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
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)
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)
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)
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)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	AF0625-like	8041844	3000245	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	AF0625-like	8041844	3000245	SCOP2B (2022-06-29)
A	SCOP2 Family	AF0625-like	8029465	4003095	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	AF0625-like	8041844	3000245	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	NAD_binding_1	e2gfqC1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: NAD_binding_1	ECOD (develop294)
C	RecU	e2gfqC2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: RecU	ECOD (develop294)
B	NAD_binding_1	e2gfqB1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: NAD_binding_1	ECOD (develop294)
B	RecU	e2gfqB2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: RecU	ECOD (develop294)
A	tRNA_deacylase	e2gfqA1	A: alpha bundles	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: tRNA_deacylase	ECOD (develop294)
A	tRNA_deacylase	e2gfqA2	A: alpha bundles	X: Flavodoxin-like	H: a/b domain in AF0625-like proteins	T: a/b domain in AF0625-like proteins	F: tRNA_deacylase	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)
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)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	UPF0204 protein PH0006	Gly-tRNA(Ala) deacylase activity aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid deacylase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity, acting on a tRNA catalytic activity cation binding transition metal ion binding zinc ion binding ion binding Gly-tRNA(Ala) deacylase activity aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid deacylase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity, acting on a tRNA catalytic activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding D-aminoacyl-tRNA deacylase 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.