8BYQ

RNA polymerase II pre-initiation complex with the proximal +1 nucleosome (PIC-Nuc10W)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
A [auth 0]SCOP2B SuperfamilyRecA-like P-loop NTPases 8054245 3002019 SCOP2B (2022-06-29)
J [auth 9]SCOP2B SuperfamilyCyclin-like 8037909 3000768 SCOP2B (2022-06-29)
J [auth 9]SCOP2B SuperfamilyCyclin-like 8037906 3000768 SCOP2B (2022-06-29)
N [auth D]SCOP2B SuperfamilyHRDC-like 8101241 3000132 SCOP2B (2022-06-29)
P [auth F]SCOP2B SuperfamilyRPB6/omega subunit-like 8106082 3000189 SCOP2B (2022-06-29)
T [auth J]SCOP2B SuperfamilyRNA polymerase subunit RPB10 8101287 3001213 SCOP2B (2022-06-29)
U [auth K]SCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8080728 3001655 SCOP2B (2022-06-29)
V [auth L]SCOP2B SuperfamilyRNA polymerase subunits 8103068 3001823 SCOP2B (2022-06-29)
W [auth M]SCOP2B SuperfamilyCyclin-like 8043880 3000768 SCOP2B (2022-06-29)
W [auth M]SCOP2B SuperfamilyCyclin-like 8043882 3000768 SCOP2B (2022-06-29)
Y [auth O]SCOP2B SuperfamilyTATA-box binding protein-like 8036293 3000705 SCOP2B (2022-06-29)
Y [auth O]SCOP2B SuperfamilyTATA-box binding protein-like 8036295 3000705 SCOP2B (2022-06-29)
AA [auth R]SCOP2B SuperfamilyRap30/74 heterodimerisation domain-like 8003550 3000142 SCOP2B (2022-06-29)
AA [auth R]SCOP2B SuperfamilyWinged helix DNA-binding domain 8003005 3000034 SCOP2B (2022-06-29)
CA [auth U]SCOP2B SuperfamilyTranscription factor IIA (TFIIA), beta-barrel domain 8037002 3001281 SCOP2B (2022-06-29)
CA [auth U]SCOP2B SuperfamilyTranscription factor IIA (TFIIA), alpha-helical domain 8037001 3001887 SCOP2B (2022-06-29)
C [auth 2]SCOP2B SuperfamilyBSD domain-like 8039783 3001039 SCOP2B (2022-06-29)
DA [auth V]SCOP2B SuperfamilyTranscription factor IIA (TFIIA), beta-barrel domain 8037007 3001281 SCOP2B (2022-06-29)
DA [auth V]SCOP2B SuperfamilyTranscription factor IIA (TFIIA), alpha-helical domain 8037005 3001887 SCOP2B (2022-06-29)
EA [auth W]SCOP2B SuperfamilyZinc beta-ribbon 8043056 3001238 SCOP2B (2022-06-29)
FA [auth X]SCOP2B SuperfamilyWinged helix DNA-binding domain 8003067 3000034 SCOP2B (2022-06-29)
GA [auth a]SCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
KA [auth e]SCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
HA [auth b]SCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
LA [auth f]SCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
IA [auth c]SCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
MA [auth g]SCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
JA [auth d]SCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
NA [auth h]SCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
E [auth 4]SCOP2B SuperfamilyCysteine-rich domain 8033482 3001452 SCOP2B (2022-06-29)
E [auth 4]SCOP2B SuperfamilyvWA-like 8057086 3000832 SCOP2B (2022-06-29)
F [auth 5]SCOP2B SuperfamilyvWA-like 8054198 3000832 SCOP2B (2022-06-29)
G [auth 6]SCOP2B SuperfamilyTFB5-like 8034306 3000733 SCOP2B (2022-06-29)
H [auth 7]SCOP2B SuperfamilyRING/U-box like 8039298 3000160 SCOP2B (2022-06-29)
I [auth 8]SCOP2B SuperfamilyProtein kinase-like (PK-like) 8042855 3000066 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
B [auth 1]F_UNCLASSIFIEDe8byq13 A: a+b two layersX: XPD arch domain (From Topology)H: XPD arch domain (From Topology)T: XPD arch domainF: F_UNCLASSIFIEDECOD (1.6)
B [auth 1]F_UNCLASSIFIEDe8byq11 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA2 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA3 A: a+b two layersX: 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-polymeraseF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA6 A: a+b two layersX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA8 A: a+b two layersX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA7 A: a+b complex topologyX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA1 A: a+b complex topologyX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA4 A: a+b complex topologyX: helical domain in yeast RNA-polymerasesH: third helical domain in yeast RNA-polymerase II beta-prime subunit (From Topology)T: third helical domain in yeast RNA-polymerase II beta-prime subunitF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA9 A: a+b complex topologyX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
K [auth A]F_UNCLASSIFIEDe8byqA5 A: a+b complex topologyX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
M [auth C]F_UNCLASSIFIEDe8byqC2 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: F_UNCLASSIFIEDECOD (1.6)
M [auth C]F_UNCLASSIFIEDe8byqC1 A: a+b complex topologyX: Ribosomal protein TL5/L25 C-terminal domain-likeH: Insert subdomain of RNA polymerase alpha subunit (From Topology)T: Insert subdomain of RNA polymerase alpha subunitF: F_UNCLASSIFIEDECOD (1.6)
J [auth 9]F_UNCLASSIFIEDe8byq92 A: alpha arraysX: HTHH: HTHT: Cyclin-likeF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB5 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB7 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB1 A: a+b complex topologyX: 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-polymeraseF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB4 A: a+b complex topologyX: 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-polymeraseF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB3 A: a+b complex topologyX: 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-polymeraseF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB2 A: a+b complex topologyX: 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-polymeraseF: F_UNCLASSIFIEDECOD (1.6)
L [auth B]F_UNCLASSIFIEDe8byqB6 A: a+b complex topologyX: 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 subunitF: F_UNCLASSIFIEDECOD (1.6)
N [auth D]F_UNCLASSIFIEDe8byqD1 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: F_UNCLASSIFIEDECOD (1.6)
O [auth E]F_UNCLASSIFIEDe8byqE1 A: a+b two layersX: RPB5-like RNA polymerase subunit (From Topology)H: RPB5-like RNA polymerase subunit (From Topology)T: RPB5-like RNA polymerase subunitF: F_UNCLASSIFIEDECOD (1.6)
O [auth E]F_UNCLASSIFIEDe8byqE2 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: Eukaryotic RPB5 N-terminal domain (From Topology)T: Eukaryotic RPB5 N-terminal domainF: F_UNCLASSIFIEDECOD (1.6)
P [auth F]F_UNCLASSIFIEDe8byqF1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RPB6F: F_UNCLASSIFIEDECOD (1.6)
Q [auth G]F_UNCLASSIFIEDe8byqG2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: F_UNCLASSIFIEDECOD (1.6)
Q [auth G]F_UNCLASSIFIEDe8byqG1 A: a+b two layersX: Dodecin subunit-likeH: Flavin-binding protein dodecin-like (From Topology)T: Flavin-binding protein dodecin-likeF: F_UNCLASSIFIEDECOD (1.6)
R [auth H]F_UNCLASSIFIEDe8byqH1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: F_UNCLASSIFIEDECOD (1.6)
S [auth I]F_UNCLASSIFIEDe8byqI1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
T [auth J]F_UNCLASSIFIEDe8byqJ1 A: alpha arraysX: HTHH: RPB10 (From Topology)T: RPB10F: F_UNCLASSIFIEDECOD (1.6)
U [auth K]F_UNCLASSIFIEDe8byqK1 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: F_UNCLASSIFIEDECOD (1.6)
V [auth L]F_UNCLASSIFIEDe8byqL1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
W [auth M]F_UNCLASSIFIEDe8byqM3 A: alpha arraysX: HTHH: HTHT: Cyclin-likeF: F_UNCLASSIFIEDECOD (1.6)
W [auth M]F_UNCLASSIFIEDe8byqM1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
Y [auth O]F_UNCLASSIFIEDe8byqO1 A: a+b two layersX: TBP-likeH: TATA-box binding protein-like (From Topology)T: TATA-box binding protein-likeF: F_UNCLASSIFIEDECOD (1.6)
Z [auth Q]F_UNCLASSIFIEDe8byqQ1 A: beta complex topologyX: triple barrel (From Homology)H: triple barrelT: Rap30/74 interaction domains-likeF: F_UNCLASSIFIEDECOD (1.6)
CA [auth U]F_UNCLASSIFIEDe8byqU1 A: beta duplicates or obligate multimersX: Transcription factor IIA (TFIIA), beta-barrel domain (From Topology)H: Transcription factor IIA (TFIIA), beta-barrel domain (From Topology)T: Transcription factor IIA (TFIIA), beta-barrel domainF: F_UNCLASSIFIEDECOD (1.6)
CA [auth U]F_UNCLASSIFIEDe8byqU2 A: alpha duplicates or obligate multimersX: TFIIA, alpha-helical domain (From Topology)H: TFIIA, alpha-helical domain (From Topology)T: TFIIA, alpha-helical domainF: F_UNCLASSIFIEDECOD (1.6)
DA [auth V]F_UNCLASSIFIEDe8byqV1 A: beta duplicates or obligate multimersX: Transcription factor IIA (TFIIA), beta-barrel domain (From Topology)H: Transcription factor IIA (TFIIA), beta-barrel domain (From Topology)T: Transcription factor IIA (TFIIA), beta-barrel domainF: F_UNCLASSIFIEDECOD (1.6)
DA [auth V]F_UNCLASSIFIEDe8byqV2 A: alpha duplicates or obligate multimersX: TFIIA, alpha-helical domain (From Topology)H: TFIIA, alpha-helical domain (From Topology)T: TFIIA, alpha-helical domainF: F_UNCLASSIFIEDECOD (1.6)
EA [auth W]F_UNCLASSIFIEDe8byqW2 A: alpha arraysX: HTHH: HTHT: wingedF: F_UNCLASSIFIEDECOD (1.6)
EA [auth W]F_UNCLASSIFIEDe8byqW1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
FA [auth X]F_UNCLASSIFIEDe8byqX1 A: alpha arraysX: HTHH: HTHT: wingedF: F_UNCLASSIFIEDECOD (1.6)
GA [auth a]F_UNCLASSIFIEDe8byqa1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
KA [auth e]F_UNCLASSIFIEDe8byqe1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
HA [auth b]F_UNCLASSIFIEDe8byqb1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
LA [auth f]F_UNCLASSIFIEDe8byqf1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
IA [auth c]F_UNCLASSIFIEDe8byqc1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
MA [auth g]F_UNCLASSIFIEDe8byqg1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
JA [auth d]F_UNCLASSIFIEDe8byqd1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
NA [auth h]F_UNCLASSIFIEDe8byqh1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: F_UNCLASSIFIEDECOD (1.6)
F [auth 5]F_UNCLASSIFIEDe8byq52 A: a/b three-layered sandwichesX: HAD domain-likeH: HAD domain-relatedT: vWA-likeF: F_UNCLASSIFIEDECOD (1.6)
F [auth 5]F_UNCLASSIFIEDe8byq51 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: F_UNCLASSIFIEDECOD (1.6)
G [auth 6]F_UNCLASSIFIEDe8byq61 A: a+b complex topologyX: TFB5-related (From Topology)H: TFB5-related (From Topology)T: TFB5-relatedF: F_UNCLASSIFIEDECOD (1.6)
I [auth 8]F_UNCLASSIFIEDe8byq81 A: a+b complex topologyX: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)H: Protein kinase/SAICAR synthase/ATP-graspT: Protein kinaseF: F_UNCLASSIFIEDECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth 0]PF13625Helicase conserved C-terminal domain (Helicase_C_3)Helicase conserved C-terminal domainThis domain family is found in a wide variety of helicases and helicase-related proteins.Domain
A [auth 0]PF04851Type III restriction enzyme, res subunit (ResIII)Type III restriction enzyme, res subunit- Family
A [auth 0]PF16203ERCC3/RAD25/XPB C-terminal helicase (ERCC3_RAD25_C)ERCC3/RAD25/XPB C-terminal helicaseThis is the C-terminal helicase domain of ERCC3, RAD25 and XPB helicases [1].Domain
B [auth 1]PF13307Helicase C-terminal domain (Helicase_C_2)Helicase C-terminal domainThis domain is found at the C-terminus of DEAD-box helicases.Domain
B [auth 1]PF06777Helical and beta-bridge domain (HBB)Helical and beta-bridge domainHBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein ...HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein verifies the presence of damage to DNA and allows DNA repair to proceed. XPD is an assembly of several domains to form a doughnut-shaped molecule that is able to separate two DNA strands and scan the DNA for damage. HBB helps to form the overall DNA-clamping architecture [1]. This family represents a conserved region within a number of eukaryotic DNA repair helicases (EC:3.6.1.-).
Domain
B [auth 1]PF06733DEAD_2 (DEAD_2)DEAD_2- Family
D [auth 3]PF03849Transcription factor Tfb2 (Tfb2)Transcription factor Tfb2- Family
D [auth 3]PF18307Transcription factor Tfb2 (p52) C-terminal domain (Tfb2_C)Transcription factor Tfb2 (p52) C-terminal domainThis is the C-terminal domain of Transcription factor Tfb2 present in Saccharomyces cerevisiae. Tfb2 is referred to as p52 in humans. The interaction between p8-Tfb5 and p52-Tfb2 has a key role in the maintenance of the transcription factor TFIIH arc ...This is the C-terminal domain of Transcription factor Tfb2 present in Saccharomyces cerevisiae. Tfb2 is referred to as p52 in humans. The interaction between p8-Tfb5 and p52-Tfb2 has a key role in the maintenance of the transcription factor TFIIH architecture and TFIIHs function in nucleotide-excision repair (NER) pathway. The C-terminal domain of Tfb2 is thought to have a crucial role in DNA repair [1].
Domain
K [auth A]PF00623RNA polymerase Rpb1, domain 2 (RNA_pol_Rpb1_2)RNA polymerase Rpb1, domain 2RNA 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
K [auth A]PF04990RNA polymerase Rpb1, domain 7 (RNA_pol_Rpb1_7)RNA polymerase Rpb1, domain 7RNA 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
K [auth A]PF05000RNA polymerase Rpb1, domain 4 (RNA_pol_Rpb1_4)RNA polymerase Rpb1, domain 4RNA 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
K [auth A]PF04983RNA polymerase Rpb1, domain 3 (RNA_pol_Rpb1_3)RNA polymerase Rpb1, domain 3RNA 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
K [auth A]PF04992RNA polymerase Rpb1, domain 6 (RNA_pol_Rpb1_6)RNA polymerase Rpb1, domain 6RNA 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
K [auth A]PF04998RNA polymerase Rpb1, domain 5 (RNA_pol_Rpb1_5)RNA polymerase Rpb1, domain 5RNA 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
K [auth A]PF04997RNA polymerase Rpb1, domain 1 (RNA_pol_Rpb1_1)RNA polymerase Rpb1, domain 1RNA 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
M [auth C]PF01193RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L)RNA polymerase Rpb3/Rpb11 dimerisation domainThe 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
M [auth C]PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
M [auth C]PF01000RNA polymerase Rpb3/RpoA insert domain (RNA_pol_A_bac)RNA polymerase Rpb3/RpoA insert domainMembers of this family include: alpha subunit from eubacteria alpha subunits from chloroplasts Rpb3 subunits from eukaryotes RpoD subunits from archaealDomain
J [auth 9]PF00134Cyclin, N-terminal domain (Cyclin_N)Cyclin, N-terminal domainCyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins [4]. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.Domain
J [auth 9]PF16899Cyclin C-terminal domain (Cyclin_C_2)Cyclin C-terminal domainCyclins contain two domains of similar all-alpha fold, this family corresponds with the C-terminal domain of some cyclins including cyclin C and cyclin H [1].Domain
L [auth B]PF04561RNA polymerase Rpb2, domain 2 (RNA_pol_Rpb2_2)RNA polymerase Rpb2, domain 2RNA 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
L [auth B]PF04560RNA polymerase Rpb2, domain 7 (RNA_pol_Rpb2_7)RNA polymerase Rpb2, domain 7RNA 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
L [auth B]PF04565RNA polymerase Rpb2, domain 3 (RNA_pol_Rpb2_3)RNA polymerase Rpb2, domain 3RNA 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
L [auth B]PF04566RNA polymerase Rpb2, domain 4 (RNA_pol_Rpb2_4)RNA polymerase Rpb2, domain 4RNA 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
L [auth B]PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
L [auth B]PF15511Centromere kinetochore component CENP-T histone fold (CENP-T_C)Centromere kinetochore component CENP-T histone foldCENP-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
L [auth B]PF00562RNA polymerase Rpb2, domain 6 (RNA_pol_Rpb2_6)RNA polymerase Rpb2, domain 6RNA 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
L [auth B]PF04567RNA polymerase Rpb2, domain 5 (RNA_pol_Rpb2_5)RNA polymerase Rpb2, domain 5RNA 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
N [auth D]PF03874RNA polymerase Rpb4 (RNA_pol_Rpb4)RNA polymerase Rpb4- Family
O [auth E]PF01191RNA polymerase Rpb5, C-terminal domain (RNA_pol_Rpb5_C)RNA polymerase Rpb5, C-terminal domainThe assembly domain of Rpb5 [1]. The archaeal equivalent to this domain is subunit H. Subunit H lacks the N-terminal domain.Domain
O [auth E]PF03871RNA polymerase Rpb5, N-terminal domain (RNA_pol_Rpb5_N)RNA polymerase Rpb5, N-terminal domainRpb5 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
P [auth F]PF01192RNA polymerase Rpb6 (RNA_pol_Rpb6)RNA polymerase Rpb6- Family
P [auth F]PF15511Centromere kinetochore component CENP-T histone fold (CENP-T_C)Centromere kinetochore component CENP-T histone foldCENP-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
Q [auth G]PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
Q [auth G]PF03876SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 (SHS2_Rpb7-N)SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397Rpb7 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]PF00575S1 RNA binding domain (S1)S1 RNA binding domainThe 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 H]PF03870RNA polymerase Rpb8 (RNA_pol_Rpb8)RNA polymerase Rpb8- Family
S [auth I]PF02150RNA polymerases M/15 Kd subunit (RNA_POL_M_15KD)RNA polymerases M/15 Kd subunit- Domain
S [auth I]PF01096Transcription factor S-II (TFIIS) (TFIIS_C)Transcription factor S-II (TFIIS)- Domain
T [auth J]PF01194RNA polymerases N / 8 kDa subunit (RNA_pol_N)RNA polymerases N / 8 kDa subunit- Domain
U [auth K]PF13656RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L_2)RNA polymerase Rpb3/Rpb11 dimerisation domainThe 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
V [auth L]PF03604DNA directed RNA polymerase, 7 kDa subunit (DNA_RNApol_7kD)DNA directed RNA polymerase, 7 kDa subunit- Domain
W [auth M]PF00382Transcription factor TFIIB repeat (TFIIB)Transcription factor TFIIB repeat- Domain
Y [auth O]PF00352Transcription factor TFIID (or TATA-binding protein, TBP) (TBP)Transcription factor TFIID (or TATA-binding protein, TBP)- Domain
AA [auth R]PF02270TFIIF, beta subunit HTH domain (TFIIF_beta)TFIIF, beta subunit HTH domainAccurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which ...Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter.
Domain
AA [auth R]PF17683TFIIF, beta subunit N-terminus (TFIIF_beta_N)TFIIF, beta subunit N-terminus- Family
CA [auth U]PF03153Transcription factor IIA, alpha/beta subunit (TFIIA)Transcription factor IIA, alpha/beta subunit- Family
DA [auth V]PF02751Transcription initiation factor IIA, gamma subunit (TFIIA_gamma_C)Transcription initiation factor IIA, gamma subunitAccurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA b ...Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA box. The C-terminal domain of the gamma subunit is a 12 stranded beta-barrel.
Domain
DA [auth V]PF02268Transcription initiation factor IIA, gamma subunit, helical domain (TFIIA_gamma_N)Transcription initiation factor IIA, gamma subunit, helical domainAccurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA ...Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIA (TFIIA) is a multimeric protein which facilitates the binding of TFIID to the TATA box. The N-terminal domain of the gamma subunit is a 4 helix bundle.
Domain
EA [auth W]PF08271TFIIB zinc-binding (TF_Zn_Ribbon)TFIIB zinc-bindingThe transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ...The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure [1].
Domain
EA [auth W]PF02002TFIIE alpha subunit (TFIIE_alpha)TFIIE alpha subunit- Family
FA [auth X]PF18121TFA2 Winged helix domain 2 (TFA2_Winged_2)TFA2 Winged helix domain 2This is the second winged helix domain can be found in TFA2 proteins present in Saccharomyces cerevisiae. In form 2, the domain interacts directly with Rad3, a DNA helicase [1].Domain
FA [auth X]PF02186TFIIE beta subunit core domain (TFIIE_beta)TFIIE beta subunit core domainGeneral transcription factor TFIIE consists of two subunits, TFIIE alpha Pfam:PF02002 and TFIIE beta. TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymer ...General transcription factor TFIIE consists of two subunits, TFIIE alpha Pfam:PF02002 and TFIIE beta. TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The structure of the DNA binding core region has been solved [1] and has a winged helix fold.
Domain
E [auth 4]PF04056Ssl1-like (Ssl1)Ssl1-like- Family
E [auth 4]PF07975TFIIH C1-like domain (C1_4)TFIIH C1-like domainThe carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD ...The carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C (Pfam:PF00130) [1].
Domain
F [auth 5]PF03850Transcription factor Tfb4 (Tfb4)Transcription factor Tfb4This family appears to be distantly related to the VWA domain.Domain
H [auth 7]PF17121Zinc finger, C3HC4 type (RING finger) (zf-C3HC4_5)Zinc finger, C3HC4 type (RING finger)- Domain
H [auth 7]PF06391CDK-activating kinase assembly factor MAT1 (MAT1)CDK-activating kinase assembly factor MAT1- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 0]General transcription and DNA repair factor IIH helicase subunit XPB
B [auth 1]TFIIH basal transcription factor complex helicase XPD subunit
D [auth 3]General transcription factor IIH subunit 4
K [auth A]DNA-directed RNA polymerase subunit -
M [auth C]DNA-directed RNA polymerase II subunit RPB3
J [auth 9]Cyclin-H
L [auth B]DNA-directed RNA polymerase subunit beta
N [auth D]RNA polymerase II subunit D
O [auth E]DNA-directed RNA polymerase II subunit E
P [auth F]DNA-directed RNA polymerase II subunit F
Q [auth G]DNA-directed RNA polymerase II subunit RPB7
R [auth H]DNA-directed RNA polymerases I, II, and III subunit RPABC3
S [auth I]DNA-directed RNA polymerase II subunit RPB9
T [auth J]DNA-directed RNA polymerases I, II, and III subunit RPABC5
U [auth K]DNA-directed RNA polymerase II subunit RPB11-a -
V [auth L]RNA polymerase II subunit K
W [auth M]Transcription initiation factor IIB
X [auth N]Non-template DNA---
Y [auth O]TATA-box-binding protein
Z [auth Q]General transcription factor IIF subunit 1
AA [auth R]General transcription factor IIF subunit 2
BA [auth T]Template DNA---
CA [auth U]Transcription initiation factor IIA subunit 1
C [auth 2]General transcription factor IIH subunit 1
DA [auth V]Transcription initiation factor IIA subunit 2
EA [auth W]General transcription factor IIE subunit 1
FA [auth X]Transcription initiation factor IIE subunit beta
GA [auth a],
KA [auth e]
Histone H3.2 -
HA [auth b],
LA [auth f]
Histone H4
IA [auth c],
MA [auth g]
Histone H2A type 1 -
JA [auth d],
NA [auth h]
Histone H2B 1.1 -
E [auth 4]General transcription factor IIH subunit 2
F [auth 5]General transcription factor IIH subunit 3
G [auth 6]General transcription factor IIH subunit 5-
H [auth 7]CDK-activating kinase assembly factor MAT1
I [auth 8]Cyclin-dependent kinase 7

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth 0]IPR032830Helicase XPB/Ssl2, N-terminal domainDomain
A [auth 0]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
A [auth 0]IPR006935Helicase/UvrB, N-terminalDomain
A [auth 0]IPR001650Helicase, C-terminal domain-likeDomain
A [auth 0]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
A [auth 0]IPR032438ERCC3/RAD25/XPB helicase, C-terminal domainDomain
A [auth 0]IPR001161Helicase XPB/Ssl2Family
A [auth 0]IPR050615ATP-dependent DNA HelicaseFamily
B [auth 1]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
B [auth 1]IPR006554Helicase-like, DEXD box c2 typeDomain
B [auth 1]IPR010614RAD3-like helicase, DEADDomain
B [auth 1]IPR001945RAD3/XPDFamily
B [auth 1]IPR013020ATP-dependent helicase Rad3/Chl1-likeFamily
B [auth 1]IPR010643Helical and beta-bridge domainDomain
B [auth 1]IPR045028Helicase superfamily 1/2, DinG/Rad3-likeFamily
B [auth 1]IPR002464DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved siteConserved Site
B [auth 1]IPR006555ATP-dependent helicase, C-terminalDomain
B [auth 1]IPR014013Helicase superfamily 1/2, ATP-binding domain, DinG/Rad3-typeDomain
D [auth 3]IPR040662Transcription factor Tfb2, C-terminal domainDomain
D [auth 3]IPR004598Transcription factor TFIIH subunit p52/Tfb2Family
K [auth A]IPR007066RNA polymerase Rpb1, domain 3Domain
K [auth A]IPR007081RNA polymerase Rpb1, domain 5Domain
K [auth A]IPR007073RNA polymerase Rpb1, domain 7Domain
K [auth A]IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
K [auth A]IPR042102RNA polymerase Rpb1, domain 3 superfamilyHomologous Superfamily
K [auth A]IPR007075RNA polymerase Rpb1, domain 6Domain
K [auth A]IPR000684RNA polymerase II, heptapeptide repeat, eukaryoticRepeat
K [auth A]IPR007083RNA polymerase Rpb1, domain 4Domain
K [auth A]IPR038593RNA polymerase Rpb1, domain 7 superfamilyHomologous Superfamily
K [auth A]IPR000722RNA polymerase, alpha subunitDomain
K [auth A]IPR044893RNA polymerase Rpb1, clamp domain superfamilyHomologous Superfamily
K [auth A]IPR038120RNA polymerase Rpb1, funnel domain superfamilyHomologous Superfamily
K [auth A]IPR006592RNA polymerase, N-terminalDomain
K [auth A]IPR007080RNA polymerase Rpb1, domain 1Domain
M [auth C]IPR011262DNA-directed RNA polymerase, insert domainDomain
M [auth C]IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typeDomain
M [auth C]IPR050518Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase SubunitFamily
M [auth C]IPR022842DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1Family
M [auth C]IPR036643DNA-directed RNA polymerase, insert domain superfamilyHomologous Superfamily
M [auth C]IPR001514DNA-directed RNA polymerase, 30-40kDa subunit, conserved siteConserved Site
M [auth C]IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
J [auth 9]IPR031658Cyclin, C-terminal domain 2Domain
J [auth 9]IPR006671Cyclin, N-terminalDomain
J [auth 9]IPR027081CyclinH/Ccl1Family
J [auth 9]IPR036915Cyclin-like superfamilyHomologous Superfamily
J [auth 9]IPR043198Cyclin/Cyclin-like subunit Ssn8Family
J [auth 9]IPR013763Cyclin-like domainDomain
L [auth B]IPR007642RNA polymerase Rpb2, domain 2Domain
L [auth B]IPR015712DNA-directed RNA polymerase, subunit 2Family
L [auth B]IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
L [auth B]IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
L [auth B]IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
L [auth B]IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
L [auth B]IPR007645RNA polymerase Rpb2, domain 3Domain
L [auth B]IPR007646RNA polymerase Rpb2, domain 4Domain
L [auth B]IPR007647RNA polymerase Rpb2, domain 5Domain
L [auth B]IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
L [auth B]IPR007644RNA polymerase, beta subunit, protrusionDomain
L [auth B]IPR007641RNA polymerase Rpb2, domain 7Domain
N [auth D]IPR005574RNA polymerase subunit Rpb4/RPC9Family
N [auth D]IPR010997HRDC-like superfamilyHomologous Superfamily
N [auth D]IPR006590RNA polymerase Rpb4/RPC9, coreDomain
N [auth D]IPR038324Rpb4/RPC9 superfamilyHomologous Superfamily
N [auth D]IPR045222DNA-directed RNA polymerase II subunit Rpb4-likeFamily
O [auth E]IPR014381DNA-directed RNA polymerase subunit Rpo5/Rpb5Family
O [auth E]IPR036710RNA polymerase Rpb5, N-terminal domain superfamilyHomologous Superfamily
O [auth E]IPR035913RPB5-like RNA polymerase subunit superfamilyHomologous Superfamily
O [auth E]IPR000783RNA polymerase, subunit H/Rpb5 C-terminalDomain
O [auth E]IPR020608RNA polymerase, subunit H/Rpb5, conserved siteConserved Site
O [auth E]IPR005571RNA polymerase, Rpb5, N-terminalDomain
P [auth F]IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved siteConserved Site
P [auth F]IPR036161RPB6/omega subunit-like superfamilyHomologous Superfamily
P [auth F]IPR028363DNA-directed RNA polymerase, subunit RPB6Family
P [auth F]IPR006110RNA polymerase, subunit omega/Rpo6/RPB6Family
P [auth F]IPR006111Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunitFamily
Q [auth G]IPR003029S1 domainDomain
Q [auth G]IPR045113RNA polymerase subunit Rpb7-likeFamily
Q [auth G]IPR005576RNA polymerase Rpb7-like , N-terminalDomain
Q [auth G]IPR036898RNA polymerase Rpb7-like, N-terminal domain superfamilyHomologous Superfamily
Q [auth G]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
R [auth H]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
R [auth H]IPR005570DNA-directed RNA polymerases I, II, and III subunit RPABC3Family
S [auth I]IPR012164DNA-directed RNA polymerase subunit/transcription factor SFamily
S [auth I]IPR001222Zinc finger, TFIIS-typeDomain
S [auth I]IPR034012Pol II subunit B9, C-terminal zinc ribbonDomain
S [auth I]IPR019761DNA-directed RNA polymerase M, 15kDa subunit, conserved siteConserved Site
S [auth I]IPR001529DNA-directed RNA polymerase, M/15kDa subunitDomain
T [auth J]IPR023580RNA polymerase subunit RPB10Homologous Superfamily
T [auth J]IPR020789RNA polymerases, subunit N, zinc binding siteBinding Site
T [auth J]IPR000268DNA-directed RNA polymerase subunit RPABC5/Rpb10Family
U [auth K]IPR022905DNA-directed RNA polymerase subunit Rpo11-likeFamily
U [auth K]IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainDomain
U [auth K]IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
U [auth K]IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved siteConserved Site
U [auth K]IPR037685RNA polymerase RBP11Family
V [auth L]IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4Family
V [auth L]IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4Homologous Superfamily
V [auth L]IPR039747DNA-directed RNA polymerases I, II, and III subunit RPABC4Family
W [auth M]IPR000812Transcription factor TFIIBFamily
W [auth M]IPR013137Zinc finger, TFIIB-typeDomain
W [auth M]IPR023486Transcription factor TFIIB, conserved siteConserved Site
W [auth M]IPR013150Transcription factor TFIIB, cyclin-like domainDomain
W [auth M]IPR036915Cyclin-like superfamilyHomologous Superfamily
W [auth M]IPR013763Cyclin-like domainDomain
Y [auth O]IPR030491TATA-box binding protein, conserved siteConserved Site
Y [auth O]IPR000814TATA-box binding proteinFamily
Y [auth O]IPR012295TBP domain superfamilyHomologous Superfamily
Y [auth O]IPR033710TATA-box binding protein, eukaryoticFamily
Z [auth Q]IPR008851Transcription initiation factor IIF, alpha subunitFamily
Z [auth Q]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
Z [auth Q]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
Z [auth Q]IPR011039Transcription Factor IIF, Rap30/Rap74, interactionHomologous Superfamily
AA [auth R]IPR003196Transcription initiation factor IIF, beta subunitFamily
AA [auth R]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
AA [auth R]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
AA [auth R]IPR040450TFIIF beta subunit, HTH domainDomain
AA [auth R]IPR040504TFIIF, beta subunit, N-terminalDomain
AA [auth R]IPR011039Transcription Factor IIF, Rap30/Rap74, interactionHomologous Superfamily
CA [auth U]IPR004855Transcription factor IIA, alpha/beta subunitFamily
CA [auth U]IPR009088Transcription factor IIA, beta-barrelHomologous Superfamily
C [auth 2]IPR013876TFIIH p62 subunit, N-terminalDomain
C [auth 2]IPR035925BSD domain superfamilyHomologous Superfamily
C [auth 2]IPR027079TFIIH subunit Tfb1/GTF2H1Family
C [auth 2]IPR011993PH-like domain superfamilyHomologous Superfamily
C [auth 2]IPR005607BSD domainDomain
DA [auth V]IPR015871Transcription initiation factor IIA, gamma subunit, C-terminalDomain
DA [auth V]IPR015872Transcription initiation factor IIA, gamma subunit, N-terminalDomain
DA [auth V]IPR009083Transcription factor IIA, alpha-helical domainHomologous Superfamily
DA [auth V]IPR009088Transcription factor IIA, beta-barrelHomologous Superfamily
DA [auth V]IPR003194Transcription initiation factor IIA, gamma subunitFamily
EA [auth W]IPR021600Transcription factor TFIIE alpha subunit, C-terminalDomain
EA [auth W]IPR024550TFIIEalpha/SarR/Rpc3 HTH domainDomain
EA [auth W]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
EA [auth W]IPR013137Zinc finger, TFIIB-typeDomain
EA [auth W]IPR039997Transcription factor EFamily
EA [auth W]IPR017919Transcription factor TFE/TFIIEalpha HTH domainDomain
EA [auth W]IPR002853Transcription initiation factor IIE subunit alpha, N-terminalDomain
FA [auth X]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
FA [auth X]IPR003166Transcription factor TFIIE beta subunit, DNA-binding domainDomain
FA [auth X]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
FA [auth X]IPR040501TFA2, Winged helix domain 2Domain
FA [auth X]IPR016656Transcription initiation factor TFIIE, beta subunitFamily
GA [auth a],
KA [auth e]
IPR009072Histone-foldHomologous Superfamily
GA [auth a],
KA [auth e]
IPR007125Histone H2A/H2B/H3Domain
GA [auth a],
KA [auth e]
IPR000164Histone H3/CENP-AFamily
HA [auth b],
LA [auth f]
IPR009072Histone-foldHomologous Superfamily
HA [auth b],
LA [auth f]
IPR001951Histone H4Family
HA [auth b],
LA [auth f]
IPR035425CENP-T/Histone H4, histone foldDomain
HA [auth b],
LA [auth f]
IPR019809Histone H4, conserved siteConserved Site
HA [auth b],
LA [auth f]
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
IA [auth c],
MA [auth g]
IPR009072Histone-foldHomologous Superfamily
IA [auth c],
MA [auth g]
IPR007125Histone H2A/H2B/H3Domain
IA [auth c],
MA [auth g]
IPR002119Histone H2AFamily
IA [auth c],
MA [auth g]
IPR032454Histone H2A, C-terminal domainDomain
IA [auth c],
MA [auth g]
IPR032458Histone H2A conserved siteConserved Site
JA [auth d],
NA [auth h]
IPR009072Histone-foldHomologous Superfamily
JA [auth d],
NA [auth h]
IPR007125Histone H2A/H2B/H3Domain
JA [auth d],
NA [auth h]
IPR000558Histone H2BFamily
E [auth 4]IPR007198Ssl1-likeDomain
E [auth 4]IPR012170TFIIH subunit Ssl1/p44Family
E [auth 4]IPR004595TFIIH C1-like domainDomain
E [auth 4]IPR013087Zinc finger C2H2-typeDomain
E [auth 4]IPR036465von Willebrand factor A-like domain superfamilyHomologous Superfamily
E [auth 4]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
E [auth 4]IPR002035von Willebrand factor, type ADomain
E [auth 4]IPR046349C1-like domain superfamilyHomologous Superfamily
F [auth 5]IPR004600TFIIH subunit Tfb4/GTF2H3Family
F [auth 5]IPR036465von Willebrand factor A-like domain superfamilyHomologous Superfamily
G [auth 6]IPR009400TFIIH subunit TTDA/Tfb5Family
G [auth 6]IPR035935TFB5-like superfamilyHomologous Superfamily
H [auth 7]IPR017907Zinc finger, RING-type, conserved siteConserved Site
H [auth 7]IPR004575Cdk-activating kinase assembly factor MAT1/Tfb3Family
H [auth 7]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
H [auth 7]IPR015877Cdk-activating kinase assembly factor MAT1, centreDomain
H [auth 7]IPR003903Ubiquitin interacting motifConserved Site
H [auth 7]IPR001841Zinc finger, RING-typeDomain
I [auth 8]IPR017441Protein kinase, ATP binding siteBinding Site
I [auth 8]IPR000719Protein kinase domainDomain
I [auth 8]IPR050108Cyclin-dependent kinaseFamily
I [auth 8]IPR037770Cyclin-dependent kinase 7Family
I [auth 8]IPR011009Protein kinase-like domain superfamilyHomologous Superfamily
I [auth 8]IPR008271Serine/threonine-protein kinase, active siteActive Site

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A [auth 0]PharosP19447
B [auth 1]PharosP18074
D [auth 3]PharosQ92759
J [auth 9]PharosP51946
W [auth M]PharosQ00403
Y [auth O]PharosP20226
AA [auth R]PharosP13984
CA [auth U]PharosP52655
C [auth 2]PharosP32780
DA [auth V]PharosP52657
EA [auth W]PharosP29083
FA [auth X]PharosP29084
F [auth 5]PharosQ13889
G [auth 6]PharosQ6ZYL4
H [auth 7]PharosP51948
I [auth 8]PharosP50613