4EG2 | pdb_00004eg2

2.2 Angstrom Crystal Structure of Cytidine deaminase from Vibrio cholerae in Complex with Zinc and Uridine

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
H	d4eg2h1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
H	d4eg2h3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
G	d4eg2g1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
G	d4eg2g3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
F	d4eg2f1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
F	d4eg2f3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
E	d4eg2e1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
E	d4eg2e3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
D	d4eg2d1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
D	d4eg2d3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
C	d4eg2c1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
C	d4eg2c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
B	d4eg2b1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
B	d4eg2b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
A	d4eg2a1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	automated matches	automated matches	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)
A	d4eg2a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae ) [TaxId: 666 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H		e4eg2H3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
G		e4eg2G3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
F		e4eg2F3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
E		e4eg2E3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
D		e4eg2D3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
C		e4eg2C3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
B		e4eg2B3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)
A		e4eg2A3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
G	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
F	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
E	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)
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, E A, B, C, D, E, F, G, H	PF08211	Cytidine and deoxycytidylate deaminase zinc-binding region (dCMP_cyt_deam_2)	Cytidine and deoxycytidylate deaminase zinc-binding region	-	Family
A, B, C, D, E A, B, C, D, E, F, G, H	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, E A, B, C, D, E, F, G, H	Cytidine deaminase	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 binding metal ion binding small molecule binding identical protein binding 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 binding metal ion binding small molecule binding identical protein binding protein binding	pyrimidine-containing compound metabolic process metabolic process cellular process nucleobase-containing compound metabolic process nucleobase-containing small molecule metabolic process small molecule metabolic process primary metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR006263	Cytidine deaminase, homodimeric	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR020797	Cytidine deaminase, bacteria	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR016193	Cytidine deaminase-like	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR050202	Cytidine and Deoxycytidylate Deaminase	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR002125	Cytidine and deoxycytidylate deaminase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR016192	APOBEC/CMP deaminase, zinc-binding	Binding Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR013171	Cytidine/deoxycytidylate deaminase, zinc-binding domain	Domain

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.