2YV2 | pdb_00002yv2

Crystal Structure of Succinyl-CoA Synthetase Alpha Chain from Aeropyrum pernix K1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d2yv2a1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	CoA-binding domain	Succinyl-CoA synthetase, alpha-chain, N-terminal (CoA-binding) domain	(Aeropyrum pernix K1 ) [TaxId: 272557 ],	SCOPe (2.08)
A	d2yv2a2	Alpha and beta proteins (a/b)	Flavodoxin-like	Succinyl-CoA synthetase domains	Succinyl-CoA synthetase domains	Succinyl-CoA synthetase, alpha-chain, C-terminal domain	(Aeropyrum pernix K1 ) [TaxId: 272557 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e2yv2A3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Ank_2, Ank_4, Ank_5	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.40.50.261	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Succinyl-CoA synthetase domains	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02629	CoA binding domain (CoA_binding)	CoA binding domain	This domain has a Rossmann fold and is found in a number of proteins including succinyl CoA synthetases, malate and ATP-citrate ligases.	Domain
A	PF00549	CoA-ligase (Ligase_CoA)	CoA-ligase	This family includes the CoA ligases Succinyl-CoA synthetase alpha and beta chains, malate CoA ligase and ATP-citrate lyase. Some members of the family utilise ATP others use GTP.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Succinyl-CoA synthetase alpha chain	succinate-CoA ligase (ADP-forming) activity succinate-CoA ligase activity ligase activity, forming carbon-sulfur bonds catalytic activity acid-thiol ligase activity ligase activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding succinate-CoA ligase (GDP-forming) activity	aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy	succinate-CoA ligase complex (ADP-forming) protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex tricarboxylic acid cycle heteromeric enzyme complex cytoplasm succinate-CoA ligase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A	IPR005810	Succinyl-CoA ligase, alpha subunit	Family
A	IPR005811	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Domain
A	IPR016102	Succinyl-CoA synthetase-like	Homologous Superfamily
A	IPR017440	ATP-citrate lyase/succinyl-CoA ligase, active site	Active Site
A	IPR033847	ATP-citrate lyase/succinyl-CoA ligase, conserved site	Conserved Site
A	IPR003781	CoA-binding	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.