Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APF04563e3mlqA1 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: PF04563ECOD (1.6)
BPF04563e3mlqB1 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: PF04563ECOD (1.6)
CPF04563e3mlqC1 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: PF04563ECOD (1.6)
DPF04563e3mlqD1 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: PF04563ECOD (1.6)
EPF02559e3mlqE1 A: beta barrelsX: SH3H: SH3T: SH3F: PF02559ECOD (1.6)
FPF02559e3mlqF1 A: beta barrelsX: SH3H: SH3T: SH3F: PF02559ECOD (1.6)
GPF02559e3mlqG1 A: beta barrelsX: SH3H: SH3T: SH3F: PF02559ECOD (1.6)
HPF02559e3mlqH1 A: beta barrelsX: SH3H: SH3T: SH3F: PF02559ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
G2.40.10.170 Mainly Beta Beta Barrel Thrombin, subunit H CATH (4.3.0)
H2.40.10.170 Mainly Beta Beta Barrel Thrombin, subunit H CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D
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
A, B, C, D
PF04563RNA polymerase beta subunit (RNA_pol_Rpb2_1)RNA polymerase beta subunit- Family
E, F, G, H
PF02559CarD-like/TRCF RID domain (CarD_TRCF_RID)CarD-like/TRCF RID domainThis is the RNA polymerase interacting domain (RID) of transcription-repair-coupling factor (TRCF), CarD and CarD homologue in Myxococcus xanthus, called CdnL. In Myxococcus xanthus, CdnL is a protein required for the activation of light- and starvat ...This is the RNA polymerase interacting domain (RID) of transcription-repair-coupling factor (TRCF), CarD and CarD homologue in Myxococcus xanthus, called CdnL. In Myxococcus xanthus, CdnL is a protein required for the activation of light- and starvation-inducible genes [1]. It interacts with the zinc-binding protein CarG to form a complex that regulates multiple processes in Myxococcus xanthus [4]. CarD is widely distributed among bacteria and represents a distinct class of RNAP binding proteins that regulate transcription and essential processes [4-8]. TRCF displaces RNA polymerase stalled at a lesion, binds to the damage recognition protein UvrA, and increases the template strand repair rate during transcription [3].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D
DNA-directed RNA polymerase subunit beta
E, F, G, H
Transcription-repair coupling factor

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D
IPR007642RNA polymerase Rpb2, domain 2Domain
A, B, C, D
IPR015712DNA-directed RNA polymerase, subunit 2Family
A, B, C, D
IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyHomologous Superfamily
A, B, C, D
IPR042107DNA-directed RNA polymerase, beta subunit, external 1 domain superfamilyHomologous Superfamily
A, B, C, D
IPR037034RNA polymerase Rpb2, domain 2 superfamilyHomologous Superfamily
A, B, C, D
IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainDomain
A, B, C, D
IPR007121RNA polymerase, beta subunit, conserved siteConserved Site
A, B, C, D
IPR007645RNA polymerase Rpb2, domain 3Domain
A, B, C, D
IPR014724RNA polymerase Rpb2, OB-foldHomologous Superfamily
A, B, C, D
IPR019462DNA-directed RNA polymerase, beta subunit, external 1 domainDomain
A, B, C, D
IPR010243DNA-directed RNA polymerase beta subunit, bacterial-typeFamily
A, B, C, D
IPR007644RNA polymerase, beta subunit, protrusionDomain
A, B, C, D
IPR007641RNA polymerase Rpb2, domain 7Domain
E, F, G, H
IPR004576Transcription-repair coupling factorFamily
E, F, G, H
IPR036101CarD-like/TRCF, RNAP-interacting domain superfamilyHomologous Superfamily
E, F, G, H
IPR001650Helicase, C-terminal domain-likeDomain
E, F, G, H
IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
E, F, G, H
IPR037235TRCF-like, C-terminal D7 domainHomologous Superfamily
E, F, G, H
IPR047112ATP-dependent DNA helicase RecG/Transcription-repair-coupling factorFamily
E, F, G, H
IPR003711CarD-like/TRCF, RNAP-interacting domainDomain
E, F, G, H
IPR011545DEAD/DEAH box helicase domainDomain
E, F, G, H
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
E, F, G, H
IPR005118Transcription-repair-coupling factor, C-terminal domainDomain