1V25 | pdb_00001v25

Crystal structure of tt0168 from Thermus thermophilus HB8

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
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1v25a_	Multi-domain proteins (alpha and beta)	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	Long chain fatty acid-CoA ligase TT0168	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
B	d1v25b_	Multi-domain proteins (alpha and beta)	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	Long chain fatty acid-CoA ligase TT0168	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	AMP-binding enzyme-like	8041129	3001902	SCOP2B (2022-06-29)
B	SCOP2 Family	AMP-binding enzyme-like	8028750	4002922	SCOP2 (2022-06-29)
B	SCOP2 Family	AMP-binding enzyme C-terminal domain-like	8055426	4007642	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	AMP-binding enzyme-like	8041129	3001902	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	AMP-binding enzyme C-terminal domain-like	8055427	3002292	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)
A	AMP-binding_C	e1v25A2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: a+b domain in acetyl-CoA synthetase-like proteins	T: a+b domain in acetyl-CoA synthetase-like proteins	F: AMP-binding_C	ECOD (develop294)
A	AMP-binding	e1v25A3	A: alpha bundles	X: Flavodoxin-like	H: CoA-dependent acyltransferases	T: CoA-dependent acyltransferases	F: AMP-binding	ECOD (develop294)
B	Melibiase_C	e1v25B6	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Melibiase_C	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.12780	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	ANL, N-terminal domain	CATH (4.3.0)
A	3.30.300.30	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
B	3.40.50.12780	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	ANL, N-terminal domain	CATH (4.3.0)
B	3.30.300.30	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00501	AMP-binding enzyme (AMP-binding)	AMP-binding enzyme	-	Family
A, B	PF13193	AMP-binding enzyme C-terminal domain (AMP-binding_C)	AMP-binding enzyme C-terminal domain	This is a small domain that is found C terminal to Pfam:PF00501. It has a central beta sheet core that is flanked by alpha helices.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	long-chain-fatty-acid-CoA synthetase	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 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 CoA-ligase activity fatty acid ligase activity long-chain fatty acid-CoA ligase activity ligase activity, forming carbon-sulfur bonds fatty acid-CoA ligase activity catalytic activity acid-thiol ligase activity ligase activity ATP-dependent activity identical protein binding protein binding protein homodimerization activity protein dimerization activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR020845	AMP-binding, conserved site	Conserved Site
A, B	IPR042099	ANL, N-terminal domain	Homologous Superfamily
A, B	IPR045851	AMP-binding enzyme domain superfamily	Homologous Superfamily
A, B	IPR025110	AMP-binding enzyme, C-terminal domain	Domain
A, B	IPR000873	AMP-dependent synthetase/ligase domain	Domain

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	long-chain-fatty-acid-CoA ligase M-CSA #198	Long chain fatty acid coenzyme-A synthetase (LC-FACS) participates in the first reaction step of long chain fatty acid degradation. These enzymes act on a wide range of long-chain saturated and unsaturated fatty acids, but the enzymes from different tissues and species show some variation in specificity. For example, the liver enzyme acts on acids from C6 to C20, that from brain shows high activity up to C24, and the enzyme from Thermus thermophilus acts on C12 to C22 fatty acids. LC-FACS catalyses the conversion of long chain fatty acids into fatty-acyl-CoA, creating AMP and pyrophosphate as bi-products. LC-FACS is responsible for physiological regulation of cellular functions, as well as fatty acid degradation.	Defined by 4 residues: THR:A-184GLU:A-328LYS:A-439TRP:A-444 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 6.2.1.3 (PDB Primary Data) Search M-CSA Motif + EC 6.2.1.3

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.