4NA2 | pdb_00004na2

Crystal Structure of the second ketosynthase from the bacillaene polyketide synthase bound to its natural intermediate

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Thiolase-like	8055888	3000122	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	KASAT domain-like	8055886	3002319	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Thiolase-like	8055888	3000122	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	KASAT domain-like	8055886	3002319	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	DUF4170	e4na2B2	A: alpha bundles	X: DEATH domain	H: HTH	T: winged helix domain	F: DUF4170	ECOD (develop294)
B	PI3K_C2	e4na2B5	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: PI3K_C2	ECOD (develop294)
B	RhiE-like_linker	e4na2B3	A: alpha bundles	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: RhiE-like_linker	ECOD (develop294)
A	DUF4170	e4na2A2	A: alpha bundles	X: DEATH domain	H: HTH	T: winged helix domain	F: DUF4170	ECOD (develop294)
A	Formyl_trans_N	e4na2A4	A: alpha bundles	X: Anticodon-binding domain of Class II aaRS	H: Anticodon-binding domain of Class II aaRS	T: Anticodon-binding domain of Class II aaRS	F: Formyl_trans_N	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.47.10	Alpha Beta	3-Layer(aba) Sandwich	Peroxisomal Thiolase	Chain A, domain 1	CATH (4.3.0)
B	1.10.1240.100	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
A	3.40.47.10	Alpha Beta	3-Layer(aba) Sandwich	Peroxisomal Thiolase	Chain A, domain 1	CATH (4.3.0)
A	1.10.1240.100	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02801	Beta-ketoacyl synthase, C-terminal domain (Ketoacyl-synt_C)	Beta-ketoacyl synthase, C-terminal domain	The structure of beta-ketoacyl synthase is similar to that of the thiolase family (Pfam:PF00108) and also chalcone synthase. The active site of beta-ketoacyl synthase is located between the N and C-terminal domains.	Domain
A, B	PF00109	Beta-ketoacyl synthase, N-terminal domain (ketoacyl-synt)	Beta-ketoacyl synthase, N-terminal domain	The structure of beta-ketoacyl synthase is similar to that of the thiolase family (Pfam:PF00108) and also chalcone synthase. The active site of beta-ketoacyl synthase is located between the N and C-terminal domains. The N-terminal domain contains m ...	The structure of beta-ketoacyl synthase is similar to that of the thiolase family (Pfam:PF00108) and also chalcone synthase. The active site of beta-ketoacyl synthase is located between the N and C-terminal domains. The N-terminal domain contains most of the structures involved in dimer formation and also the active site cysteine [1].	Domain
A, B	PF22336	RhiE-like, KS-MAT linker domain (RhiE-like_linker)	RhiE-like, KS-MAT linker domain	This entry represents a linker domain found in polyketide synthases, which connects the N-terminal domains with the B-domain as described in RhiE [1-3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Polyketide synthase PksJ	vitamin binding modified amino acid binding binding ion binding anion binding phosphopantetheine binding sulfur compound binding small molecule binding acyltransferase activity 3-oxoacyl-[acyl-carrier-protein] synthase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity fatty acid synthase activity vitamin binding modified amino acid binding binding ion binding anion binding phosphopantetheine binding sulfur compound binding small molecule binding acyltransferase activity 3-oxoacyl-[acyl-carrier-protein] synthase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity fatty acid synthase activity ligase activity	antibiotic metabolic process biosynthetic process metabolic process cellular process antibiotic biosynthetic process cellular component biogenesis cellular component organization peptidoglycan-based cell wall biogenesis cellular component assembly cell wall biogenesis DIM/DIP cell wall layer assembly cell wall organization or biogenesis Actinobacterium-type cell wall biogenesis cellular component organization or biogenesis antibiotic metabolic process biosynthetic process metabolic process cellular process antibiotic biosynthetic process cellular component biogenesis cellular component organization peptidoglycan-based cell wall biogenesis cellular component assembly cell wall biogenesis DIM/DIP cell wall layer assembly cell wall organization or biogenesis Actinobacterium-type cell wall biogenesis cellular component organization or biogenesis fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process small molecule metabolic process monocarboxylic acid metabolic process lipid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR006162	Phosphopantetheine attachment site	PTM
A, B	IPR057326	Ketoreductase domain	Domain
A, B	IPR045851	AMP-binding enzyme domain superfamily	Homologous Superfamily
A, B	IPR014030	Beta-ketoacyl synthase-like, N-terminal domain	Domain
A, B	IPR049552	Polyketide synthase, dehydratase domain, N-terminal	Domain
A, B	IPR049900	Polyketide synthase, dehydratase domain	Domain
A, B	IPR049551	Polyketide synthase, dehydratase domain, C-terminal	Domain
A, B	IPR020845	AMP-binding, conserved site	Conserved Site
A, B	IPR023213	Chloramphenicol acetyltransferase-like domain superfamily	Homologous Superfamily
A, B	IPR050091	Polyketide and Nonribosomal Peptide Biosynthesis Enzymes	Family
A, B	IPR020841	Polyketide synthase, beta-ketoacyl synthase domain	Domain
A, B	IPR001242	Condensation domain	Domain
A, B	IPR020807	Polyketide/metazoan fatty acid synthase-like, dehydratase domain	Domain
A, B	IPR036736	ACP-like superfamily	Homologous Superfamily
A, B	IPR025110	AMP-binding enzyme, C-terminal domain	Domain
A, B	IPR054514	RhiE-like, KS-MAT linker domain	Domain
A, B	IPR014031	Beta-ketoacyl synthase, C-terminal domain	Domain
A, B	IPR009081	Phosphopantetheine binding ACP domain	Domain
A, B	IPR020806	Polyketide synthase-like, phosphopantetheine-binding domain	Domain
A, B	IPR010071	Amino acid adenylation domain	Domain
A, B	IPR013968	Polyketide synthase-like, ketoreductase domain	Domain
A, B	IPR016039	Thiolase-like	Homologous Superfamily
A, B	IPR042099	ANL, N-terminal domain	Homologous Superfamily
A, B	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B	IPR018201	Beta-ketoacyl synthase, active site	Active Site
A, B	IPR000873	AMP-dependent synthetase/ligase domain	Domain
A, B	IPR042104	Polyketide synthase, dehydratase domain superfamily	Homologous Superfamily