4GXQ | pdb_00004gxq

Crystal Structure of ATP bound RpMatB-BxBclM chimera B1

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
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d4gxqc_	Multi-domain proteins (alpha and beta)	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	automated matches	automated matches	(Rhodopseudomonas palustris CGA009 ) [TaxId: 258594 ], (Rhodopseudomonas palustris CGA009 ) [TaxId: 258594 ], (Paraburkholderia xenovorans LB400 ) [TaxId: 266265 ],	SCOPe (2.08)
B	d4gxqb_	Multi-domain proteins (alpha and beta)	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	automated matches	automated matches	(Rhodopseudomonas palustris CGA009 ) [TaxId: 258594 ], (Rhodopseudomonas palustris CGA009 ) [TaxId: 258594 ], (Paraburkholderia xenovorans LB400 ) [TaxId: 266265 ],	SCOPe (2.08)
A	d4gxqa_	Multi-domain proteins (alpha and beta)	Acetyl-CoA synthetase-like	Acetyl-CoA synthetase-like	automated matches	automated matches	(Rhodopseudomonas palustris CGA009 ) [TaxId: 258594 ], (Rhodopseudomonas palustris CGA009 ) [TaxId: 258594 ], (Paraburkholderia xenovorans LB400 ) [TaxId: 266265 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	V-set	e4gxqC1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
C	ADAM_CR	e4gxqC2	A: alpha bundles	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: ADAM_CR	ECOD (develop294)
B	V-set	e4gxqB1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
B	ADAM_CR	e4gxqB2	A: alpha bundles	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: ADAM_CR	ECOD (develop294)
A	GFP	e4gxqA1	A: alpha bundles	X: Globin-like	H: Nucleoside diphosphate kinases	T: Nucleoside diphosphate kinases	F: GFP	ECOD (develop294)
A	zf-MYND	e4gxqA2	A: alpha bundles	X: jelly-roll	H: Double-stranded beta-helix	T: Double-stranded beta-helix	F: zf-MYND	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

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

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00501	AMP-binding enzyme (AMP-binding)	AMP-binding enzyme	-	Family
A, B, C	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, C	Malonyl CoA synthetase, Benzoate-CoA ligase Chimeric protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding CoA-ligase activity ligase activity, forming carbon-sulfur bonds benzoate-CoA ligase activity catalytic activity acid-thiol ligase activity ligase activity fatty acid ligase activity medium-chain fatty acid-CoA ligase activity fatty acid-CoA ligase activity ATP-dependent activity	secondary metabolite biosynthetic process biosynthetic process metabolic process cellular process secondary metabolic process fatty acid metabolic process oxoacid metabolic process carboxylic acid metabolic process primary metabolic process small molecule metabolic process monocarboxylic acid metabolic process organic acid metabolic process lipid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR045851	AMP-binding enzyme domain superfamily	Homologous Superfamily
A, B, C	IPR025110	AMP-binding enzyme, C-terminal domain	Domain
A, B, C	IPR000873	AMP-dependent synthetase/ligase domain	Domain
A, B, C	IPR011957	Benzoate-CoA ligase family	Family
A, B, C	IPR020845	AMP-binding, conserved site	Conserved Site
A, B, C	IPR042099	ANL, N-terminal domain	Homologous Superfamily
A, B, C	IPR045851	AMP-binding enzyme domain superfamily	Homologous Superfamily
A, B, C	IPR025110	AMP-binding enzyme, C-terminal domain	Domain
A, B, C	IPR000873	AMP-dependent synthetase/ligase domain	Domain

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C	MLY	Parent Component: LYS RESID: AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084

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.