3IRH | pdb_00003irh

Structure of an Enterococcus Faecalis HD-domain protein complexed with dGTP and dATP

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)
A	d3irha_	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain	Hypothetical protein EF1143	Streptococcus faecalis (Enterococcus faecalis V583 ) [TaxId: 226185 ],	SCOPe (2.08)
B	d3irhb_	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain	Hypothetical protein EF1143	Streptococcus faecalis (Enterococcus faecalis V583 ) [TaxId: 226185 ],	SCOPe (2.08)
C	d3irhc_	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain	Hypothetical protein EF1143	Streptococcus faecalis (Enterococcus faecalis V583 ) [TaxId: 226185 ],	SCOPe (2.08)
D	d3irhd_	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain	Hypothetical protein EF1143	Streptococcus faecalis (Enterococcus faecalis V583 ) [TaxId: 226185 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	HD-domain/PDEase-like	8043394	3000943	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	HD-domain/PDEase-like	8043394	3000943	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	HD-domain/PDEase-like	8043394	3000943	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	HD-domain/PDEase-like	8043394	3000943	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)
A	HD	e3irhA1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: HD	ECOD (1.6)
B	HD	e3irhB1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: HD	ECOD (1.6)
C	HD	e3irhC1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: HD	ECOD (1.6)
D	HD	e3irhD1	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: HD	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.3210.10	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432	Hypothetical protein af1432	CATH (4.3.0)
A	1.20.1250.30	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)
B	1.10.3210.10	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432	Hypothetical protein af1432	CATH (4.3.0)
B	1.20.1250.30	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)
C	1.10.3210.10	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432	Hypothetical protein af1432	CATH (4.3.0)
C	1.20.1250.30	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)
D	1.10.3210.10	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432	Hypothetical protein af1432	CATH (4.3.0)
D	1.20.1250.30	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF19276	HD associated region (HD_assoc_2)	HD associated region	-	Family
A, B, C, D	PF01966	HD domain (HD)	HD domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	HD domain protein	phosphoric ester hydrolase activity triphosphoric monoester hydrolase activity dGTPase activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cation binding ion binding metal ion binding	deoxyribonucleotide catabolic process catabolic process nucleoside triphosphate catabolic process purine nucleoside triphosphate catabolic process purine deoxyribonucleoside triphosphate metabolic process carbohydrate derivative metabolic process organophosphate catabolic process dGTP metabolic process nucleoside phosphate catabolic process deoxyribose phosphate catabolic process nucleobase-containing compound metabolic process purine nucleotide metabolic process deoxyribonucleotide metabolic process purine deoxyribonucleoside triphosphate catabolic process nucleobase-containing small molecule metabolic process deoxyribonucleotide catabolic process catabolic process nucleoside triphosphate catabolic process purine nucleoside triphosphate catabolic process purine deoxyribonucleoside triphosphate metabolic process carbohydrate derivative metabolic process organophosphate catabolic process dGTP metabolic process nucleoside phosphate catabolic process deoxyribose phosphate catabolic process nucleobase-containing compound metabolic process purine nucleotide metabolic process deoxyribonucleotide metabolic process purine deoxyribonucleoside triphosphate catabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process nucleotide catabolic process deoxyribonucleoside triphosphate metabolic process nucleoside phosphate metabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process purine deoxyribonucleotide catabolic process carbohydrate derivative catabolic process 2'-deoxyribonucleotide metabolic process primary metabolic process purine-containing compound catabolic process deoxyribonucleoside triphosphate catabolic process nucleotide metabolic process deoxyribose phosphate metabolic process purine-containing compound metabolic process nucleobase-containing compound catabolic process organophosphate metabolic process purine deoxyribonucleotide metabolic process metabolic process cellular process nucleoside triphosphate metabolic process dGTP catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR003607	HD/PDEase domain	Domain
A, B, C, D	IPR050135	Deoxyguanosinetriphosphate triphosphohydrolase-like	Family
A, B, C, D	IPR045509	HD-associated domain	Domain
A, B, C, D	IPR006674	HD 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.