2A0K | pdb_00002a0k

Crystal structure of Nucleoside 2-deoxyribosyltransferase from Trypanosoma brucei at 1.8 A resolution

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)
B	d2a0kb2	Alpha and beta proteins (a/b)	Flavodoxin-like	N-(deoxy)ribosyltransferase-like	N-deoxyribosyltransferase	Nucleoside 2-deoxyribosyltransferase	(Trypanosoma brucei ) [TaxId: 5691 ],	SCOPe (2.08)
B	d2a0kb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Trypanosoma brucei ) [TaxId: 5691 ],	SCOPe (2.08)
A	d2a0ka1	Alpha and beta proteins (a/b)	Flavodoxin-like	N-(deoxy)ribosyltransferase-like	N-deoxyribosyltransferase	Nucleoside 2-deoxyribosyltransferase	(Trypanosoma brucei ) [TaxId: 5691 ],	SCOPe (2.08)
A	d2a0ka2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Trypanosoma brucei ) [TaxId: 5691 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	N-(deoxy)ribosyltransferase-like	8040560	3001392	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	N-(deoxy)ribosyltransferase-like	8040560	3001392	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)
B		e2a0kB1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_1	F:	ECOD (20:10:01)
A		e2a0kA1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_1	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.450	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.40.50.450	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05014	Nucleoside 2-deoxyribosyltransferase (Nuc_deoxyrib_tr)	Nucleoside 2-deoxyribosyltransferase	Nucleoside 2-deoxyribosyltransferase EC:2.4.2.6 catalyses the cleavage of the glycosidic bonds of 2`-deoxyribonucleosides [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Nucleoside 2-deoxyribosyltransferase	hydrolase activity, acting on glycosyl bonds hydrolase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity 5-hydroxymethyl-dUMP N-hydrolase activity	nucleoside phosphate metabolic process deoxyribonucleoside monophosphate catabolic process nucleoside monophosphate catabolic process catabolic process organophosphate catabolic process primary metabolic process nucleoside phosphate catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process metabolic process cellular process nucleoside phosphate metabolic process deoxyribonucleoside monophosphate catabolic process nucleoside monophosphate catabolic process catabolic process organophosphate catabolic process primary metabolic process nucleoside phosphate catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process metabolic process cellular process small molecule metabolic process phosphorus metabolic process nucleoside monophosphate metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR007710	Nucleoside 2-deoxyribosyltransferase	Family
A, B	IPR051239	2'-Deoxynucleoside 5'-phosphate N-hydrolase	Family

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.

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