4FJO

Structure of the Rev1 CTD-Rev3/7-Pol kappa RIR complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2 Family	HORMA domain	8089233	4000363	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	HORMA/p31comet-like	8089234	3000150	SCOP2 (2022-06-29)
A	SCOP2 Family	DNA repair protein REV1 C-terminal domain-like	8046056	4004848	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DNA repair protein REV1 C-terminal domain-like	8091496	3002514	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	PF02301	e4fjoC2	A: a+b two layers	X: The spindle assembly checkpoint protein mad2 (From Topology)	H: The spindle assembly checkpoint protein mad2 (From Topology)	T: The spindle assembly checkpoint protein mad2	F: PF02301	ECOD (1.6)
A	PF16727	e4fjoA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: DNA repair protein Rev1 C-terminal domain (From Topology)	T: DNA repair protein Rev1 C-terminal domain	F: PF16727	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.30.900.10	Alpha Beta	2-Layer Sandwich	Cell Cycle, Spindle Assembly Checkpoint Protein	Chain A	CATH (4.3.0)
A	1.20.58.1280	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF02301	HORMA domain (HORMA)	HORMA domain	The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognise chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle ...	The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognise chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.	Domain
A	PF16727	DNA repair protein REV1 C-terminal domain (REV1_C)	DNA repair protein REV1 C-terminal domain	This is the C-terminal domain of DNA repair protein REV1. It interacts with REV7, POLN, POLK and POLI [1-2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	DNA polymerase kappa	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups molecular adaptor activity DNA binding binding organic cyclic compound binding damaged DNA binding nucleic acid binding catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups molecular adaptor activity DNA binding binding organic cyclic compound binding damaged DNA binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process postreplication repair cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process postreplication repair cellular biosynthetic process DNA synthesis involved in DNA repair nucleic acid biosynthetic process DNA repair translesion synthesis cellular metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process biosynthetic process error-prone translesion synthesis DNA biosynthetic process response to light stimulus cellular response to radiation response to UV cellular response to environmental stimulus cellular response to light stimulus response to radiation response to abiotic stimulus cellular response to abiotic stimulus cellular response to UV nucleotide-excision repair, DNA gap filling nucleotide-excision repair	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle lumen nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle lumen nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle site of DNA damage chromosome non-membrane-bounded organelle
C	Mitotic spindle assembly checkpoint protein MAD2B	JUN kinase binding protein binding binding kinase binding enzyme binding protein kinase binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding	cellular response to stimulus telomere maintenance in response to DNA damage response to stimulus telomere organization chromosome organization primary metabolic process DNA metabolic process nucleic acid metabolic process telomere maintenance cellular component organization nucleobase-containing compound metabolic process organelle organization cellular response to stress DNA damage response response to stress cellular response to stimulus telomere maintenance in response to DNA damage response to stimulus telomere organization chromosome organization primary metabolic process DNA metabolic process nucleic acid metabolic process telomere maintenance cellular component organization nucleobase-containing compound metabolic process organelle organization cellular response to stress DNA damage response response to stress cellular process metabolic process cellular component organization or biogenesis macromolecule metabolic process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair regulation of response to stress negative regulation of double-strand break repair negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process recombinational repair regulation of nucleobase-containing compound metabolic process negative regulation of double-strand break repair via homologous recombination double-strand break repair via homologous recombination DNA repair negative regulation of macromolecule metabolic process double-strand break repair regulation of biological process negative regulation of response to stimulus negative regulation of metabolic process DNA recombination biological regulation regulation of macromolecule metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination negative regulation of DNA recombination regulation of response to stimulus negative regulation of DNA metabolic process regulation of metabolic process regulation of DNA metabolic process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte activation regulation of cell activation B cell activation involved in immune response positive regulation of macromolecule biosynthetic process multicellular organism development positive regulation of immune response regulation of immune system process positive regulation of macromolecule metabolic process system development positive regulation of DNA recombination positive regulation of immunoglobulin mediated immune response immune response cellular metabolic process immune effector process regulation of gene expression biosynthetic process positive regulation of DNA metabolic process B cell mediated immunity positive regulation of production of molecular mediator of immune response regulation of macromolecule biosynthetic process immunoglobulin production regulation of developmental process positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains somatic cell DNA recombination positive regulation of cellular metabolic process positive regulation of lymphocyte activation somatic diversification of immunoglobulins involved in immune response somatic recombination of immunoglobulin gene segments positive regulation of biosynthetic process regulation of immunoglobulin mediated immune response positive regulation of isotype switching regulation of B cell activation leukocyte activation involved in immune response positive regulation of immune effector process positive regulation of cellular process positive regulation of immunoglobulin production production of molecular mediator of immune response regulation of isotype switching cell activation macromolecule biosynthetic process regulation of cellular biosynthetic process positive regulation of gene expression immune system process somatic diversification of immune receptors via germline recombination within a single locus positive regulation of cellular biosynthetic process regulation of lymphocyte activation multicellular organismal process regulation of immune effector process lymphocyte mediated immunity positive regulation of leukocyte mediated immunity cell activation involved in immune response positive regulation of developmental process positive regulation of cell activation positive regulation of metabolic process positive regulation of leukocyte activation anatomical structure development leukocyte mediated immunity somatic diversification of immune receptors positive regulation of adaptive immune response positive regulation of immune system process somatic recombination of immunoglobulin genes involved in immune response developmental process positive regulation of nucleobase-containing compound metabolic process regulation of adaptive immune response regulation of cellular metabolic process regulation of B cell mediated immunity somatic diversification of immunoglobulins regulation of leukocyte mediated immunity positive regulation of multicellular organismal process regulation of immune response regulation of production of molecular mediator of immune response isotype switching immune system development immunoglobulin production involved in immunoglobulin-mediated immune response positive regulation of lymphocyte mediated immunity cellular biosynthetic process positive regulation of biological process lymphocyte activation positive regulation of B cell mediated immunity leukocyte activation positive regulation of response to stimulus regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of multicellular organismal process lymphocyte activation involved in immune response regulation of biosynthetic process B cell activation gene expression positive regulation of B cell activation adaptive immune response immunoglobulin mediated immune response regulation of immunoglobulin production regulation of lymphocyte mediated immunity regulation of cell adhesion negative regulation of cell adhesion cell adhesion cell-cell adhesion negative regulation of cell-cell adhesion mediated by cadherin cell-cell adhesion mediated by cadherin negative regulation of cell-cell adhesion regulation of cell-cell adhesion regulation of cell-cell adhesion mediated by cadherin cell division positive regulation of DNA repair regulation of double-strand break repair via nonhomologous end joining positive regulation of double-strand break repair via nonhomologous end joining double-strand break repair via nonhomologous end joining positive regulation of double-strand break repair regulation of epithelial to mesenchymal transition cellular developmental process positive regulation of epithelial to mesenchymal transition regulation of cell differentiation mesenchyme development positive regulation of cell differentiation cell differentiation animal organ development tissue development epithelial to mesenchymal transition mesenchymal cell differentiation regulation of cellular component organization positive regulation of cellular component organization positive regulation of cellular component biogenesis positive regulation of extracellular matrix organization extracellular matrix organization regulation of cellular component biogenesis cellular component biogenesis cellular component assembly regulation of extracellular matrix assembly positive regulation of extracellular matrix assembly regulation of extracellular matrix organization extracellular matrix assembly extracellular structure organization external encapsulating structure organization signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway signal transduction Wnt signaling pathway regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of cell communication regulation of growth growth regulation of cell growth cell growth positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-serine phosphorylation positive regulation of phosphate metabolic process peptidyl-serine modification positive regulation of protein modification process peptidyl-serine phosphorylation regulation of phosphate metabolic process phosphate-containing compound metabolic process peptidyl-amino acid modification protein metabolic process positive regulation of protein phosphorylation phosphorus metabolic process protein modification process organonitrogen compound metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of peptidyl-serine phosphorylation macromolecule modification regulation of phosphorus metabolic process regulation of phosphorylation intracellular signal transduction DNA damage response, signal transduction resulting in transcription signal transduction in response to DNA damage RNA metabolic process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process regulation of RNA biosynthetic process negative regulation of DNA-templated transcription nucleobase-containing compound biosynthetic process negative regulation of cellular biosynthetic process negative regulation of transcription by competitive promoter binding negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process postreplication repair DNA synthesis involved in DNA repair translesion synthesis error-prone translesion synthesis DNA biosynthetic process negative regulation of cell differentiation negative regulation of developmental process negative regulation of epithelial to mesenchymal transition negative regulation of multicellular organismal process positive regulation of DNA-templated transcription positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process catabolic process macromolecule catabolic process negative regulation of protein catabolic process negative regulation of protein metabolic process organonitrogen compound catabolic process negative regulation of catabolic process protein catabolic process regulation of catabolic process regulation of protein catabolic process transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II negative regulation of post-translational protein modification negative regulation of ubiquitin protein ligase activity regulation of catalytic activity regulation of protein ubiquitination negative regulation of catalytic activity regulation of transferase activity regulation of ubiquitin protein ligase activity negative regulation of ubiquitin-protein transferase activity protein ubiquitination negative regulation of transferase activity negative regulation of protein modification process regulation of ubiquitin-protein transferase activity negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal negative regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification negative regulation of molecular function regulation of molecular function post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization cytoskeleton organization	intracellular anatomical structure cytoplasm cellular anatomical entity membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex intracellular anatomical structure cytoplasm cellular anatomical entity membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex protein-DNA complex intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle transferase complex, transferring phosphorus-containing groups catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex intracellular protein-containing complex ubiquitin ligase complex nuclear protein-containing complex anaphase-promoting complex cullin-RING ubiquitin ligase complex nuclear ubiquitin ligase complex cytoskeleton spindle microtubule cytoskeleton site of double-strand break site of DNA damage
A	DNA repair protein REV1	deoxycytidyl transferase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid DNA binding binding organic cyclic compound binding damaged DNA binding nucleic acid binding deoxycytidyl transferase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid DNA binding binding organic cyclic compound binding damaged DNA binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	cellular response to stimulus postreplication repair response to stimulus cellular biosynthetic process DNA synthesis involved in DNA repair nucleobase-containing compound metabolic process nucleic acid biosynthetic process cellular response to stress response to stress DNA repair translesion synthesis cellular metabolic process primary metabolic process DNA metabolic process cellular response to stimulus postreplication repair response to stimulus cellular biosynthetic process DNA synthesis involved in DNA repair nucleobase-containing compound metabolic process nucleic acid biosynthetic process cellular response to stress response to stress DNA repair translesion synthesis cellular metabolic process primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process biosynthetic process DNA damage response metabolic process cellular process error-prone translesion synthesis macromolecule metabolic process DNA biosynthetic process response to light stimulus response to radiation response to abiotic stimulus response to UV error-free translesion synthesis	membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle cellular anatomical entity
D	DNA polymerase zeta catalytic subunit	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding nucleotide binding catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding cation binding ion binding metal ion binding	nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus postreplication repair response to stimulus cellular biosynthetic process DNA synthesis involved in DNA repair nucleic acid biosynthetic process cellular response to stress nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus postreplication repair response to stimulus cellular biosynthetic process DNA synthesis involved in DNA repair nucleic acid biosynthetic process cellular response to stress response to stress DNA repair translesion synthesis cellular metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process biosynthetic process DNA damage response cellular process error-prone translesion synthesis DNA biosynthetic process double-strand break repair DNA recombination recombinational repair double-strand break repair via homologous recombination	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR001126	UmuC domain	Domain
B	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
B	IPR036775	DNA polymerase, Y-family, little finger domain superfamily	Homologous Superfamily
B	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
B	IPR050116	DNA polymerase type-Y	Family
B	IPR022880	DNA polymerase IV	Family
B	IPR017961	DNA polymerase, Y-family, little finger domain	Domain
B	IPR006642	Rad18, zinc finger UBZ4-type	Domain
C	IPR045091	Mad2-like	Family
C	IPR036570	HORMA domain superfamily	Homologous Superfamily
C	IPR003511	HORMA domain	Domain
A	IPR047346	DNA repair protein REV1, ubiquitin-binding motif 1/2	Conserved Site
A	IPR031991	DNA repair protein Rev1, C-terminal	Domain
A	IPR001126	UmuC domain	Domain
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A	IPR036775	DNA polymerase, Y-family, little finger domain superfamily	Homologous Superfamily
A	IPR012112	DNA repair protein Rev1	Family
A	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A	IPR025527	HUWE1/REV1, ubiquitin-binding motif	Conserved Site
A	IPR038401	Rev1, C-terminal domain superfamily	Homologous Superfamily
A	IPR001357	BRCT domain	Domain
A	IPR017961	DNA polymerase, Y-family, little finger domain	Domain
A	IPR036420	BRCT domain superfamily	Homologous Superfamily
D	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
D	IPR006134	DNA-directed DNA polymerase, family B, multifunctional domain	Domain
D	IPR006172	DNA-directed DNA polymerase, family B	Family
D	IPR025687	C4-type zinc-finger of DNA polymerase delta	Domain
D	IPR030559	DNA polymerase zeta catalytic subunit	Family
D	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
D	IPR006133	DNA-directed DNA polymerase, family B, exonuclease domain	Domain
D	IPR042087	DNA polymerase family B, thumb domain	Homologous Superfamily
D	IPR017964	DNA-directed DNA polymerase, family B, conserved site	Conserved Site
D	IPR032757	Domain of unknown function DUF4683	Domain
D	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
D	IPR023211	DNA polymerase, palm domain superfamily	Homologous Superfamily