6K63 | pdb_00006k63

The crystal structure of cytidine deaminase from Klebsiella pneumoniae

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)
D	d6k63d1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	mono-domain cytidine deaminase	(Klebsiella pneumoniae subsp. pneumoniae MGH 78578 ) [TaxId: 272620 ],	SCOPe (2.08)
C	d6k63c1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	mono-domain cytidine deaminase	(Klebsiella pneumoniae subsp. pneumoniae MGH 78578 ) [TaxId: 272620 ],	SCOPe (2.08)
B	d6k63b1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	mono-domain cytidine deaminase	(Klebsiella pneumoniae subsp. pneumoniae MGH 78578 ) [TaxId: 272620 ],	SCOPe (2.08)
A	d6k63a1	Alpha and beta proteins (a/b)	Cytidine deaminase-like	Cytidine deaminase-like	Cytidine deaminase	mono-domain cytidine deaminase	(Klebsiella pneumoniae subsp. pneumoniae MGH 78578 ) [TaxId: 272620 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	dCMP_cyt_deam_1	e6k63D1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_1	ECOD (1.6)
D	dCMP_cyt_deam_2	e6k63D2	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_2	ECOD (1.6)
C	dCMP_cyt_deam_1	e6k63C1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_1	ECOD (1.6)
C	dCMP_cyt_deam_2	e6k63C2	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_2	ECOD (1.6)
B	dCMP_cyt_deam_1	e6k63B2	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_1	ECOD (1.6)
B	dCMP_cyt_deam_2	e6k63B1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_2	ECOD (1.6)
A	dCMP_cyt_deam_1	e6k63A1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_1	ECOD (1.6)
A	dCMP_cyt_deam_2	e6k63A2	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: dCMP_cyt_deam_2	ECOD (1.6)

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 (utative)
C	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (utative)
B	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (utative)
A	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF08211	Cytidine and deoxycytidylate deaminase zinc-binding region (dCMP_cyt_deam_2)	Cytidine and deoxycytidylate deaminase zinc-binding region	-	Family
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	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule 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 identical protein binding cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule 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 identical protein binding protein binding	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

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

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.