8P4F

Structural insights into human co-transcriptional capping - structure 6


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
J [auth K]SCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8080728 3001655 SCOP2B (2022-06-29)
K [auth L]SCOP2B SuperfamilyRNA polymerase subunits 8103068 3001823 SCOP2B (2022-06-29)
O [auth Z]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8039849 3000334 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyRPB6/omega subunit-like 8106082 3000189 SCOP2B (2022-06-29)
I [auth J]SCOP2B SuperfamilyRNA polymerase subunit RPB10 8101287 3001213 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [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
K [auth L]PF03604DNA directed RNA polymerase, 7 kDa subunit (DNA_RNApol_7kD)DNA directed RNA polymerase, 7 kDa subunit- Domain
N [auth Y]PF06093Spt4/RpoE2 zinc finger (Spt4)Spt4/RpoE2 zinc fingerThis 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]PF03439Early 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]PF00467KOW motif (KOW)KOW motif- Family
P [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
P [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
Q [auth D]PF03874RNA polymerase Rpb4 (RNA_pol_Rpb4)RNA polymerase Rpb4- Family
R [auth O]PF01728FtsJ-like methyltransferase (FtsJ)FtsJ-like methyltransferase- Family
B [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
B [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
B [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
B [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
B [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
B [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
B [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
C [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
C [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
C [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
C [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
C [auth B]PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
C [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
C [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
D [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
D [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
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
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
PF01192RNA polymerase Rpb6 (RNA_pol_Rpb6)RNA polymerase Rpb6- Family
G [auth H]PF03870RNA polymerase Rpb8 (RNA_pol_Rpb8)RNA polymerase Rpb8- Family
H [auth I]PF02150RNA polymerases M/15 Kd subunit (RNA_POL_M_15KD)RNA polymerases M/15 Kd subunit- Domain
H [auth I]PF01096Transcription factor S-II (TFIIS) (TFIIS_C)Transcription factor S-II (TFIIS)- Domain
I [auth J]PF01194RNA polymerases N / 8 kDa subunit (RNA_pol_N)RNA polymerases N / 8 kDa subunit- Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth P]RNA (29-MER)---
J [auth K]DNA-directed RNA polymerase II subunit RPB11-a -
K [auth L]RNA polymerase II subunit K
L [auth N]DNA (38-MER)---
M [auth T]DNA (38-MER)---
N [auth Y]Transcription elongation factor SPT4
O [auth Z]Transcription elongation factor SPT5
P [auth G]DNA-directed RNA polymerase II subunit RPB7
Q [auth D]RNA polymerase II subunit D
R [auth O]Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1
B [auth A]DNA-directed RNA polymerase II subunit RPB1 -
C [auth B]DNA-directed RNA polymerase subunit beta
D [auth C]DNA-directed RNA polymerase II subunit RPB3
DNA-directed RNA polymerase II subunit E
DNA-directed RNA polymerases I, II, and III subunit RPABC2
G [auth H]DNA-directed RNA polymerases I, II, and III subunit RPABC3
H [auth I]DNA-directed RNA polymerase II subunit RPB9
I [auth J]DNA-directed RNA polymerases I, II, and III subunit RPABC5

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth K]IPR022905DNA-directed RNA polymerase subunit Rpo11-likeFamily
J [auth K]IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainDomain
J [auth K]IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
J [auth K]IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved siteConserved Site
J [auth K]IPR037685RNA polymerase RBP11Family
K [auth L]IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4Family
K [auth L]IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4Homologous Superfamily
K [auth L]IPR039747DNA-directed RNA polymerases I, II, and III subunit RPABC4Family
N [auth Y]IPR038510Spt4 superfamilyHomologous Superfamily
N [auth Y]IPR009287Transcription initiation Spt4Family
N [auth Y]IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4Homologous Superfamily
N [auth Y]IPR022800Spt4/RpoE2 zinc fingerDomain
O [auth Z]IPR041980Spt5, KOW domain repeat 6Domain
O [auth Z]IPR041976Spt5, KOW domain repeat 3Domain
O [auth Z]IPR039385NGN domain, eukaryoticDomain
O [auth Z]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
O [auth Z]IPR022581Spt5 transcription elongation factor, N-terminalDomain
O [auth Z]IPR024945Spt5 C-terminal domainDomain
O [auth Z]IPR006645NusG-like, N-terminalDomain
O [auth Z]IPR041975Spt5, KOW domain repeat 2Domain
O [auth Z]IPR039659Transcription elongation factor SPT5Family
O [auth Z]IPR036735NusG, N-terminal domain superfamilyHomologous Superfamily
O [auth Z]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
O [auth Z]IPR041973Spt5, KOW domain repeat 1Domain
O [auth Z]IPR005100NGN domainDomain
O [auth Z]IPR041977Spt5, KOW domain repeat 4Domain
O [auth Z]IPR017071Transcription elongation factor Spt5, eukaryoteFamily
O [auth Z]IPR005824KOWDomain
O [auth Z]IPR041978Spt5, KOW domain repeat 5Domain
P [auth G]IPR003029S1 domainDomain
P [auth G]IPR045113RNA polymerase subunit Rpb7-likeFamily
P [auth G]IPR005576RNA polymerase Rpb7-like , N-terminalDomain
P [auth G]IPR036898RNA polymerase Rpb7-like, N-terminal domain superfamilyHomologous Superfamily
P [auth G]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
Q [auth D]IPR005574RNA polymerase subunit Rpb4/RPC9Family
Q [auth D]IPR010997HRDC-like superfamilyHomologous Superfamily
Q [auth D]IPR006590RNA polymerase Rpb4/RPC9, coreDomain
Q [auth D]IPR038324Rpb4/RPC9 superfamilyHomologous Superfamily
Q [auth D]IPR045222DNA-directed RNA polymerase II subunit Rpb4-likeFamily
R [auth O]IPR025816RrmJ-type ribose 2-O-methyltransferase domainDomain
R [auth O]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
R [auth O]IPR002877Ribosomal RNA methyltransferase, FtsJ domainDomain
R [auth O]IPR001202WW domainDomain
R [auth O]IPR000467G-patch domainDomain
R [auth O]IPR050851mRNA Cap 2'-O-Ribose MethyltransferaseFamily
B [auth A]IPR007066RNA polymerase Rpb1, domain 3Domain
B [auth A]IPR007081RNA polymerase Rpb1, domain 5Domain
B [auth A]IPR007073RNA polymerase Rpb1, domain 7Domain
B [auth A]IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
B [auth A]IPR042102RNA polymerase Rpb1, domain 3 superfamilyHomologous Superfamily
B [auth A]IPR007075RNA polymerase Rpb1, domain 6Domain
B [auth A]IPR000684RNA polymerase II, heptapeptide repeat, eukaryoticRepeat
B [auth A]IPR007083RNA polymerase Rpb1, domain 4Domain
B [auth A]IPR038593RNA polymerase Rpb1, domain 7 superfamilyHomologous Superfamily
B [auth A]IPR000722RNA polymerase, alpha subunitDomain
B [auth A]IPR044893RNA polymerase Rpb1, clamp domain superfamilyHomologous Superfamily
B [auth A]IPR038120RNA polymerase Rpb1, funnel domain superfamilyHomologous Superfamily
B [auth A]IPR006592RNA polymerase, N-terminalDomain
B [auth A]IPR007080RNA polymerase Rpb1, domain 1Domain
C [auth B]IPR007642RNA polymerase Rpb2, domain 2Domain
C [auth B]IPR015712DNA-directed RNA polymerase, subunit 2Family
C [auth B]IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
C [auth B]IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
C [auth B]IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
C [auth B]IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
C [auth B]IPR007645RNA polymerase Rpb2, domain 3Domain
C [auth B]IPR007646RNA polymerase Rpb2, domain 4Domain
C [auth B]IPR007647RNA polymerase Rpb2, domain 5Domain
C [auth B]IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
C [auth B]IPR007644RNA polymerase, beta subunit, protrusionDomain
C [auth B]IPR007641RNA polymerase Rpb2, domain 7Domain
D [auth C]IPR011262DNA-directed RNA polymerase, insert domainDomain
D [auth C]IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typeDomain
D [auth C]IPR050518Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase SubunitFamily
D [auth C]IPR022842DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1Family
D [auth C]IPR036643DNA-directed RNA polymerase, insert domain superfamilyHomologous Superfamily
D [auth C]IPR001514DNA-directed RNA polymerase, 30-40kDa subunit, conserved siteConserved Site
D [auth C]IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
IPR014381DNA-directed RNA polymerase subunit Rpo5/Rpb5Family
IPR036710RNA polymerase Rpb5, N-terminal domain superfamilyHomologous Superfamily
IPR035913RPB5-like RNA polymerase subunit superfamilyHomologous Superfamily
IPR000783RNA polymerase, subunit H/Rpb5 C-terminalDomain
IPR020608RNA polymerase, subunit H/Rpb5, conserved siteConserved Site
IPR005571RNA polymerase, Rpb5, N-terminalDomain
IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved siteConserved Site
IPR036161RPB6/omega subunit-like superfamilyHomologous Superfamily
IPR028363DNA-directed RNA polymerase, subunit RPB6Family
IPR006110RNA polymerase, subunit omega/Rpo6/RPB6Family
IPR006111Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunitFamily
G [auth H]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
G [auth H]IPR005570DNA-directed RNA polymerases I, II, and III subunit RPABC3Family
H [auth I]IPR012164DNA-directed RNA polymerase subunit/transcription factor SFamily
H [auth I]IPR001222Zinc finger, TFIIS-typeDomain
H [auth I]IPR034012Pol II subunit B9, C-terminal zinc ribbonDomain
H [auth I]IPR019761DNA-directed RNA polymerase M, 15kDa subunit, conserved siteConserved Site
H [auth I]IPR001529DNA-directed RNA polymerase, M/15kDa subunitDomain
I [auth J]IPR023580RNA polymerase subunit RPB10Homologous Superfamily
I [auth J]IPR020789RNA polymerases, subunit N, zinc binding siteBinding Site
I [auth J]IPR000268DNA-directed RNA polymerase subunit RPABC5/Rpb10Family