4V8S | pdb_00004v8s

Archaeal RNAP-DNA binary complex at 4.32Ang


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
J [auth AU]SCOP2B SuperfamilyHRDC-like 8086301 3000132 SCOP2B (2022-06-29)
U [auth BF]SCOP2B SuperfamilyHRDC-like 8086301 3000132 SCOP2B (2022-06-29)
K [auth AV]SCOP2B SuperfamilyRBP8/CHS5 N-terminal domain-like 8093394 3002702 SCOP2B (2022-06-29)
K [auth AV]SCOP2B SuperfamilyRBP8/CHS5 N-terminal domain-like 8093033 3002702 SCOP2B (2022-06-29)
V [auth BG]SCOP2B SuperfamilyRBP8/CHS5 N-terminal domain-like 8093033 3002702 SCOP2B (2022-06-29)
V [auth BG]SCOP2B SuperfamilyRBP8/CHS5 N-terminal domain-like 8093394 3002702 SCOP2B (2022-06-29)
O [auth AZ]SCOP2B SuperfamilyRPB5-like RNA polymerase subunit 8063566 3001722 SCOP2B (2022-06-29)
W [auth BH]SCOP2B SuperfamilyRPB5-like RNA polymerase subunit 8063566 3001722 SCOP2B (2022-06-29)
C [auth AI]SCOP2B SuperfamilyRPB6/omega subunit-like 8078379 3000189 SCOP2B (2022-06-29)
X [auth BK]SCOP2B SuperfamilyRPB6/omega subunit-like 8078379 3000189 SCOP2B (2022-06-29)
BA [auth BQ]SCOP2B SuperfamilyRNA polymerase subunit 13, Rpo13-like 8093029 3002666 SCOP2B (2022-06-29)
D [auth AJ]SCOP2B SuperfamilyRNA polymerase subunit 13, Rpo13-like 8093029 3002666 SCOP2B (2022-06-29)
E [auth AM]SCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8080734 3001655 SCOP2B (2022-06-29)
Y [auth BL]SCOP2B SuperfamilyRBP11-like subunits of RNA polymerase 8080734 3001655 SCOP2B (2022-06-29)
F [auth AO]SCOP2B SuperfamilyRNA polymerase subunit RPB10 8063362 3001213 SCOP2B (2022-06-29)
Z [auth BN]SCOP2B SuperfamilyRNA polymerase subunit RPB10 8063362 3001213 SCOP2B (2022-06-29)
G [auth AR]SCOP2B SuperfamilyTwo-barrel nucleic acid polymerases 8073729 3001330 SCOP2B (2022-06-29)
Q [auth BB]SCOP2B SuperfamilyTwo-barrel nucleic acid polymerases 8073729 3001330 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
J [auth AU]RNA_pol_Rpb4e4v8sAU1 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: RNA_pol_Rpb4ECOD (1.6)
U [auth BF]RNA_pol_Rpb4e4v8sBF1 A: alpha arraysX: HhH/H2THH: SAM/DNA-glycosylaseT: SAM domain-likeF: RNA_pol_Rpb4ECOD (1.6)
K [auth AV]RNA_pol_RpbGe4v8sAV1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: RNA_pol_RpbGECOD (1.6)
V [auth BG]RNA_pol_RpbGe4v8sBG1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: RNA_pol_RpbGECOD (1.6)
L [auth AW]RNA_pol_Rpb1_2e4v8sAW4 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb1_2ECOD (1.6)
L [auth AW]RNA_pol_Rpb1_1e4v8sAW1 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)
L [auth AW]RNA_pol_Rpb1_4e4v8sAW3 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)
L [auth AW]RNA_pol_Rpb1_3e4v8sAW2 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)
P [auth BA]RNA_pol_Rpb1_2e4v8sBA4 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb1_2ECOD (1.6)
P [auth BA]RNA_pol_Rpb1_1e4v8sBA1 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)
P [auth BA]RNA_pol_Rpb1_4e4v8sBA2 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)
P [auth BA]RNA_pol_Rpb1_3e4v8sBA3 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)
AA [auth BP]DNA_RNApol_7kDe4v8sBP1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: DNA_RNApol_7kDECOD (1.6)
M [auth AX]DNA_RNApol_7kDe4v8sAX1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: DNA_RNApol_7kDECOD (1.6)
N [auth AY]RNAP_A''e4v8sAY2 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: RNAP_A''ECOD (1.6)
N [auth AY]RNAP_II_Rpb1_Ce4v8sAY1 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: RNAP_II_Rpb1_CECOD (1.6)
N [auth AY]RNA_pol_Rpb1_5_3rde4v8sAY3 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)
N [auth AY]PRK04309_like_1e4v8sAY4 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: PRK04309_like_1ECOD (1.6)
R [auth BC]RNAP_A''e4v8sBC2 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: RNAP_A''ECOD (1.6)
R [auth BC]RNAP_II_Rpb1_Ce4v8sBC1 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: RNAP_II_Rpb1_CECOD (1.6)
R [auth BC]RNA_pol_Rpb1_5_3rde4v8sBC4 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)
R [auth BC]PRK04309_like_1e4v8sBC3 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: PRK04309_like_1ECOD (1.6)
O [auth AZ]RNA_pol_Rpb5_Ce4v8sAZ1 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)
W [auth BH]RNA_pol_Rpb5_Ce4v8sBH1 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)
C [auth AI]RNA_pol_Rpb6_1e4v8sAI1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RPB6F: RNA_pol_Rpb6_1ECOD (1.6)
X [auth BK]RNA_pol_Rpb6_1e4v8sBK1 A: alpha arraysX: RPB6/omega subunit-like (From Homology)H: RPB6/omega subunit-likeT: RPB6F: RNA_pol_Rpb6_1ECOD (1.6)
BA [auth BQ]RNA_pol_Rpo13e4v8sBQ1 A: alpha bundlesX: YqgQ-like (From Topology)H: YqgQ-like (From Topology)T: YqgQ-likeF: RNA_pol_Rpo13ECOD (1.6)
D [auth AJ]RNA_pol_Rpo13e4v8sAJ1 A: alpha bundlesX: YqgQ-like (From Topology)H: YqgQ-like (From Topology)T: YqgQ-likeF: RNA_pol_Rpo13ECOD (1.6)
E [auth AM]RNA_pol_L_2e4v8sAM1 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)
Y [auth BL]RNA_pol_L_2e4v8sBL1 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)
F [auth AO]RNA_pol_Ne4v8sAO1 A: alpha arraysX: HTHH: RPB10 (From Topology)T: RPB10F: RNA_pol_NECOD (1.6)
Z [auth BN]RNA_pol_Ne4v8sBN1 A: alpha arraysX: HTHH: RPB10 (From Topology)T: RPB10F: RNA_pol_NECOD (1.6)
G [auth AR]RNA_pol_Rpb2_6_3rd_2e4v8sAR7 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb2_6_3rd_2ECOD (1.6)
G [auth AR]RNA_pol_Rpb2_6_2nd_1e4v8sAR1 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)
G [auth AR]RNA_pol_Rpb2_3e4v8sAR3 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)
G [auth AR]RNA_pol_Rpb2_1e4v8sAR2 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)
G [auth AR]RNA_pol_Rpb2_45_1e4v8sAR5 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)
G [auth AR]RNA_pol_Rpb2_7e4v8sAR6 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)
G [auth AR]RNA_pol_Rpb2_4e4v8sAR4 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)
Q [auth BB]RNA_pol_Rpb2_6_3rd_2e4v8sBB6 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: RNA_pol_Rpb2_6_3rd_2ECOD (1.6)
Q [auth BB]RNA_pol_Rpb2_6_2nd_1e4v8sBB2 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)
Q [auth BB]RNA_pol_Rpb2_3e4v8sBB3 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)
Q [auth BB]RNA_pol_Rpb2_1e4v8sBB7 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)
Q [auth BB]RNA_pol_Rpb2_45_1e4v8sBB5 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)
Q [auth BB]RNA_pol_Rpb2_7e4v8sBB1 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)
Q [auth BB]RNA_pol_Rpb2_4e4v8sBB4 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)
H [auth AS]RNA_pol_Le4v8sAS1 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)
H [auth AS]RNA_pol_A_bac_1e4v8sAS2 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)
S [auth BD]RNA_pol_Le4v8sBD2 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)
S [auth BD]RNA_pol_A_bac_1e4v8sBD1 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)
I [auth AT]S1_1e4v8sAT2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: S1_1ECOD (1.6)
I [auth AT]SHS2_Rpb7-Ne4v8sAT1 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)
T [auth BE]S1_1e4v8sBE2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: S1_1ECOD (1.6)
T [auth BE]SHS2_Rpb7-Ne4v8sBE1 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)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth AU],
U [auth BF]
PF03874RNA polymerase Rpb4 (RNA_pol_Rpb4)RNA polymerase Rpb4- Family
K [auth AV],
V [auth BG]
PF16992DNA-directed RNA polymerase, subunit G (RNA_pol_RpbG)DNA-directed RNA polymerase, subunit G- Family
L [auth AW],
P [auth BA]
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
L [auth AW],
P [auth BA]
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
L [auth AW],
P [auth BA]
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
L [auth AW],
P [auth BA]
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
L [auth AW],
P [auth BA]
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
N [auth AY],
R [auth BC]
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
O [auth AZ],
W [auth BH]
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
C [auth AI],
X [auth BK]
PF01192RNA polymerase Rpb6 (RNA_pol_Rpb6)RNA polymerase Rpb6- Family
E [auth AM],
Y [auth BL]
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
F [auth AO],
Z [auth BN]
PF01194RNA polymerases N / 8 kDa subunit (RNA_pol_N)RNA polymerases N / 8 kDa subunitDomain
G [auth AR],
Q [auth BB]
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
G [auth AR],
Q [auth BB]
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
G [auth AR],
Q [auth BB]
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
G [auth AR],
Q [auth BB]
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
G [auth AR],
Q [auth BB]
PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
G [auth AR],
Q [auth BB]
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
G [auth AR],
Q [auth BB]
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
H [auth AS],
S [auth BD]
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
H [auth AS],
S [auth BD]
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
I [auth AT],
T [auth BE]
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
I [auth AT],
T [auth BE]
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth AC],
CA [auth BR]
5'-D(*TP*CP*TP*TP*AP*TP*AP*CP*TP*CP*TP*AP*TP*CP)-3'---
J [auth AU],
U [auth BF]
RNA POLYMERASE SUBUNIT 4
K [auth AV],
V [auth BG]
RNA POLYMERASE SUBUNIT 8
L [auth AW],
P [auth BA]
DNA-DIRECTED RNA POLYMERASE -
AA [auth BP],
M [auth AX]
DNA-DIRECTED RNA POLYMERASE SUBUNIT P -
N [auth AY],
R [auth BC]
DNA-DIRECTED RNA POLYMERASE SUBUNIT A'' -
O [auth AZ],
W [auth BH]
DNA-DIRECTED RNA POLYMERASE SUBUNIT H
B [auth AD],
DA [auth BS]
5'-D(*AP*TP*AP*GP*AP*GP*TP*AP*TP*AP*AP*GP*AP*TP *AP*G)-3'---
C [auth AI],
X [auth BK]
DNA-DIRECTED RNA POLYMERASE SUBUNIT K
BA [auth BQ],
D [auth AJ]
RNA POLYMERASE SUBUNIT 13 -
E [auth AM],
Y [auth BL]
DNA-DIRECTED RNA POLYMERASE SUBUNIT L -
F [auth AO],
Z [auth BN]
DNA-DIRECTED RNA POLYMERASE SUBUNIT N -
G [auth AR],
Q [auth BB]
DNA-DIRECTED RNA POLYMERASE -
H [auth AS],
S [auth BD]
DNA-DIRECTED RNA POLYMERASE SUBUNIT D -
I [auth AT],
T [auth BE]
RNA POLYMERASE SUBUNIT 7

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth AU],
U [auth BF]
IPR005574RNA polymerase subunit Rpb4/RPC9Family
J [auth AU],
U [auth BF]
IPR044876HRDC domain superfamilyHomologous Superfamily
J [auth AU],
U [auth BF]
IPR010997HRDC-like superfamilyHomologous Superfamily
J [auth AU],
U [auth BF]
IPR010924DNA-directed RNA polymerase subunit Rpo4Family
K [auth AV],
V [auth BG]
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
K [auth AV],
V [auth BG]
IPR031555DNA-directed RNA polymerase subunit Rpo8Family
L [auth AW],
P [auth BA]
IPR007066RNA polymerase Rpb1, domain 3Domain
L [auth AW],
P [auth BA]
IPR007081RNA polymerase Rpb1, domain 5Domain
L [auth AW],
P [auth BA]
IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
L [auth AW],
P [auth BA]
IPR012758DNA-directed RNA polymerase subunit Rpo1NFamily
L [auth AW],
P [auth BA]
IPR007083RNA polymerase Rpb1, domain 4Domain
L [auth AW],
P [auth BA]
IPR000722RNA polymerase, alpha subunitDomain
L [auth AW],
P [auth BA]
IPR044893RNA polymerase Rpb1, clamp domain superfamilyHomologous Superfamily
L [auth AW],
P [auth BA]
IPR038120RNA polymerase Rpb1, funnel domain superfamilyHomologous Superfamily
L [auth AW],
P [auth BA]
IPR006592RNA polymerase, N-terminalDomain
L [auth AW],
P [auth BA]
IPR007080RNA polymerase Rpb1, domain 1Domain
AA [auth BP],
M [auth AX]
IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4Family
AA [auth BP],
M [auth AX]
IPR023464DNA-directed RNA polymerase subunit Rpo12Family
AA [auth BP],
M [auth AX]
IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4Homologous Superfamily
N [auth AY],
R [auth BC]
IPR007081RNA polymerase Rpb1, domain 5Domain
N [auth AY],
R [auth BC]
IPR045867DNA-directed RNA polymerase, subunit beta-primeFamily
N [auth AY],
R [auth BC]
IPR012757DNA-directed RNA polymerase subunit Rpo1CFamily
O [auth AZ],
W [auth BH]
IPR014381DNA-directed RNA polymerase subunit Rpo5/Rpb5Family
O [auth AZ],
W [auth BH]
IPR035913RPB5-like RNA polymerase subunit superfamilyHomologous Superfamily
O [auth AZ],
W [auth BH]
IPR000783RNA polymerase, subunit H/Rpb5 C-terminalDomain
O [auth AZ],
W [auth BH]
IPR020608RNA polymerase, subunit H/Rpb5, conserved siteConserved Site
C [auth AI],
X [auth BK]
IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved siteConserved Site
C [auth AI],
X [auth BK]
IPR006110RNA polymerase, subunit omega/Rpo6/RPB6Family
C [auth AI],
X [auth BK]
IPR036161RPB6/omega subunit-like superfamilyHomologous Superfamily
C [auth AI],
X [auth BK]
IPR006111Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunitFamily
BA [auth BQ],
D [auth AJ]
IPR021985RNA polymerase Rpo13 subunit HTH domainDomain
E [auth AM],
Y [auth BL]
IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainDomain
E [auth AM],
Y [auth BL]
IPR022905DNA-directed RNA polymerase subunit Rpo11-likeFamily
E [auth AM],
Y [auth BL]
IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
E [auth AM],
Y [auth BL]
IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved siteConserved Site
F [auth AO],
Z [auth BN]
IPR023580RNA polymerase subunit RPB10Homologous Superfamily
F [auth AO],
Z [auth BN]
IPR020789RNA polymerases, subunit N, zinc binding siteBinding Site
F [auth AO],
Z [auth BN]
IPR000268DNA-directed RNA polymerase subunit RPABC5/Rpb10Family
G [auth AR],
Q [auth BB]
IPR007642RNA polymerase Rpb2, domain 2Domain
G [auth AR],
Q [auth BB]
IPR015712DNA-directed RNA polymerase, subunit 2Family
G [auth AR],
Q [auth BB]
IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
G [auth AR],
Q [auth BB]
IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
G [auth AR],
Q [auth BB]
IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
G [auth AR],
Q [auth BB]
IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
G [auth AR],
Q [auth BB]
IPR007645RNA polymerase Rpb2, domain 3Domain
G [auth AR],
Q [auth BB]
IPR007646RNA polymerase Rpb2, domain 4Domain
G [auth AR],
Q [auth BB]
IPR007647RNA polymerase Rpb2, domain 5Domain
G [auth AR],
Q [auth BB]
IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
G [auth AR],
Q [auth BB]
IPR007644RNA polymerase, beta subunit, protrusionDomain
G [auth AR],
Q [auth BB]
IPR007641RNA polymerase Rpb2, domain 7Domain
G [auth AR],
Q [auth BB]
IPR019969DNA-directed RNA polymerase subunit Rpo2Family
H [auth AS],
S [auth BD]
IPR011262DNA-directed RNA polymerase, insert domainDomain
H [auth AS],
S [auth BD]
IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typeDomain
H [auth AS],
S [auth BD]
IPR050518Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase SubunitFamily
H [auth AS],
S [auth BD]
IPR022842DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1Family
H [auth AS],
S [auth BD]
IPR036643DNA-directed RNA polymerase, insert domain superfamilyHomologous Superfamily
H [auth AS],
S [auth BD]
IPR001514DNA-directed RNA polymerase, 30-40kDa subunit, conserved siteConserved Site
H [auth AS],
S [auth BD]
IPR036603RNA polymerase, RBP11-like subunitHomologous Superfamily
I [auth AT],
T [auth BE]
IPR046399DNA-directed RNA polymerase subunit Rpo7Family
I [auth AT],
T [auth BE]
IPR036898RNA polymerase Rpb7-like, N-terminal domain superfamilyHomologous Superfamily
I [auth AT],
T [auth BE]
IPR004519DNA-directed RNA polymerase, subunit E/RPC8Family
I [auth AT],
T [auth BE]
IPR003029S1 domainDomain
I [auth AT],
T [auth BE]
IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
I [auth AT],
T [auth BE]
IPR045113RNA polymerase subunit Rpb7-likeFamily
I [auth AT],
T [auth BE]
IPR005576RNA polymerase Rpb7-like , N-terminalDomain