8TPW | pdb_00008tpw

Crosslinked 6-deoxyerythronolide B synthase (DEBS) Module 3 in complex with antibody fragment 1B2: cis-oriented 1B2 and ACP

External Resource: Annotation

Domain Annotation: SCOP2 Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
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	KASAT domain-like	8055827	3002319	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FabD/lysophospholipase-like	8055831	3001121	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FabD/lysophospholipase-like	8055831	3001121	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Thiolase-like	8055829	3000122	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	KASAT domain-like	8055827	3002319	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Probable ACP-binding domain of malonyl-CoA ACP transacylase	8055834	3001224	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FabD/lysophospholipase-like	8055831	3001121	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Probable ACP-binding domain of malonyl-CoA ACP transacylase	8055834	3001224	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	KASAT domain-like	8055827	3002319	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	KASAT domain-like	8055827	3002319	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FabD/lysophospholipase-like	8055831	3001121	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Thiolase-like	8055829	3000122	SCOP2B (2022-06-29)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
D [auth L]	Fab 1B2	L-KAPPA	Homo sapiens (human)	IGKV2-2801, IGKV2D-2801, IGKJ301, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202551-0)
C [auth H]	Fab 1B2	VH-CH1	Homo sapiens (human)	IGHV3-4904, IGHJ401, IGHJ402, IGHJ403, IGHG101, IGHG102, IGHG104, IGHG105, IGHG112, IGHG114, IGHG113, IGHG109, IGHG110, IGHG107, IGHG111, IGHG115, IGHG1*16	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202551-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
D [auth L]	Light Chain	IGKV2	Kappa	eryaii,eryaii,eryaii,eryaii,6-deoxyerythronolide-b synthaseerya3, modules 5 and 6 \| eryaii,eryaii,eryaii,eryaii,6-deoxyerythronolide-b synthaseerya3, modules 5 and 6	SAbDab (2025-12-26)
C [auth H]	Heavy Chain	IGHV3	-	eryaii,eryaii,eryaii,eryaii,6-deoxyerythronolide-b synthaseerya3, modules 5 and 6 \| eryaii,eryaii,eryaii,eryaii,6-deoxyerythronolide-b synthaseerya3, modules 5 and 6	SAbDab (2025-12-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, E [auth C]	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, E [auth C]	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, E [auth C]	PF16197	Ketoacyl-synthetase C-terminal extension (KAsynt_C_assoc)	Ketoacyl-synthetase C-terminal extension	-	Family
A, B, E [auth C]	PF08990	Erythronolide synthase docking domain (Docking)	Erythronolide synthase docking domain	Polyketide synthase (PKS) catalyzes the biosynthesis of polyketides, which are structurally and functionally diverse natural products in microorganisms and plants [1]. Type I modular PKSs are the large, multifunctional enzymes responsible for the pro ...	Polyketide synthase (PKS) catalyzes the biosynthesis of polyketides, which are structurally and functionally diverse natural products in microorganisms and plants [1]. Type I modular PKSs are the large, multifunctional enzymes responsible for the production of a diverse family of structurally rich and often biologically active natural products. The efficiency of acyl transfer at the interfaces of the individual PKS proteins is thought to be governed by helical regions, termed docking domains (dd). Two such N-terminal domains dimerise to form amphipathic parallel alpha-helical coiled coils: dimerisation is essential for protein function [1].	Domain
A, B, E [auth C]	PF00550	Phosphopantetheine attachment site (PP-binding)	Phosphopantetheine attachment site	A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes memb ...	A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes members not included in Prosite. The inclusion of these members is supported by sequence analysis and functional evidence. The related domain of Swiss:P19828 has the attachment serine replaced by an alanine.	Domain
A, B, E [auth C]	PF00698	Acyl transferase domain (Acyl_transf_1)	Acyl transferase domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth L]	Antibody Fragment 1B2, Light Chain	-	-	-
C [auth H]	Antibody Fragment 1B2, Heavy Chain	-	-	-
A, B, E [auth C]	EryAII,EryAII,EryAII,EryAII,6-deoxyerythronolide-B synthase EryA3, modules 5 and 6	oxidoreductase activity catalytic activity vitamin binding amide binding modified amino acid binding binding phosphopantetheine binding small molecule binding acyltransferase activity 3-oxoacyl-[acyl-carrier-protein] synthase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity erythronolide synthase activity fatty acid synthase activity	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 biosynthetic process small molecule metabolic process metabolic process 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 biosynthetic process small molecule metabolic process metabolic process cellular process monocarboxylic acid metabolic process lipid metabolic process macrolide biosynthetic process polyketide metabolic process macrolide metabolic process secondary metabolic process antibiotic biosynthetic process antibiotic metabolic process polyketide biosynthetic process secondary metabolite biosynthetic process lactone metabolic process lactone biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, E [auth C]	IPR016035	Acyl transferase/acyl hydrolase/lysophospholipase	Homologous Superfamily
A, B, E [auth C]	IPR014031	Beta-ketoacyl synthase, C-terminal	Domain
A, B, E [auth C]	IPR015083	Polyketide synthase NorB/C/GfsB-E-like, docking domain	Domain
A, B, E [auth C]	IPR006162	Phosphopantetheine attachment site	PTM
A, B, E [auth C]	IPR013154	Alcohol dehydrogenase-like, N-terminal	Domain
A, B, E [auth C]	IPR036347	Erythronolide synthase, docking domain superfamily	Homologous Superfamily
A, B, E [auth C]	IPR049552	Polyketide synthase, dehydratase domain, N-terminal	Domain
A, B, E [auth C]	IPR049900	Polyketide synthase, dehydratase domain	Domain
A, B, E [auth C]	IPR049551	Polyketide synthase, dehydratase domain, C-terminal	Domain
A, B, E [auth C]	IPR016036	Malonyl-CoA ACP transacylase, ACP-binding	Homologous Superfamily
A, B, E [auth C]	IPR050091	Polyketide and Nonribosomal Peptide Biosynthesis Enzymes	Family
A, B, E [auth C]	IPR015357	Erythronolide synthase EryA2, docking domain	Domain
A, B, E [auth C]	IPR020841	Polyketide synthase, beta-ketoacyl synthase domain	Domain
A, B, E [auth C]	IPR020807	Polyketide/metazoan fatty acid synthase-like, dehydratase domain	Domain
A, B, E [auth C]	IPR036736	ACP-like superfamily	Homologous Superfamily
A, B, E [auth C]	IPR014043	Acyl transferase domain	Domain
A, B, E [auth C]	IPR020843	Enoylreductase domain	Domain
A, B, E [auth C]	IPR032821	Polyketide synthase, C-terminal extension	Domain
A, B, E [auth C]	IPR011032	GroES-like superfamily	Homologous Superfamily
A, B, E [auth C]	IPR009081	Phosphopantetheine binding ACP domain	Domain
A, B, E [auth C]	IPR020806	Polyketide synthase-like, phosphopantetheine-binding domain	Domain
A, B, E [auth C]	IPR013968	Polyketide synthase-like, ketoreductase domain	Domain
A, B, E [auth C]	IPR016039	Thiolase-like	Homologous Superfamily
A, B, E [auth C]	IPR001227	Acyl transferase domain superfamily	Homologous Superfamily
A, B, E [auth C]	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, E [auth C]	IPR018201	Beta-ketoacyl synthase, active site	Active Site
A, B, E [auth C]	IPR014030	Beta-ketoacyl synthase-like, N-terminal	Domain
A, B, E [auth C]	IPR042104	Polyketide synthase, dehydratase domain superfamily	Homologous Superfamily
A, B, E [auth C]	IPR055123	Polyketide synthase extender module SpnB-like, Rossmann fold domain	Domain