Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
FSCOP2 FamilyRPB6 8078372 4001505 SCOP2 (2022-06-29)
FSCOP2 SuperfamilyRPB6/omega subunit-like 8078373 3000189 SCOP2 (2022-06-29)
RSCOP2B SuperfamilyRPB6/omega subunit-like 8078373 3000189 SCOP2B (2022-06-29)
HSCOP2 FamilyRNA polymerase subunit RBP8 8078384 4001942 SCOP2 (2022-06-29)
HSCOP2 SuperfamilyRBP8/CHS5 N-terminal domain-like 8078385 3002702 SCOP2 (2022-06-29)
HSCOP2 SuperfamilyRBP8/CHS5 N-terminal domain-like 8093395 3002702 SCOP2 (2022-06-29)
TSCOP2B SuperfamilyRBP8/CHS5 N-terminal domain-like 8078385 3002702 SCOP2B (2022-06-29)
TSCOP2B SuperfamilyRBP8/CHS5 N-terminal domain-like 8093395 3002702 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8080724 3001655 SCOP2B (2022-06-29)
WSCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8080724 3001655 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyRNA polymerase subunits 8080897 3001823 SCOP2B (2022-06-29)
XSCOP2B SuperfamilyRNA polymerase subunits 8080897 3001823 SCOP2B (2022-06-29)
JSCOP2 FamilyRNA polymerase subunit RPB10 8063365 4000742 SCOP2 (2022-06-29)
JSCOP2 SuperfamilyRNA polymerase subunit RPB10 8063366 3001213 SCOP2 (2022-06-29)
VSCOP2B SuperfamilyRNA polymerase subunit RPB10 8063366 3001213 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyHRDC-like 8078369 3000132 SCOP2B (2022-06-29)
PSCOP2B SuperfamilyHRDC-like 8078369 3000132 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ARNA_pol_Rpb1_2e5x4zA6 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb1_2ECOD (1.6)
ARNA_pol_Rpb1_2_1e5x4zA9 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: RNA_pol_Rpb1_2_1ECOD (1.6)
ARNA_pol_Rpb1_7e5x4zA4 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: RNA_pol_Rpb1_7ECOD (1.6)
ARNA_pol_Rpb1_7_1e5x4zA1 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: RNA_pol_Rpb1_7_1ECOD (1.6)
ARNA_pol_Rpb1_1e5x4zA5 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)
ARNA_pol_Rpb1_5_3rde5x4zA2 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)
ARNA_pol_Rpb1_6e5x4zA8 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: RNA_pol_Rpb1_6ECOD (1.6)
ARNA_pol_Rpb1_4e5x4zA3 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)
ARNA_pol_Rpb1_3e5x4zA7 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)
MRNA_pol_Rpb1_2e5x4zM6 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb1_2ECOD (1.6)
MRNA_pol_Rpb1_2_1e5x4zM5 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: RNA_pol_Rpb1_2_1ECOD (1.6)
MRNA_pol_Rpb1_7e5x4zM1 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: RNA_pol_Rpb1_7ECOD (1.6)
MRNA_pol_Rpb1_7_1e5x4zM7 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: RNA_pol_Rpb1_7_1ECOD (1.6)
MRNA_pol_Rpb1_1e5x4zM3 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)
MRNA_pol_Rpb1_5_3rde5x4zM4 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)
MRNA_pol_Rpb1_6e5x4zM2 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: RNA_pol_Rpb1_6ECOD (1.6)
MRNA_pol_Rpb1_4e5x4zM8 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)
MRNA_pol_Rpb1_3e5x4zM9 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)
BRNA_pol_Rpb2_6_3rd_2e5x4zB5 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb2_6_3rd_2ECOD (1.6)
BRNA_pol_Rpb2_6_2nd_1e5x4zB1 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: RNA_pol_Rpb2_6_2nd_1ECOD (1.6)
BRNA_pol_Rpb2_3e5x4zB2 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)
BRNA_pol_Rpb2_1e5x4zB3 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)
BRNA_pol_Rpb2_45_1e5x4zB4 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_45_1ECOD (1.6)
BRNA_pol_Rpb2_7e5x4zB7 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)
BRNA_pol_Rpb2_4e5x4zB6 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: RNA_pol_Rpb2_4ECOD (1.6)
NRNA_pol_Rpb2_6_3rd_2e5x4zN3 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb2_6_3rd_2ECOD (1.6)
NRNA_pol_Rpb2_6_2nd_1e5x4zN4 A: a+b complex topologyX: alpha/beta-Hammerhead/Barrel-sandwich hybridH: alpha/beta-Hammerhead/Barrel-sandwich hybridT: Single hybrid motifF: RNA_pol_Rpb2_6_2nd_1ECOD (1.6)
NRNA_pol_Rpb2_3e5x4zN6 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)
NRNA_pol_Rpb2_1e5x4zN2 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)
NRNA_pol_Rpb2_45_1e5x4zN7 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_45_1ECOD (1.6)
NRNA_pol_Rpb2_7e5x4zN5 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)
NRNA_pol_Rpb2_4e5x4zN1 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: RNA_pol_Rpb2_4ECOD (1.6)
CRNA_pol_L_1e5x4zC2 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_L_1ECOD (1.6)
CRNA_pol_A_bac_1e5x4zC1 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_bac_1ECOD (1.6)
ORNA_pol_L_1e5x4zO1 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_L_1ECOD (1.6)
ORNA_pol_A_bac_1e5x4zO2 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_bac_1ECOD (1.6)
ERNA_pol_Rpb5_Ce5x4zE1 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: RNA_pol_Rpb5_CECOD (1.6)
ERNA_pol_Rpb5_Ne5x4zE2 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: Eukaryotic RPB5 N-terminal domain (From Topology)T: Eukaryotic RPB5 N-terminal domainF: RNA_pol_Rpb5_NECOD (1.6)
QRNA_pol_Rpb5_Ce5x4zQ2 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: RNA_pol_Rpb5_CECOD (1.6)
QRNA_pol_Rpb5_Ne5x4zQ1 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: Eukaryotic RPB5 N-terminal domain (From Topology)T: Eukaryotic RPB5 N-terminal domainF: RNA_pol_Rpb5_NECOD (1.6)
FRNA_pol_Rpb6_1e5x4zF1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RPB6F: RNA_pol_Rpb6_1ECOD (1.6)
RRNA_pol_Rpb6_1e5x4zR1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RPB6F: RNA_pol_Rpb6_1ECOD (1.6)
GS1_1e5x4zG2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: S1_1ECOD (1.6)
GSHS2_Rpb7-Ne5x4zG1 A: a+b two layersX: Dodecin subunit-likeH: Flavin-binding protein dodecin-like (From Topology)T: Flavin-binding protein dodecin-likeF: SHS2_Rpb7-NECOD (1.6)
SS1_1e5x4zS2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: S1_1ECOD (1.6)
SSHS2_Rpb7-Ne5x4zS1 A: a+b two layersX: Dodecin subunit-likeH: Flavin-binding protein dodecin-like (From Topology)T: Flavin-binding protein dodecin-likeF: SHS2_Rpb7-NECOD (1.6)
HRNA_pol_Rpb8e5x4zH1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: RNA_pol_Rpb8ECOD (1.6)
TRNA_pol_Rpb8e5x4zT1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: RNA_pol_Rpb8ECOD (1.6)
IRNA_POL_M_15KDe5x4zI1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: RNA_POL_M_15KDECOD (1.6)
ITFIIS_Ce5x4zI2 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: TFIIS_CECOD (1.6)
URNA_POL_M_15KDe5x4zU2 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: RNA_POL_M_15KDECOD (1.6)
UTFIIS_Ce5x4zU1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: TFIIS_CECOD (1.6)
KRNA_pol_L_2e5x4zK1 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_L_2ECOD (1.6)
WRNA_pol_L_2e5x4zW1 A: a+b two layersX: DCoH-likeH: RBP11-like subunits of RNA polymerase (From Topology)T: RBP11-like subunits of RNA polymeraseF: RNA_pol_L_2ECOD (1.6)
LDNA_RNApol_7kDe5x4zL1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: DNA_RNApol_7kDECOD (1.6)
XDNA_RNApol_7kDe5x4zX1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: DNA_RNApol_7kDECOD (1.6)
JRNA_pol_Ne5x4zJ1 A: alpha arraysX: HTHH: RPB10 (From Topology)T: RPB10F: RNA_pol_NECOD (1.6)
VRNA_pol_Ne5x4zV1 A: alpha arraysX: HTHH: RPB10 (From Topology)T: RPB10F: RNA_pol_NECOD (1.6)
DRNA_pol_Rpb4e5x4zD1 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: RNA_pol_Rpb4ECOD (1.6)
PRNA_pol_Rpb4e5x4zP1 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: RNA_pol_Rpb4ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, M
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
A, M
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 ...Domain
A, M
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
A, M
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
A, M
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 ...Domain
A, M
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
B, N
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
B, N
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
B, N
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
B, N
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 ...Domain
B, N
PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
B, N
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
B, N
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 ...Domain
C, O
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
C, O
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
E, Q
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
E, Q
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 ...Domain
F, R
PF01192RNA polymerase Rpb6 (RNA_pol_Rpb6)RNA polymerase Rpb6- Family
G, S
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 ...Domain
G, S
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
H, T
PF03870RNA polymerase Rpb8 (RNA_pol_Rpb8)RNA polymerase Rpb8- Family
I, U
PF02150RNA polymerases M/15 Kd subunit (Zn_ribbon_RPB9)RNA polymerases M/15 Kd subunitDomain
I, U
PF01096Transcription factor S-II (TFIIS) (Zn_ribbon_TFIIS)Transcription factor S-II (TFIIS)Domain
K, W
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 ...Domain
L, X
PF03604DNA directed RNA polymerase, 7 kDa subunit (Zn_ribbon_RPAB4)DNA directed RNA polymerase, 7 kDa subunitDomain
J, V
PF01194RNA polymerases N / 8 kDa subunit (RNA_pol_N)RNA polymerases N / 8 kDa subunitDomain
D, P
PF03874RNA polymerase Rpb4 (RNA_pol_Rpb4)RNA polymerase Rpb4- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, M
DNA-directed RNA polymerase subunit -
B, N
DNA-directed RNA polymerase subunit beta
C, O
RNA polymerase II third largest subunit B44, part of central core -
E, Q
RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III
F, R
RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III
G, S
RNA polymerase II subunit
H, T
RNA polymerase subunit ABC14.5, common to RNA polymerases I, II, and III
I, U
DNA-directed RNA polymerase subunit
K, W
RNA polymerase II subunit B12.5
L, X
RNA polymerase subunit, found in RNA polymerase complexes I, II, and III
J, V
RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III
D, P
RNA polymerase II subunit B32

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, M
IPR007066RNA polymerase Rpb1, domain 3Domain
A, M
IPR007081RNA polymerase Rpb1, domain 5Domain
A, M
IPR007073RNA polymerase Rpb1, domain 7Domain
A, M
IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
A, M
IPR042102RNA polymerase Rpb1, domain 3 superfamilyHomologous Superfamily
A, M
IPR007075RNA polymerase Rpb1, domain 6Domain
A, M
IPR000684RNA polymerase II, heptapeptide repeat, eukaryoticRepeat
A, M
IPR007083RNA polymerase Rpb1, domain 4Domain
A, M
IPR038593RNA polymerase Rpb1, domain 7 superfamilyHomologous Superfamily
A, M
IPR000722RNA polymerase, alpha subunitDomain
A, M
IPR044893RNA polymerase Rpb1, clamp domain superfamilyHomologous Superfamily
A, M
IPR038120RNA polymerase Rpb1, funnel domain superfamilyHomologous Superfamily
A, M
IPR006592RNA polymerase, N-terminalDomain
A, M
IPR007080RNA polymerase Rpb1, domain 1Domain
B, N
IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
B, N
IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
B, N
IPR007646RNA polymerase Rpb2, domain 4Domain
B, N
IPR007647RNA polymerase Rpb2, domain 5Domain
B, N
IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
B, N
IPR007642RNA polymerase Rpb2, domain 2Domain
B, N
IPR015712DNA-directed RNA polymerase, subunit 2Family
B, N
IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
B, N
IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
B, N
IPR007645RNA polymerase Rpb2, domain 3Domain
B, N
IPR007644RNA polymerase, beta subunit, protrusionDomain
B, N
IPR007641RNA polymerase Rpb2, domain 7Domain
C, O
IPR011262DNA-directed RNA polymerase, insert domainDomain
C, O
IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typeDomain
C, O
IPR036643DNA-directed RNA polymerase, insert domain superfamilyHomologous Superfamily
C, O
IPR050518Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase SubunitFamily
C, O
IPR022842DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1Family
C, O
IPR001514DNA-directed RNA polymerase, 30-40kDa subunit, conserved siteConserved Site
C, O
IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
E, Q
IPR014381DNA-directed RNA polymerase subunit Rpo5/Rpb5Family
E, Q
IPR036710RNA polymerase Rpb5, N-terminal domain superfamilyHomologous Superfamily
E, Q
IPR035913RPB5-like RNA polymerase subunit superfamilyHomologous Superfamily
E, Q
IPR000783RNA polymerase, subunit H/Rpb5 C-terminalDomain
E, Q
IPR020608RNA polymerase, subunit H/Rpb5, conserved siteConserved Site
E, Q
IPR005571RNA polymerase, Rpb5, N-terminalDomain
F, R
IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved siteConserved Site
F, R
IPR028363DNA-directed RNA polymerase, subunit RPB6Family
F, R
IPR006110RNA polymerase, subunit omega/Rpo6/RPB6Family
F, R
IPR036161RPB6/omega subunit-like superfamilyHomologous Superfamily
F, R
IPR006111Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunitFamily
G, S
IPR003029S1 domainDomain
G, S
IPR045113RNA polymerase subunit Rpb7-likeFamily
G, S
IPR005576RNA polymerase Rpb7-like , N-terminalDomain
G, S
IPR036898RNA polymerase Rpb7-like, N-terminal domain superfamilyHomologous Superfamily
G, S
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
H, T
IPR005570DNA-directed RNA polymerases I, II, and III subunit RPABC3Family
H, T
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
I, U
IPR001529DNA-directed RNA polymerase II subunit RPB9-like, zinc ribbonDomain
I, U
IPR012164DNA-directed RNA polymerase subunit/transcription factor SFamily
I, U
IPR001222Zinc finger, TFIIS-typeDomain
I, U
IPR034012Pol II subunit B9, C-terminal zinc ribbonDomain
I, U
IPR019761DNA-directed RNA polymerase M, 15kDa subunit, conserved siteConserved Site
K, W
IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainDomain
K, W
IPR037685RNA polymerase RBP11Family
K, W
IPR022905DNA-directed RNA polymerase subunit Rpo11-likeFamily
K, W
IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
K, W
IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved siteConserved Site
L, X
IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4Family
L, X
IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4Homologous Superfamily
L, X
IPR039747DNA-directed RNA polymerases I, II, and III subunit RPABC4Family
J, V
IPR023580RNA polymerase subunit RPB10Homologous Superfamily
J, V
IPR020789RNA polymerases, subunit N, zinc binding siteBinding Site
J, V
IPR000268DNA-directed RNA polymerase subunit RPABC5/Rpb10Family
D, P
IPR005574RNA polymerase subunit Rpb4/RPC9Family
D, P
IPR010997HRDC-like superfamilyHomologous Superfamily
D, P
IPR006590RNA polymerase Rpb4/RPC9, coreDomain
D, P
IPR038324Rpb4/RPC9 superfamilyHomologous Superfamily
D, P
IPR045222DNA-directed RNA polymerase II subunit Rpb4-likeFamily