8TLT | pdb_00008tlt

Cryo-EM structure of Rev1(deltaN)-Polzeta-DNA-dCTP complex

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth F]	PF04042	DNA polymerase alpha/epsilon subunit B (DNA_pol_E_B)	DNA polymerase alpha/epsilon subunit B	-	Family
D [auth F]	PF18018	DNA polymerase delta subunit OB-fold domain (DNA_pol_D_N)	DNA polymerase delta subunit OB-fold domain	The eukaryotic DNA polymerase delta (Pol delta) participates in genome replication, homologous recombination, DNA repair and damage tolerance [1]. Human Pol delta consists of four subunits: p125, p50, p66 and p12. The first three subunits correspond ...	The eukaryotic DNA polymerase delta (Pol delta) participates in genome replication, homologous recombination, DNA repair and damage tolerance [1]. Human Pol delta consists of four subunits: p125, p50, p66 and p12. The first three subunits correspond to the three subunits of S. cerevisiae Pol delta. p50 serves as a scaffold for the assembly of Pol delta by interacting simultaneously with all of the other three subunits. This entry corresponds to the OB fold domain found in the p50 subunit.	Domain
B [auth D], C [auth E]	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	PF24055	DNA polymerase delta catalytic subunit-like, N-terminal domain (POL3_N)	DNA polymerase delta catalytic subunit-like, N-terminal domain	This domain is found towards the N-terminal of DNA polymerase delta catalytic subunit from Saccharomyces cerevisiae (POL3) and similar eukaryotic protein sequences. POL3 is the catalytic component of DNA polymerase delta (DNA polymerase III), which p ...	This domain is found towards the N-terminal of DNA polymerase delta catalytic subunit from Saccharomyces cerevisiae (POL3) and similar eukaryotic protein sequences. POL3 is the catalytic component of DNA polymerase delta (DNA polymerase III), which participates in chromosomal DNA replication. This domain shows an alpha-beta configuration [1,6].	Domain
A	PF24065	DNA polymerase zeta catalytic subunit, N-terminal (REV3_N)	DNA polymerase zeta catalytic subunit, N-terminal	This domain is found at the N-terminal end of DNA polymerase zeta catalytic subunit (REV3) from Saccharomyces cerevisiae and similar eukaryotic sequences. REV3 is a nonessential DNA polymerase involved in DNA repair, mitochondrial DNA repair and tran ...	This domain is found at the N-terminal end of DNA polymerase zeta catalytic subunit (REV3) from Saccharomyces cerevisiae and similar eukaryotic sequences. REV3 is a nonessential DNA polymerase involved in DNA repair, mitochondrial DNA repair and translesion synthesis. This domain shows a mainly beta- configuration [1-3]. It is often found N-terminal to Pfam:PF24055.	Domain
A	PF03104	DNA polymerase family B, exonuclease domain (DNA_pol_B_exo1)	DNA polymerase family B, exonuclease domain	-	Family
A	PF00136	DNA polymerase family B (DNA_pol_B)	DNA polymerase family B	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
H [auth T]	DNA (5'-D(TPAPAPTPGPGPTPAPGPGPGPGPAPGPGPGPAPAP*T)-3')	-	-	-
G [auth P]	DNA (5'-D(PCPCPCPTPCPCPCPCPTPAP*C)-3')	-	-	-
F [auth B]	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 damaged DNA binding nucleic acid binding cation 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 damaged DNA binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	translesion synthesis cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process nucleic acid metabolic process DNA synthesis involved in DNA replication nucleobase-containing compound metabolic process nucleic acid biosynthetic process DNA replication biosynthetic process cellular response to stress translesion synthesis cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process nucleic acid metabolic process DNA synthesis involved in DNA replication nucleobase-containing compound metabolic process nucleic acid biosynthetic process DNA replication biosynthetic process cellular response to stress DNA damage response response to stress metabolic process cellular process error-prone translesion synthesis macromolecule metabolic process DNA biosynthetic process DNA repair error-free translesion synthesis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membraneless organelle replication fork intracellular membraneless organelle chromosome chromatin nucleus
E [auth G]	DNA polymerase delta subunit 3	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 H3-H4 histone complex chaperone activity protein carrier chaperone histone chaperone activity molecular carrier activity	DNA-templated DNA replication lagging strand elongation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA strand elongation DNA replication metabolic process cellular process DNA strand elongation involved in DNA replication macromolecule metabolic process leading strand elongation translesion synthesis DNA-templated DNA replication lagging strand elongation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA strand elongation DNA replication metabolic process cellular process DNA strand elongation involved in DNA replication macromolecule metabolic process leading strand elongation translesion synthesis cellular response to stimulus response to stimulus nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process DNA synthesis involved in DNA replication nucleic acid biosynthetic process biosynthetic process cellular response to stress DNA damage response response to stress error-prone translesion synthesis DNA biosynthetic process DNA replication, removal of RNA primer catabolic process RNA metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleic acid catabolic process RNA catabolic process base-excision repair DNA repair nucleotide-excision repair RNA-templated DNA biosynthetic process DNA amplification double-strand break repair DNA recombination double-strand break repair via break-induced replication recombinational repair double-strand break repair via homologous recombination	transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex intracellular protein-containing complex membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex intracellular protein-containing complex membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle cellular anatomical structure nuclear replisome membraneless organelle replication fork delta DNA polymerase complex protein-DNA complex nuclear replication fork intracellular membraneless organelle intracellular membrane-bounded organelle organelle lumen organelle nuclear lumen replisome
D [auth F]	DNA polymerase delta small 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 nucleic acid binding	DNA-templated DNA replication primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA strand elongation DNA replication metabolic process cellular process DNA strand elongation involved in DNA replication macromolecule metabolic process lagging strand elongation leading strand elongation cellular response to stimulus DNA-templated DNA replication primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA strand elongation DNA replication metabolic process cellular process DNA strand elongation involved in DNA replication macromolecule metabolic process lagging strand elongation leading strand elongation cellular response to stimulus response to stimulus DNA damage tolerance cellular response to stress DNA damage response response to stress DNA replication, removal of RNA primer catabolic process RNA metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleic acid catabolic process RNA catabolic process base-excision repair DNA repair mismatch repair nucleotide-excision repair nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA-templated DNA biosynthetic process nucleic acid biosynthetic process biosynthetic process DNA biosynthetic process	transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex intracellular protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex intracellular protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle nuclear replisome membraneless organelle replication fork delta DNA polymerase complex protein-DNA complex nuclear replication fork intracellular membraneless organelle intracellular membrane-bounded organelle organelle lumen organelle nuclear lumen replisome
B [auth D], C [auth E]	DNA polymerase zeta processivity subunit	-	translesion synthesis cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process nucleic acid metabolic process DNA synthesis involved in DNA replication nucleobase-containing compound metabolic process nucleic acid biosynthetic process DNA replication biosynthetic process cellular response to stress translesion synthesis cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process nucleic acid metabolic process DNA synthesis involved in DNA replication nucleobase-containing compound metabolic process nucleic acid biosynthetic process DNA replication biosynthetic process cellular response to stress DNA damage response response to stress metabolic process cellular process error-prone translesion synthesis macromolecule metabolic process DNA biosynthetic process DNA repair error-free translesion synthesis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular 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 membraneless organelle intracellular membraneless organelle chromatin chromosome nucleus
A	DNA polymerase zeta catalytic subunit	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 catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity 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 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 nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process translesion synthesis cellular response to stimulus response to stimulus nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process translesion synthesis cellular response to stimulus response to stimulus nucleobase-containing compound biosynthetic process DNA damage tolerance macromolecule biosynthetic process error-free translesion synthesis DNA synthesis involved in DNA replication nucleic acid biosynthetic process biosynthetic process cellular response to stress DNA damage response response to stress DNA biosynthetic process error-prone translesion synthesis double-strand break repair DNA recombination recombinational repair double-strand break repair via homologous recombination DNA repair	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex zeta DNA polymerase complex transferase complex DNA polymerase complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular 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 nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F [auth B]	IPR001126	UmuC domain	Domain
F [auth B]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
F [auth B]	IPR036775	DNA polymerase, Y-family, little finger domain superfamily	Homologous Superfamily
F [auth B]	IPR012112	DNA repair protein Rev1	Family
F [auth B]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
F [auth B]	IPR001357	BRCT domain	Domain
F [auth B]	IPR017961	DNA polymerase, Y-family, little finger domain	Domain
F [auth B]	IPR053848	DNA polymerase IV/DNA polymerase iota-like, thumb domain	Domain
F [auth B]	IPR036420	BRCT domain superfamily	Homologous Superfamily
D [auth F]	IPR024826	DNA polymerase delta/II small subunit family	Family
D [auth F]	IPR007185	DNA polymerase alpha/delta/epsilon, subunit B	Domain
D [auth F]	IPR040663	DNA polymerase delta subunit, OB-fold domain	Domain
D [auth F]	IPR041863	DNA polymerase delta subunit 2, C-terminal domain	Domain
B [auth D], C [auth E]	IPR036570	HORMA domain superfamily	Homologous Superfamily
B [auth D], C [auth E]	IPR003511	HORMA domain	Domain
B [auth D], C [auth E]	IPR045091	Mad2-like	Family
A	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A	IPR006134	DNA-directed DNA polymerase, family B, multifunctional domain	Domain
A	IPR030559	DNA polymerase zeta catalytic subunit	Family
A	IPR017964	DNA-directed DNA polymerase, family B, conserved site	Conserved Site
A	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A	IPR023211	DNA polymerase, palm domain superfamily	Homologous Superfamily
A	IPR006172	DNA-directed DNA polymerase, family B	Family
A	IPR025687	C4-type zinc-finger of DNA polymerase delta	Domain
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A	IPR006133	DNA-directed DNA polymerase, family B, exonuclease domain	Domain
A	IPR056447	DNA polymerase zeta catalytic subunit, N-terminal	Domain
A	IPR056435	DNA polymerase delta/zeta catalytic subunit, N-terminal domain	Domain
A	IPR042087	DNA polymerase family B, thumb domain	Homologous Superfamily