Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
FSCOP2B SuperfamilySigma2 domain of RNA polymerase sigma factors 8038503 3001393 SCOP2B (2022-06-29)
LSCOP2B SuperfamilySigma2 domain of RNA polymerase sigma factors 8038503 3001393 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8035907 3001655 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyInsert subdomain of RNA polymerase alpha subunit 8037279 3001500 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyC-terminal domain of RNA polymerase alpha subunit 8042964 3000519 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8035907 3001655 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyInsert subdomain of RNA polymerase alpha subunit 8037279 3001500 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyInsert subdomain of RNA polymerase alpha subunit 8037279 3001500 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8035907 3001655 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyC-terminal domain of RNA polymerase alpha subunit 8042964 3000519 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyInsert subdomain of RNA polymerase alpha subunit 8037279 3001500 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8035907 3001655 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
IRNA_pol_Rpb2_6_3rde4mexI11 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb2_6_3rdECOD (1.6)
IPRK09603e4mexI8 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: PRK09603ECOD (1.6)
IRNA_pol_Rpb2_6_2nde4mexI12 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: RNA_pol_Rpb2_6_2ndECOD (1.6)
IRNA_pol_Rpb2_6_1ste4mexI4 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: RNA_pol_Rpb2_6_1stECOD (1.6)
IRNA_pol_Rpb2_6_2nd_2e4mexI5 A: a+b complex topologyX: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit (From Topology)H: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit (From Topology)T: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunitF: RNA_pol_Rpb2_6_2nd_2ECOD (1.6)
IRNA_pol_Rpb2_3e4mexI3 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: RNA_pol_Rpb2_3ECOD (1.6)
IRNA_pol_Rpb2_1e4mexI10 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: RNA_pol_Rpb2_1ECOD (1.6)
IRNA_pol_Rpb2_45e4mexI9 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: RNA_pol_Rpb2_45ECOD (1.6)
IRNA_pol_Rpb2_7e4mexI2 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: RNA_pol_Rpb2_7ECOD (1.6)
CRNA_pol_Rpb2_6_3rde4mexC11 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb2_6_3rdECOD (1.6)
CPRK09603e4mexC8 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: PRK09603ECOD (1.6)
CRNA_pol_Rpb2_6_2nde4mexC12 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: RNA_pol_Rpb2_6_2ndECOD (1.6)
CRNA_pol_Rpb2_6_1ste4mexC4 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: RNA_pol_Rpb2_6_1stECOD (1.6)
CRNA_pol_Rpb2_6_2nd_2e4mexC5 A: a+b complex topologyX: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit (From Topology)H: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit (From Topology)T: Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunitF: RNA_pol_Rpb2_6_2nd_2ECOD (1.6)
CRNA_pol_Rpb2_3e4mexC3 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: RNA_pol_Rpb2_3ECOD (1.6)
CRNA_pol_Rpb2_1e4mexC10 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: RNA_pol_Rpb2_1ECOD (1.6)
CRNA_pol_Rpb2_45e4mexC9 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: RNA_pol_Rpb2_45ECOD (1.6)
CRNA_pol_Rpb2_7e4mexC2 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: RNA_pol_Rpb2_7ECOD (1.6)
DRNA_pol_Rpb1_2e4mexD2 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb1_2ECOD (1.6)
DPRK00566_1ste4mexD6 A: alpha arraysX: inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit (From Topology)H: inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit (From Topology)T: inserted helical subdomain in bacterial RNA-polymerase beta-prime subunitF: PRK00566_1stECOD (1.6)
DPRK00566_2nde4mexD5 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: PRK00566_2ndECOD (1.6)
DPRK00566_3rde4mexD7 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: PRK00566_3rdECOD (1.6)
DRNA_pol_Rpb1_1e4mexD3 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: RNA_pol_Rpb1_1ECOD (1.6)
DRNA_pol_Rpb1_5_3rde4mexD4 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: RNA_pol_Rpb1_5_3rdECOD (1.6)
DRNA_pol_Rpb1_4e4mexD1 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: RNA_pol_Rpb1_4ECOD (1.6)
DRNA_pol_Rpb1_3e4mexD8 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: RNA_pol_Rpb1_3ECOD (1.6)
JRNA_pol_Rpb1_2e4mexJ6 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb1_2ECOD (1.6)
JPRK00566_1ste4mexJ3 A: alpha arraysX: inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit (From Topology)H: inserted helical subdomain in bacterial RNA-polymerase beta-prime subunit (From Topology)T: inserted helical subdomain in bacterial RNA-polymerase beta-prime subunitF: PRK00566_1stECOD (1.6)
JPRK00566_2nde4mexJ7 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: PRK00566_2ndECOD (1.6)
JPRK00566_3rde4mexJ4 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: PRK00566_3rdECOD (1.6)
JRNA_pol_Rpb1_1e4mexJ5 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: RNA_pol_Rpb1_1ECOD (1.6)
JRNA_pol_Rpb1_5_3rde4mexJ9 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: RNA_pol_Rpb1_5_3rdECOD (1.6)
JRNA_pol_Rpb1_4e4mexJ1 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: RNA_pol_Rpb1_4ECOD (1.6)
JRNA_pol_Rpb1_3e4mexJ8 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: RNA_pol_Rpb1_3ECOD (1.6)
ERNA_pol_Rpb6e4mexE1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RNA polymerase omega subunitF: RNA_pol_Rpb6ECOD (1.6)
KRNA_pol_Rpb6e4mexK1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RPB6F: RNA_pol_Rpb6ECOD (1.6)
FSigma70_r3e4mexF2 A: alpha arraysX: HTHH: HTHT: tri-helicalF: Sigma70_r3ECOD (1.6)
FSigma70_r4e4mexF1 A: alpha arraysX: HTHH: HTHT: tri-helicalF: Sigma70_r4ECOD (1.6)
FSigma70_r2_2e4mexF3 A: alpha complex topologyX: Sigma2 domain-likeH: Sigma2 domain of RNA polymerase sigma factors (From Topology)T: Sigma2 domain of RNA polymerase sigma factorsF: Sigma70_r2_2ECOD (1.6)
LSigma70_r3e4mexL2 A: alpha arraysX: HTHH: HTHT: tri-helicalF: Sigma70_r3ECOD (1.6)
LSigma70_r4e4mexL1 A: alpha arraysX: HTHH: HTHT: tri-helicalF: Sigma70_r4ECOD (1.6)
LSigma70_r2_2e4mexL3 A: alpha complex topologyX: Sigma2 domain-likeH: Sigma2 domain of RNA polymerase sigma factors (From Topology)T: Sigma2 domain of RNA polymerase sigma factorsF: Sigma70_r2_2ECOD (1.6)
ARNA_pol_A_CTDe4mexA1 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: RNA_pol_A_CTDECOD (1.6)
ARNA_pol_Le4mexA2 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_LECOD (1.6)
ARNA_pol_A_bace4mexA3 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: RNA_pol_A_bacECOD (1.6)
GRNA_pol_Le4mexG2 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_LECOD (1.6)
GRNA_pol_A_bace4mexG1 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: RNA_pol_A_bacECOD (1.6)
HRNA_pol_Le4mexH2 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_LECOD (1.6)
HRNA_pol_A_bace4mexH1 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: RNA_pol_A_bacECOD (1.6)
BRNA_pol_A_CTDe4mexB2 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: RNA_pol_A_CTDECOD (1.6)
BRNA_pol_Le4mexB3 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_LECOD (1.6)
BRNA_pol_A_bace4mexB1 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: RNA_pol_A_bacECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
I3.90.1110.10 Alpha Beta Alpha-Beta Complex Dna-directed Rna Polymerase Ii 140kd Polypeptide Chain: BCATH (utative)
I2.40.50.100 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domainCATH (utative)
I2.40.270.10 Mainly Beta Beta Barrel Dna-directed Rna Polymerase Ii 140kd Polypeptide Chain: BCATH (utative)
I2.40.50.150 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) RNA polymerase II, Rpb2 subunit, wall domainCATH (utative)
I6.10.140.1670 Special Helix non-globular Helix Hairpins CATH (utative)
C3.90.1110.10 Alpha Beta Alpha-Beta Complex Dna-directed Rna Polymerase Ii 140kd Polypeptide Chain: BCATH (4.3.0)
C2.30.150.10 Mainly Beta Roll Rna Polymerase Beta Subunit Chain: C, domain 4CATH (4.3.0)
C2.40.270.10 Mainly Beta Beta Barrel Dna-directed Rna Polymerase Ii 140kd Polypeptide Chain: BCATH (4.3.0)
C2.40.50.100 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domainCATH (4.3.0)
C2.40.50.150 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) RNA polymerase II, Rpb2 subunit, wall domainCATH (4.3.0)
C6.10.140.1670 Special Helix non-globular Helix Hairpins CATH (4.3.0)
D1.10.132.30 Mainly Alpha Orthogonal Bundle Topoisomerase I Chain A, domain 4CATH (utative)
J1.10.132.30 Mainly Alpha Orthogonal Bundle Topoisomerase I Chain A, domain 4CATH (utative)
E3.90.940.10 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RNA polymerase subunit, RPB6/omegaCATH (4.3.0)
K3.90.940.10 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit RNA polymerase subunit, RPB6/omegaCATH (4.3.0)
F1.10.601.10 Mainly Alpha Orthogonal Bundle RNA Polymerase Primary Sigma Factor RNA Polymerase Primary Sigma FactorCATH (4.3.0)
F1.10.10.10 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domainCATH (4.3.0)
L1.10.601.10 Mainly Alpha Orthogonal Bundle RNA Polymerase Primary Sigma Factor RNA Polymerase Primary Sigma FactorCATH (4.3.0)
L1.10.10.10 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domainCATH (4.3.0)
A3.30.1360.10 Alpha Beta 2-Layer Sandwich Gyrase A domain 2CATH (4.3.0)
A2.170.120.12 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit Chain A, domain 2CATH (4.3.0)
A1.10.150.20 Mainly Alpha Orthogonal Bundle DNA polymerase domain 1CATH (4.3.0)
G3.30.1360.10 Alpha Beta 2-Layer Sandwich Gyrase A domain 2CATH (4.3.0)
G2.170.120.12 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit Chain A, domain 2CATH (4.3.0)
H3.30.1360.10 Alpha Beta 2-Layer Sandwich Gyrase A domain 2CATH (4.3.0)
H2.170.120.12 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit Chain A, domain 2CATH (4.3.0)
B3.30.1360.10 Alpha Beta 2-Layer Sandwich Gyrase A domain 2CATH (4.3.0)
B2.170.120.12 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit Chain A, domain 2CATH (4.3.0)
B1.10.150.20 Mainly Alpha Orthogonal Bundle DNA polymerase domain 1CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C, I
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 ...Domain
C, I
PF10385RNA polymerase beta subunit external 1 domain (RNA_pol_Rpb2_45)RNA polymerase beta subunit external 1 domainRNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared with three in eukaryotes (not including mitochondrial or chloroplast polymerases). This domain in prokaryotes spans the gap between ...Domain
C, I
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 ...Domain
C, I
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 ...Domain
C, I
PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
C, I
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 ...Domain
D, J
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 ...Domain
D, J
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 ...Domain
D, J
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 ...Domain
D, J
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 ...Domain
D, J
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 dom ...Domain
E, K
PF01192RNA polymerase Rpb6 (RNA_pol_Rpb6)RNA polymerase Rpb6- Family
F, L
PF04539Sigma-70 region 3 (Sigma70_r3)Sigma-70 region 3- Family
F, L
PF00140Sigma-70 factor, region 1.2 (Sigma70_r1_2)Sigma-70 factor, region 1.2- Family
F, L
PF04542Sigma-70 region 2 (Sigma70_r2)Sigma-70 region 2Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA ...Domain
F, L
PF04545Sigma-70, region 4 (Sigma70_r4)Sigma-70, region 4Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [1]. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix fami ...Domain
F, L
PF04546Sigma-70, non-essential region (Sigma70_ner)Sigma-70, non-essential regionThe domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Domain
A, B, G, H
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 ...Domain
A, B, G, H
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 archaeal Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C, I
DNA-directed RNA polymerase subunit beta
D, J
DNA-directed RNA polymerase subunit beta'
E, K
DNA-directed RNA polymerase subunit omega
F, L
RNA polymerase sigma factor RpoD
M, N
Salinamide A---
A, B, G, H
DNA-directed RNA polymerase subunit alpha

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C, I
IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
C, I
IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
C, I
IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
C, I
IPR007642RNA polymerase Rpb2, domain 2Domain
C, I
IPR015712DNA-directed RNA polymerase, subunit 2Family
C, I
IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
C, I
IPR042107DNA-directed RNA polymerase, beta subunit, external 1 domain superfamilyHomologous Superfamily
C, I
IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
C, I
IPR007645RNA polymerase Rpb2, domain 3Domain
C, I
IPR019462DNA-directed RNA polymerase, beta subunit, external 1 domainDomain
C, I
IPR010243DNA-directed RNA polymerase beta subunit, bacterial-typeFamily
C, I
IPR007644RNA polymerase, beta subunit, protrusionDomain
C, I
IPR007641RNA polymerase Rpb2, domain 7Domain
D, J
IPR007081RNA polymerase Rpb1, domain 5Domain
D, J
IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
D, J
IPR007083RNA polymerase Rpb1, domain 4Domain
D, J
IPR044893RNA polymerase Rpb1, clamp domain superfamilyHomologous Superfamily
D, J
IPR006592RNA polymerase, N-terminalDomain
D, J
IPR007066RNA polymerase Rpb1, domain 3Domain
D, J
IPR012754DNA-directed RNA polymerase, subunit beta-prime, bacterial typeFamily
D, J
IPR042102RNA polymerase Rpb1, domain 3 superfamilyHomologous Superfamily
D, J
IPR000722RNA polymerase, alpha subunitDomain
D, J
IPR038120RNA polymerase Rpb1, funnel domain superfamilyHomologous Superfamily
D, J
IPR007080RNA polymerase Rpb1, domain 1Domain
E, K
IPR003716DNA-directed RNA polymerase, omega subunitFamily
E, K
IPR006110RNA polymerase, subunit omega/Rpo6/RPB6Family
E, K
IPR036161RPB6/omega subunit-like superfamilyHomologous Superfamily
F, L
IPR007627RNA polymerase sigma-70 region 2Domain
F, L
IPR007127RNA polymerase sigma factor 70, region 1.1Domain
F, L
IPR000943RNA polymerase sigma-70Domain
F, L
IPR013325RNA polymerase sigma factor, region 2Homologous Superfamily
F, L
IPR013324RNA polymerase sigma factor, region 3/4-likeHomologous Superfamily
F, L
IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
F, L
IPR012760RNA polymerase sigma factor RpoD, C-terminalDomain
F, L
IPR009042RNA polymerase sigma-70 region 1.2Domain
F, L
IPR007630RNA polymerase sigma-70 region 4Domain
F, L
IPR014284RNA polymerase sigma-70-like domainDomain
F, L
IPR007624RNA polymerase sigma-70 region 3Domain
F, L
IPR007631RNA polymerase sigma factor 70, non-essential domainDomain
F, L
IPR028630RNA polymerase sigma factor RpoDFamily
F, L
IPR042189Sigma-70 factor, region 1.1 superfamilyHomologous Superfamily
F, L
IPR050239Sigma-70 factor family, RNA polymerase initiation factorsFamily
A, B, G, H
IPR011773DNA-directed RNA polymerase, alpha subunitFamily
A, B, G, H
IPR011260RNA polymerase, alpha subunit, C-terminalDomain
A, B, G, H
IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typeDomain
A, B, G, H
IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
A, B, G, H
IPR011262DNA-directed RNA polymerase, insert domainDomain
A, B, G, H
IPR036643DNA-directed RNA polymerase, insert domain superfamilyHomologous Superfamily

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
M, N
28H
M, N
28J
M, N
28K
M, N
2TL
M, N
D4P
M, N
MEA Parent Component: PHE

RESIDAA0065

PSI-MOD :  N-methyl-L-phenylalanine MOD:00074