1P5B | pdb_00001p5b

High Resolution Structure of Reduced Active Mutant of (S)-Mandelate Dehydrogenase

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	d1p5ba_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	FMN-linked oxidoreductases	FMN-linked oxidoreductases	Membrane-associated (S)-mandelate dehydrogenase	(Pseudomonas putida ) [TaxId: 303 ], (Pseudomonas putida ) [TaxId: 303 ], Spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	FMN-linked oxidoreductases	8058074	3000014	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	PF27526	e1p5bA1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: PF27526	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01070	FMN-dependent dehydrogenase (FMN_dh)	FMN-dependent dehydrogenase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	L(+)-Mandelate Dehydrogenase	FMN binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding oxidoreductase activity, acting on the CH-OH group of donors, oxygen as acceptor oxidoreductase activity oxidoreductase activity, acting on CH-OH group of donors (S)-2-hydroxy-acid oxidase activity FMN binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding oxidoreductase activity, acting on the CH-OH group of donors, oxygen as acceptor oxidoreductase activity oxidoreductase activity, acting on CH-OH group of donors (S)-2-hydroxy-acid oxidase activity catalytic activity (S)-mandelate dehydrogenase activity L-lactate dehydrogenase (NAD+) activity L-2-hydroxycarboxylate dehydrogenase (NAD+) activity L-lactate dehydrogenase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor lactate dehydrogenase activity	oxidative photosynthetic carbon pathway metabolic compound salvage biosynthetic process metabolic process cellular process photorespiration reactive oxygen species biosynthetic process reactive oxygen species metabolic process hydrogen peroxide metabolic process hydrogen peroxide biosynthetic process catabolic process benzene-containing compound metabolic process oxoacid metabolic process mandelate metabolic process oxidative photosynthetic carbon pathway metabolic compound salvage biosynthetic process metabolic process cellular process photorespiration reactive oxygen species biosynthetic process reactive oxygen species metabolic process hydrogen peroxide metabolic process hydrogen peroxide biosynthetic process catabolic process benzene-containing compound metabolic process oxoacid metabolic process mandelate metabolic process carboxylic acid metabolic process organic acid metabolic process organic acid catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process mandelate catabolic process small molecule metabolic process monocarboxylic acid metabolic process small molecule catabolic process aerobic respiration cellular respiration energy derivation by oxidation of organic compounds generation of precursor metabolites and energy	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR012133	Alpha-hydroxy acid dehydrogenase, FMN-dependent	Family
A	IPR008259	FMN-dependent alpha-hydroxy acid dehydrogenase, active site	Active Site
A	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A	IPR037396	FMN hydroxy acid dehydrogenase domain	Domain
A	IPR000262	FMN-dependent dehydrogenase	Domain
A	IPR012133	Alpha-hydroxy acid dehydrogenase, FMN-dependent	Family
A	IPR008259	FMN-dependent alpha-hydroxy acid dehydrogenase, active site	Active Site
A	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A	IPR037396	FMN hydroxy acid dehydrogenase domain	Domain
A	IPR000262	FMN-dependent dehydrogenase	Domain

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.