directed RNA polymerase, M/15kDa subunit	Domain
K [auth J]	IPR020789	RNA polymerases, subunit N, zinc binding site	Binding Site
K [auth J]	IPR000268	DNA-directed RNA polymerase subunit RPABC5/Rpb10	Family
K [auth J]	IPR023580	RNA polymerase subunit RPB10	Homologous Superfamily
L [auth K]	IPR009025	DNA-directed RNA polymerase, RBP11-like dimerisation domain	Domain
L [auth K]	IPR037685	RNA polymerase RBP11	Family
L [auth K]	IPR022905	DNA-directed RNA polymerase subunit Rpo11-like	Family
L [auth K]	IPR036603	RNA polymerase, RBP11-like subunit	Homologous Superfamily
L [auth K]	IPR008193	DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved site	Conserved Site
M [auth L]	IPR006591	RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4	Family
M [auth L]	IPR029040	RNA polymerase subunit RPABC4/transcription elongation factor Spt4	Homologous Superfamily
M [auth L]	IPR039747	DNA-directed RNA polymerases I, II, and III subunit RPABC4	Family
N [auth Y]	IPR029040	RNA polymerase subunit RPABC4/transcription elongation factor Spt4	Homologous Superfamily
N [auth Y]	IPR022800	Spt4/RpoE2 zinc finger	Domain
N [auth Y]	IPR038510	Spt4 superfamily	Homologous Superfamily
N [auth Y]	IPR009287	Transcription initiation Spt4	Family
O [auth Z]	IPR041976	Spt5, KOW domain repeat 3	Domain
O [auth Z]	IPR039385	NGN domain, eukaryotic	Domain
O [auth Z]	IPR014722	Large ribosomal subunit protein uL2, domain 2	Homologous Superfamily
O [auth Z]	IPR022581	Spt5 transcription elongation factor, N-terminal	Domain
O [auth Z]	IPR024945	Spt5 C-terminal domain	Domain
O [auth Z]	IPR006645	NusG-like, N-terminal	Domain
O [auth Z]	IPR041975	Spt5, KOW domain repeat 2	Domain
O [auth Z]	IPR039659	Transcription elongation factor SPT5	Family
O [auth Z]	IPR036735	NusG, N-terminal domain superfamily	Homologous Superfamily
O [auth Z]	IPR008991	Translation protein SH3-like domain superfamily	Homologous Superfamily
O [auth Z]	IPR041973	Spt5, KOW domain repeat 1	Domain
O [auth Z]	IPR005100	NGN domain	Domain
O [auth Z]	IPR041977	Spt5, KOW domain repeat 4	Domain
O [auth Z]	IPR017071	Transcription elongation factor Spt5, eukaryote	Family
O [auth Z]	IPR005824	KOW	Domain
O [auth Z]	IPR041978	Spt5, KOW domain repeat 5	Domain
P [auth D]	IPR005574	RNA polymerase subunit Rpb4/RPC9	Family
P [auth D]	IPR010997	HRDC-like superfamily	Homologous Superfamily
P [auth D]	IPR006590	RNA polymerase Rpb4/RPC9, core	Domain
P [auth D]	IPR038324	Rpb4/RPC9 superfamily	Homologous Superfamily
P [auth D]	IPR045222	DNA-directed RNA polymerase II subunit Rpb4-like	Family
Q [auth G]	IPR003029	S1 domain	Domain
Q [auth G]	IPR045113	RNA polymerase subunit Rpb7-like	Family
Q [auth G]	IPR005576	RNA polymerase Rpb7-like , N-terminal	Domain
Q [auth G]	IPR036898	RNA polymerase Rpb7-like, N-terminal domain superfamily	Homologous Superfamily
Q [auth G]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
R [auth O]	IPR038167	SSRP1 domain superfamily	Homologous Superfamily
R [auth O]	IPR050454	RTT106/SSRP1 Histone Chaperone/FACT Complex	Family
R [auth O]	IPR035417	FACT complex subunit SSRP1/POB3, N-terminal PH domain	Domain
R [auth O]	IPR000969	FACT complex subunit SSRP1/POB3	Family
R [auth O]	IPR011993	PH-like domain superfamily	Homologous Superfamily
R [auth O]	IPR013719	Histone chaperone RTT106/FACT complex subunit SPT16-like, middle domain	Domain
R [auth O]	IPR048993	FACT complex subunit SSRP1-like, first PH domain	Domain
R [auth O]	IPR024954	SSRP1, dimerization domain	Domain
S [auth Q]	IPR033825	FACT complex subunit Spt16, peptidase M24-like domain	Domain
S [auth Q]	IPR048969	FACT complex subunit SPT16, C-terminal domain	Domain
S [auth Q]	IPR029149	Creatinase/Aminopeptidase P/Spt16, N-terminal	Homologous Superfamily
S [auth Q]	IPR011993	PH-like domain superfamily	Homologous Superfamily
S [auth Q]	IPR013719	Histone chaperone RTT106/FACT complex subunit SPT16-like, middle domain	Domain
S [auth Q]	IPR040258	FACT complex subunit Spt16	Family
S [auth Q]	IPR029148	FACT complex subunit Spt16, N-terminal lobe domain	Domain
S [auth Q]	IPR013953	FACT complex subunit Spt16 domain	Domain
S [auth Q]	IPR036005	Creatinase/aminopeptidase-like	Homologous Superfamily
S [auth Q]	IPR000994	Peptidase M24	Domain
T [auth a], X [auth e]	IPR009072	Histone-fold	Homologous Superfamily
T [auth a], X [auth e]	IPR007125	Histone H2A/H2B/H3	Domain
T [auth a], X [auth e]	IPR000164	Histone H3/CENP-A	Family
U [auth b], Y [auth f]	IPR009072	Histone-fold	Homologous Superfamily
U [auth b], Y [auth f]	IPR001951	Histone H4	Family
U [auth b], Y [auth f]	IPR035425	CENP-T/Histone H4, histone fold	Domain
U [auth b], Y [auth f]	IPR019809	Histone H4, conserved site	Conserved Site
U [auth b], Y [auth f]	IPR004823	TATA box binding protein associated factor (TAF), histone-like fold domain	Domain
V [auth c], Z [auth g]	IPR009072	Histone-fold	Homologous Superfamily
V [auth c], Z [auth g]	IPR007125	Histone H2A/H2B/H3	Domain
V [auth c], Z [auth g]	IPR002119	Histone H2A	Family
V [auth c], Z [auth g]	IPR032454	Histone H2A, C-terminal domain	Domain
V [auth c], Z [auth g]	IPR032458	Histone H2A conserved site	Conserved Site
AA [auth h], W [auth d]	IPR009072	Histone-fold	Homologous Superfamily
AA [auth h], W [auth d]	IPR007125	Histone H2A/H2B/H3	Domain
AA [auth h], W [auth d]	IPR000558	Histone H2B	Family
D [auth A]	IPR007081	RNA polymerase Rpb1, domain 5	Domain
D [auth A]	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
D [auth A]	IPR007075	RNA polymerase Rpb1, domain 6	Domain
D [auth A]	IPR000684	RNA polymerase II, heptapeptide repeat, eukaryotic	Repeat
D [auth A]	IPR007083	RNA polymerase Rpb1, domain 4	Domain
D [auth A]	IPR044893	RNA polymerase Rpb1, clamp domain superfamily	Homologous Superfamily
D [auth A]	IPR006592	RNA polymerase, N-terminal	Domain
D [auth A]	IPR007066	RNA polymerase Rpb1, domain 3	Domain
D [auth A]	IPR007073	RNA polymerase Rpb1, domain 7	Domain
D [auth A]	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
D [auth A]	IPR038593	RNA polymerase Rpb1, domain 7 superfamily	Homologous Superfamily
D [auth A]	IPR000722	RNA polymerase, alpha subunit	Domain
D [auth A]	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
D [auth A]	IPR007080	RNA polymerase Rpb1, domain 1	Domain
E [auth B]	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
E [auth B]	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
E [auth B]	IPR007646	RNA polymerase Rpb2, domain 4	Domain
E [auth B]	IPR007647	RNA polymerase Rpb2, domain 5	Domain
E [auth B]	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
E [auth B]	IPR007642	RNA polymerase Rpb2, domain 2	Domain
E [auth B]	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
E [auth B]	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
E [auth B]	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
E [auth B]	IPR007645	RNA polymerase Rpb2, domain 3	Domain
E [auth B]	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
E [auth B]	IPR007641	RNA polymerase Rpb2, domain 7	Domain
F [auth C]	IPR011262	DNA-directed RNA polymerase, insert domain	Domain
F [auth C]	IPR011263	DNA-directed RNA polymerase, RpoA/D/Rpb3-type	Domain
F [auth C]	IPR050518	Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase Subunit	Family
F [auth C]	IPR022842	DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1	Family
F [auth C]	IPR036643	DNA-directed RNA polymerase, insert domain superfamily	Homologous Superfamily
F [auth C]	IPR001514	DNA-directed RNA polymerase, 30-40kDa subunit, conserved site	Conserved Site
F [auth C]	IPR036603	RNA polymerase, RBP11-like subunit	Homologous Superfamily
G [auth E]	IPR036710	RNA polymerase Rpb5, N-terminal domain superfamily	Homologous Superfamily
G [auth E]	IPR014381	DNA-directed RNA polymerase subunit Rpo5/Rpb5	Family
G [auth E]	IPR035913	RPB5-like RNA polymerase subunit superfamily	Homologous Superfamily
G [auth E]	IPR000783	RNA polymerase, subunit H/Rpb5 C-terminal	Domain
G [auth E]	IPR020608	RNA polymerase, subunit H/Rpb5, conserved site	Conserved Site
G [auth E]	IPR005571	RNA polymerase, Rpb5, N-terminal	Domain
H [auth F]	IPR028363	DNA-directed RNA polymerase, subunit RPB6	Family
H [auth F]	IPR006111	Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunit	Family
H [auth F]	IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	Conserved Site
H [auth F]	IPR006110	RNA polymerase, subunit omega/Rpo6/RPB6	Family
H [auth F]	IPR036161	RPB6/omega subunit-like superfamily	Homologous Superfamily
I [auth H]	IPR005570	DNA-directed RNA polymerases I, II, and III subunit RPABC3	Family
I [auth H]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily