2F98

Crystal structure of the polyketide cyclase AknH with bound substrate and product analogue: implications for catalytic mechanism and product stereoselectivity.

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2f98a1	Alpha and beta proteins (a+b)	Cystatin-like	NTF2-like	SnoaL-like polyketide cyclase	Aklanonic acid methyl ester cyclase, AknH	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)
A	d2f98a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)
B	d2f98b2	Alpha and beta proteins (a+b)	Cystatin-like	NTF2-like	SnoaL-like polyketide cyclase	automated matches	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)
B	d2f98b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)
C	d2f98c2	Alpha and beta proteins (a+b)	Cystatin-like	NTF2-like	SnoaL-like polyketide cyclase	automated matches	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)
C	d2f98c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)
D	d2f98d_	Alpha and beta proteins (a+b)	Cystatin-like	NTF2-like	SnoaL-like polyketide cyclase	automated matches	(Streptomyces galilaeus ) [TaxId: 33899 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	NTF2-like	8033979	3000472	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	NTF2-like	8033979	3000472	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	NTF2-like	8033979	3000472	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	NTF2-like	8033979	3000472	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)
A	PF07366	e2f98A1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: PF07366	ECOD (1.6)
B	PF07366	e2f98B1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: PF07366	ECOD (1.6)
C	PF07366	e2f98C1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: PF07366	ECOD (1.6)
D	PF07366	e2f98D1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: PF07366	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
B	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
C	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)
D	3.10.450.50	Alpha Beta	Roll	Nuclear Transport Factor 2	Chain: A,	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF07366	SnoaL-like polyketide cyclase (SnoaL)	SnoaL-like polyketide cyclase	This family includes SnoaL [1] a polyketide cyclase involved in nogalamycin biosynthesis. This family was formerly known as DUF1486. The proteins in this family adopt a distorted alpha-beta barrel fold [1]. Structural data together with site-direct ...	This family includes SnoaL [1] a polyketide cyclase involved in nogalamycin biosynthesis. This family was formerly known as DUF1486. The proteins in this family adopt a distorted alpha-beta barrel fold [1]. Structural data together with site-directed mutagenesis experiments have shown that SnoaL has a different mechanism to that of the classical aldolase for catalysing intramolecular aldol condensation [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Aklanonic Acid methyl Ester Cyclase, AknH	intramolecular lyase activity isomerase activity catalytic activity	aminoglycoside antibiotic biosynthetic process glycosyl compound metabolic process cellular biosynthetic process polyketide metabolic process carbohydrate derivative metabolic process antibiotic biosynthetic process secondary metabolic process antibiotic metabolic process cellular ketone metabolic process organic substance metabolic process secondary metabolite biosynthetic process organic substance biosynthetic process small molecule metabolic process carbohydrate derivative biosynthetic process aminoglycoside antibiotic biosynthetic process glycosyl compound metabolic process cellular biosynthetic process polyketide metabolic process carbohydrate derivative metabolic process antibiotic biosynthetic process secondary metabolic process antibiotic metabolic process cellular ketone metabolic process organic substance metabolic process secondary metabolite biosynthetic process organic substance biosynthetic process small molecule metabolic process carbohydrate derivative biosynthetic process glycosyl compound biosynthetic process daunorubicin metabolic process small molecule biosynthetic process cellular metabolic process glycoside metabolic process glycoside biosynthetic process organic cyclic compound metabolic process daunorubicin biosynthetic process biosynthetic process aminoglycoside antibiotic metabolic process polyketide biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process ketone biosynthetic process organic hydroxy compound metabolic process alcohol metabolic process doxorubicin metabolic process tertiary alcohol metabolic process primary alcohol metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR032710	NTF2-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR009959	Polyketide cyclase SnoaL-like	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.