6IOY | pdb_00006ioy

Crystal structure of Porphyromonas gingivalis acetate kinase

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)
D	d6ioyd1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
D	d6ioyd3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
C	d6ioyc1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
C	d6ioyc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
B	d6ioyb1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
B	d6ioyb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
A	d6ioya1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)
A	d6ioya3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Porphyromonas gingivalis ATCC 33277 ) [TaxId: 431947 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Actin-like ATPases	8094257	3000092	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Actin-like ATPases	8094258	3000092	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Actin-like ATPases	8094258	3000092	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Actin-like ATPases	8094257	3000092	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Actin-like ATPases	8094257	3000092	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Actin-like ATPases	8094258	3000092	SCOP2B (2022-06-29)
A	SCOP2 Family	Acetokinase-like	8094256	4000522	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Actin-like ATPases	8094258	3000092	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Actin-like ATPases	8094257	3000092	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)
D	AAA_31	e6ioyD1	A: alpha bundles	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: AAA_31	ECOD (develop294)
C	AAA_31	e6ioyC1	A: alpha bundles	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: AAA_31	ECOD (develop294)
B	PAP_assoc	e6ioyB1	A: alpha bundles	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: PAP_assoc	ECOD (develop294)
A	AAA_31	e6ioyA1	A: alpha bundles	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: AAA_31	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
C	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
B	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
A	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Acetate kinase	kinase activity phosphotransferase activity, carboxyl group as acceptor transferase activity catalytic activity acetate kinase activity transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding kinase activity phosphotransferase activity, carboxyl group as acceptor transferase activity catalytic activity acetate kinase activity transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding	nucleoside phosphate metabolic process primary metabolic process acetyl-CoA metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process nucleobase-containing compound metabolic process acetyl-CoA biosynthetic process sulfur compound biosynthetic process acyl-CoA metabolic process biosynthetic process organophosphate metabolic process nucleobase-containing small molecule metabolic process organophosphate biosynthetic process purine-containing compound biosynthetic process acyl-CoA biosynthetic process nucleoside phosphate metabolic process primary metabolic process acetyl-CoA metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process nucleobase-containing compound metabolic process acetyl-CoA biosynthetic process sulfur compound biosynthetic process acyl-CoA metabolic process biosynthetic process organophosphate metabolic process nucleobase-containing small molecule metabolic process organophosphate biosynthetic process purine-containing compound biosynthetic process acyl-CoA biosynthetic process phosphate-containing compound metabolic process nucleoside phosphate biosynthetic process sulfur compound metabolic process metabolic process cellular process small molecule metabolic process phosphorus metabolic process oxoacid metabolic process carboxylic acid metabolic process acetate metabolic process monocarboxylic acid metabolic process organic acid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000890	Aliphatic acid kinase, short-chain	Family
A, B, C, D	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
A, B, C, D	IPR004372	Acetate/propionate kinase	Family
A, B, C, D	IPR023865	Aliphatic acid kinase, short-chain, conserved site	Conserved Site

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.