4MRT

Structure of the Phosphopantetheine Transferase Sfp in Complex with Coenzyme A and a Peptidyl Carrier Protein

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth C]	d4mrtc1	All alpha proteins	Acyl carrier protein-like	ACP-like	Peptidyl carrier domain	Peptidyl carrier protein (PCP), thioester domain	(Brevibacillus parabrevis ) [TaxId: 54914 ],	SCOPe (2.08)
A [auth C]	d4mrtc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Brevibacillus parabrevis ) [TaxId: 54914 ],	SCOPe (2.08)
B [auth A]	d4mrta1	Alpha and beta proteins (a+b)	4'-phosphopantetheinyl transferase	4'-phosphopantetheinyl transferase	4'-Phosphopantetheinyl transferase SFP	automated matches	(Bacillus subtilis subsp. subtilis str. 168 ) [TaxId: 224308 ],	SCOPe (2.08)
B [auth A]	d4mrta3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Bacillus subtilis subsp. subtilis str. 168 ) [TaxId: 224308 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth C]	SCOP2B Superfamily	ACP-like	8041814	3001805	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	4'-phosphopantetheinyl transferase	8032418	3000948	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	4'-phosphopantetheinyl transferase	8032417	3000948	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 [auth C]	PP-binding	e4mrtC1	A: alpha bundles	X: ACP-like	H: Acyl-carrier protein (ACP) (From Topology)	T: Acyl-carrier protein (ACP)	F: PP-binding	ECOD (1.6)
B [auth A]	ACPS	e4mrtA1	A: a+b three layers	X: Bacillus chorismate mutase-like	H: 4'-phosphopantetheinyl transferase (From Topology)	T: 4'-phosphopantetheinyl transferase	F: ACPS	ECOD (1.6)
B [auth A]	KOG0945	e4mrtA2	A: a+b three layers	X: Bacillus chorismate mutase-like	H: 4'-phosphopantetheinyl transferase (From Topology)	T: 4'-phosphopantetheinyl transferase	F: KOG0945	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth C]	1.10.1200.10	Mainly Alpha	Orthogonal Bundle	Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein	Chain A	CATH (4.3.0)
B [auth A]	3.90.470.20	Alpha Beta	Alpha-Beta Complex	Ribosomal Protein L22	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [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
B [auth A]	PF01648	4'-phosphopantetheinyl transferase superfamily (ACPS)	4'-phosphopantetheinyl transferase superfamily	Members of this family transfers the 4'-phosphopantetheine (4'-PP) moiety from coenzyme A (CoA) to the invariant serine of Pfam:PF00550. This post-translational modification renders holo-ACP capable of acyl group activation via thioesterification of ...	Members of this family transfers the 4'-phosphopantetheine (4'-PP) moiety from coenzyme A (CoA) to the invariant serine of Pfam:PF00550. This post-translational modification renders holo-ACP capable of acyl group activation via thioesterification of the cysteamine thiol of 4'-PP [1]. This superfamily consists of two subtypes: The ACPS type such as Swiss:P24224 and the Sfp type such as Swiss:P39135. The structure of the Sfp type is known [3], which shows the active site accommodates a magnesium ion. The most highly conserved regions of the alignment are involved in binding the magnesium ion.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C]	Tyrocidine synthase 3	vitamin binding amide binding modified amino acid binding binding phosphopantetheine binding small molecule binding catalytic activity ligase activity	organic substance metabolic process organonitrogen compound metabolic process biosynthetic process organonitrogen compound biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process secondary metabolite biosynthetic process secondary metabolic process cellular biosynthetic process cellular metabolic process amide biosynthetic process cellular nitrogen compound metabolic process cellular process organic substance metabolic process organonitrogen compound metabolic process biosynthetic process organonitrogen compound biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process secondary metabolite biosynthetic process secondary metabolic process cellular biosynthetic process cellular metabolic process amide biosynthetic process cellular nitrogen compound metabolic process cellular process amide metabolic process cellular nitrogen compound biosynthetic process antibiotic metabolic process antibiotic biosynthetic process oxoacid metabolic process carboxylic acid metabolic process small molecule metabolic process organic acid metabolic process	-
B [auth A]	4'-phosphopantetheinyl transferase sfp	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding holo-[acyl-carrier-protein] synthase activity transferase activity catalytic activity phosphotransferase activity, for other substituted phosphate groups transferase activity, transferring phosphorus-containing groups	regulation of biological process cell aggregation regulation of cellular process biofilm formation biological process involved in intraspecies interaction between organisms biological regulation positive regulation of biological process single-species biofilm formation positive regulation of single-species biofilm formation aggregation of unicellular organisms regulation of single-species biofilm formation cellular process positive regulation of cellular process fatty acid metabolic process regulation of biological process cell aggregation regulation of cellular process biofilm formation biological process involved in intraspecies interaction between organisms biological regulation positive regulation of biological process single-species biofilm formation positive regulation of single-species biofilm formation aggregation of unicellular organisms regulation of single-species biofilm formation cellular process positive regulation of cellular process fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular 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 organic substance metabolic process biosynthetic process organic substance biosynthetic process cellular lipid metabolic process small molecule metabolic process metabolic process monocarboxylic acid metabolic process lipid metabolic process lysine metabolic process lysine biosynthetic process via aminoadipic acid aspartate family amino acid biosynthetic process organonitrogen compound biosynthetic process aspartate family amino acid metabolic process amino acid metabolic process alpha-amino acid metabolic process lysine biosynthetic process nitrogen compound metabolic process organonitrogen compound metabolic process L-amino acid biosynthetic process L-amino acid metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process proteinogenic amino acid biosynthetic process alpha-amino acid biosynthetic process antibiotic metabolic process antibiotic biosynthetic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C]	IPR006162	Phosphopantetheine attachment site	PTM
A [auth C]	IPR009081	Phosphopantetheine binding ACP domain	Domain
A [auth C]	IPR010071	Amino acid adenylation domain	Domain
A [auth C]	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily
A [auth C]	IPR020845	AMP-binding, conserved site	Conserved Site
A [auth C]	IPR023213	Chloramphenicol acetyltransferase-like domain superfamily	Homologous Superfamily
A [auth C]	IPR045851	AMP-binding enzyme, C-terminal domain superfamily	Homologous Superfamily
A [auth C]	IPR020806	Polyketide synthase, phosphopantetheine-binding domain	Domain
A [auth C]	IPR001242	Condensation domain	Domain
A [auth C]	IPR036736	ACP-like superfamily	Homologous Superfamily
A [auth C]	IPR025110	AMP-binding enzyme, C-terminal domain	Domain
A [auth C]	IPR000873	AMP-dependent synthetase/ligase domain	Domain
A [auth C]	IPR001031	Thioesterase	Domain
B [auth A]	IPR037143	4'-phosphopantetheinyl transferase domain superfamily	Homologous Superfamily
B [auth A]	IPR004568	Phosphopantetheine-protein transferase domain	Domain
B [auth A]	IPR008278	4'-phosphopantetheinyl transferase domain	Domain

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.