3MLQ | pdb_00003mlq

Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H	CarD_CdnL_TRCF	e3mlqH1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: CarD_CdnL_TRCF	ECOD (1.6)
G	CarD_CdnL_TRCF	e3mlqG1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: CarD_CdnL_TRCF	ECOD (1.6)
F	CarD_CdnL_TRCF	e3mlqF1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: CarD_CdnL_TRCF	ECOD (1.6)
E	CarD_CdnL_TRCF	e3mlqE1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: CarD_CdnL_TRCF	ECOD (1.6)
D	RNA_pol_Rpb2_3	e3mlqD1	A: a+b complex topology	X: 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-polymerase	F: RNA_pol_Rpb2_3	ECOD (1.6)
C	RNA_pol_Rpb2_3	e3mlqC1	A: a+b complex topology	X: 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-polymerase	F: RNA_pol_Rpb2_3	ECOD (1.6)
B	RNA_pol_Rpb2_3	e3mlqB1	A: a+b complex topology	X: 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-polymerase	F: RNA_pol_Rpb2_3	ECOD (1.6)
A	RNA_pol_Rpb2_3	e3mlqA1	A: a+b complex topology	X: 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-polymerase	F: RNA_pol_Rpb2_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.40.10.170	Mainly Beta	Beta Barrel	Thrombin, subunit H		CATH (4.3.0)
G	2.40.10.170	Mainly Beta	Beta Barrel	Thrombin, subunit H		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF04563	RNA polymerase beta subunit (RNA_pol_Rpb2_1)	RNA polymerase beta subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	Transcription-repair coupling factor	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity catalytic activity ATP-dependent activity, acting on DNA nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity ATP-dependent activity DNA binding damaged DNA binding nucleic acid binding	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process nucleotide-excision repair, DNA damage recognition cellular response to stimulus response to stimulus transcription-coupled nucleotide-excision repair chromosome organization DNA metabolic process cellular component organization organelle organization transcription-coupled nucleotide-excision repair, DNA damage recognition cellular response to stress nucleotide-excision repair DNA damage response response to stress cellular component organization or biogenesis DNA repair	cellular anatomical structure intracellular anatomical structure cytoplasm
A, B, C, D	DNA-directed RNA polymerase subunit beta	DNA binding binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups ribonucleoside binding nucleoside binding DNA binding binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F, G, H	IPR004576	Transcription-repair coupling factor	Family
E, F, G, H	IPR036101	CarD-like/TRCF, RNAP-interacting domain superfamily	Homologous Superfamily
E, F, G, H	IPR001650	Helicase, C-terminal domain-like	Domain
E, F, G, H	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
E, F, G, H	IPR037235	TRCF-like, C-terminal D7 domain	Homologous Superfamily
E, F, G, H	IPR047112	ATP-dependent DNA helicase RecG/Transcription-repair-coupling factor	Family
E, F, G, H	IPR003711	CarD-like/TRCF, RNAP-interacting domain	Domain
E, F, G, H	IPR011545	DEAD/DEAH-box helicase domain	Domain
E, F, G, H	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
E, F, G, H	IPR005118	Transcription-repair-coupling factor, C-terminal domain	Domain
A, B, C, D	IPR007642	RNA polymerase Rpb2, domain 2	Domain
A, B, C, D	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
A, B, C, D	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR042107	DNA-directed RNA polymerase, beta subunit, external 1 domain superfamily	Homologous Superfamily
A, B, C, D	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
A, B, C, D	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
A, B, C, D	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
A, B, C, D	IPR007645	RNA polymerase Rpb2, domain 3	Domain
A, B, C, D	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
A, B, C, D	IPR019462	DNA-directed RNA polymerase, beta subunit, external 1 domain	Domain
A, B, C, D	IPR010243	DNA-directed RNA polymerase beta subunit, bacterial-type	Family
A, B, C, D	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
A, B, C, D	IPR007641	RNA polymerase Rpb2, domain 7	Domain