2GFQ | pdb_00002gfq

Structure of Protein of Unknown Function PH0006 from Pyrococcus horikoshii

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	d2gfqa1	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	AF0625-like	AF0625-like	Hypothetical protein PH0006	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d2gfqa3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d2gfqa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
B	d2gfqb2	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	AF0625-like	AF0625-like	Hypothetical protein PH0006	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
B	d2gfqb4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
B	d2gfqb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
C	d2gfqc2	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	AF0625-like	AF0625-like	Hypothetical protein PH0006	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
C	d2gfqc4	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
C	d2gfqc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	AF0625-like	8029465	4003095	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	AF0625-like	8041844	3000245	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	AF0625-like	8041844	3000245	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	AF0625-like	8041844	3000245	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	tRNA_deacylase_N	e2gfqA1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like (From Topology)	T: Peptidyl-tRNA hydrolase-like	F: tRNA_deacylase_N	ECOD (1.6)
A	tRNA_deacylase_C	e2gfqA2	A: a/b three-layered sandwiches	X: a/b domain in AF0625-like proteins (From Topology)	H: a/b domain in AF0625-like proteins (From Topology)	T: a/b domain in AF0625-like proteins	F: tRNA_deacylase_C	ECOD (1.6)
B	tRNA_deacylase_N	e2gfqB1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like (From Topology)	T: Peptidyl-tRNA hydrolase-like	F: tRNA_deacylase_N	ECOD (1.6)
B	tRNA_deacylase_C	e2gfqB2	A: a/b three-layered sandwiches	X: a/b domain in AF0625-like proteins (From Topology)	H: a/b domain in AF0625-like proteins (From Topology)	T: a/b domain in AF0625-like proteins	F: tRNA_deacylase_C	ECOD (1.6)
C	tRNA_deacylase_N	e2gfqC1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like (From Topology)	T: Peptidyl-tRNA hydrolase-like	F: tRNA_deacylase_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.630.50	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	AF0625-like	CATH (4.3.0)
A	3.40.50.10700	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	AF0625-like	CATH (4.3.0)
B	3.40.630.50	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	AF0625-like	CATH (4.3.0)
B	3.40.50.10700	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	AF0625-like	CATH (4.3.0)
C	3.40.630.50	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	AF0625-like	CATH (4.3.0)
C	3.40.50.10700	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	AF0625-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF04414	D-aminoacyl-tRNA deacylase (tRNA_deacylase)	D-aminoacyl-tRNA deacylase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	UPF0204 protein PH0006	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid D-aminoacyl-tRNA deacylase activity deacylase activity carboxylic ester hydrolase activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid D-aminoacyl-tRNA deacylase activity deacylase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity, acting on a tRNA catalytic activity	catabolic process oxoacid metabolic process non-proteinogenic amino acid catabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process alpha-amino acid catabolic process carboxylic acid catabolic process D-amino acid metabolic process metabolic process catabolic process oxoacid metabolic process non-proteinogenic amino acid catabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process alpha-amino acid catabolic process carboxylic acid catabolic process D-amino acid metabolic process metabolic process cellular process small molecule metabolic process small molecule catabolic process D-amino acid catabolic process amino acid catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR007508	D-aminoacyl-tRNA deacylase DtdA	Family
A, B, C	IPR018033	D-aminoacyl-tRNA deacylase, archaeal-type	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.