2FR6 | pdb_00002fr6

Crystal Structure of Mouse Cytidine Deaminase Complexed with Cytidine

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d2fr6d_	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2fr6c_	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2fr6b_	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2fr6a_	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Cytidine deaminase-like	8041303	3001838	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cytidine deaminase-like	8041303	3001838	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cytidine deaminase-like	8041303	3001838	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Cytidine deaminase-like	8041303	3001838	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D		e2fr6D1	A: HTH	X: HTH	H: winged helix domain	T: EF-hand_1, EF-hand_7	F:	ECOD (20:10:01)
C		e2fr6C1	A: HTH	X: HTH	H: winged helix domain	T: EF-hand_1, EF-hand_7	F:	ECOD (20:10:01)
B		e2fr6B1	A: HTH	X: HTH	H: winged helix domain	T: EF-hand_1, EF-hand_7	F:	ECOD (20:10:01)
A		e2fr6A1	A: HTH	X: HTH	H: winged helix domain	T: EF-hand_1, EF-hand_7	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
C	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
B	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
A	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00383	Cytidine and deoxycytidylate deaminase zinc-binding region (dCMP_cyt_deam_1)	Cytidine and deoxycytidylate deaminase zinc-binding region		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Cytidine deaminase	binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding identical protein binding protein binding protein homodimerization activity protein dimerization activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines cytidine deaminase activity hydrolase activity catalytic activity deaminase activity binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding identical protein binding protein binding protein homodimerization activity protein dimerization activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines cytidine deaminase activity hydrolase activity catalytic activity deaminase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding transition metal ion binding zinc ion binding ion binding metal ion binding	pyrimidine ribonucleotide catabolic process ribose phosphate metabolic process ribonucleotide catabolic process pyrimidine ribonucleoside monophosphate catabolic process CMP catabolic process catabolic process pyrimidine-containing compound catabolic process organophosphate catabolic process carbohydrate derivative metabolic process nucleoside phosphate catabolic process pyrimidine nucleotide metabolic process nucleobase-containing compound metabolic process pyrimidine nucleotide catabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process pyrimidine ribonucleotide catabolic process ribose phosphate metabolic process ribonucleotide catabolic process pyrimidine ribonucleoside monophosphate catabolic process CMP catabolic process catabolic process pyrimidine-containing compound catabolic process organophosphate catabolic process carbohydrate derivative metabolic process nucleoside phosphate catabolic process pyrimidine nucleotide metabolic process nucleobase-containing compound metabolic process pyrimidine nucleotide catabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process ribonucleoside monophosphate catabolic process phosphorus metabolic process nucleoside monophosphate metabolic process pyrimidine ribonucleotide metabolic process nucleotide catabolic process pyrimidine nucleoside monophosphate catabolic process nucleoside phosphate metabolic process pyrimidine nucleoside monophosphate metabolic process carbohydrate derivative catabolic process pyrimidine-containing compound metabolic process pyrimidine ribonucleoside monophosphate metabolic process nucleoside monophosphate catabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound catabolic process CMP metabolic process organophosphate metabolic process metabolic process cellular process pyrimidine deoxyribonucleotide catabolic process pyrimidine deoxyribonucleoside monophosphate catabolic process deoxyribonucleoside monophosphate catabolic process deoxyribonucleotide catabolic process pyrimidine deoxyribonucleotide metabolic process dCMP catabolic process deoxyribose phosphate catabolic process pyrimidine deoxyribonucleoside monophosphate metabolic process deoxyribonucleotide metabolic process dCMP metabolic process 2'-deoxyribonucleotide metabolic process nucleotide biosynthetic process pyrimidine ribonucleotide salvage pyrimidine-containing compound salvage pyrimidine nucleotide salvage nucleotide salvage metabolic compound salvage ribonucleotide biosynthetic process UMP salvage UMP biosynthetic process UMP metabolic process pyrimidine-containing compound biosynthetic process ribose phosphate biosynthetic process carbohydrate derivative biosynthetic process nucleobase-containing compound biosynthetic process nucleoside monophosphate biosynthetic process biosynthetic process pyrimidine ribonucleoside monophosphate biosynthetic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process pyrimidine nucleoside monophosphate biosynthetic process ribonucleoside monophosphate biosynthetic process pyrimidine nucleotide biosynthetic process pyrimidine ribonucleotide biosynthetic process cellular response to biotic stimulus cellular response to stimulus cellular response to external biotic stimulus response to stimulus response to external stimulus response to external biotic stimulus response to biotic stimulus cellular response to external stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR016193	Cytidine deaminase-like	Homologous Superfamily
A, B, C, D	IPR050202	Cytidine and Deoxycytidylate Deaminase	Family
A, B, C, D	IPR006262	Cytidine deaminase, homotetrameric	Family
A, B, C, D	IPR002125	Cytidine and deoxycytidylate deaminase domain	Domain
A, B, C, D	IPR016192	APOBEC/CMP deaminase, zinc-binding	Binding Site

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.