Structure of PDB 2iyp Chain C

Receptor sequence

>2iypC (length=468) Species: 1358 (Lactococcus lactis)

AQANFGVVGMAVMGKNLALNVESRGYTVAIYNRTTSKTEEVFKEHQDKNL
VFTKTLEEFVGSLEKPRRIMLMVQAGAATDATIKSLLPLLDIGDILIDGG
NTHFPDTMRRNAELADSGINFIGTGVSGGEKGALLGPSMMPGGQKEAYDL
VAPIFEQIAAKAPQDGKPCVAYMGANGAGHYVKMVHNGIEYGDMQLIAES
YDLLKRILGLSNAEIQAIFEEWNEGELDSYLIEITKEVLKRKDDEGEGYI
VDKILDKAGNKGTGKWTSESALDLGVPLPLITESVFARYISTYKDERVKA
SKVLSGPALDFSGDKKEVIEKIRKALYFSKIMSYAQGFAQLRKASEEFDW
DLPYGTIAQIWRAGCIIRAEFLQNITDAFDKDSELENLLLDDYFVDITKR
YQEAVRDVVSLAVQAGTPIPTFTSAISYYDSYRSENLPANLIQAQRDYFG
AHTYERTDKAGIFHYDWY

3D structure

• PDB: 2iyp Crystal Structures of a Bacterial 6-Phosphogluconate Dehydrogenase Reveal Aspects of Specificity, Mechanism and Mode of Inhibition by Analogues of High-Energy Reaction Intermediates.
• Chain: C
• Resolution: 2.79 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): S128 K184 H187 N188 E191
• Catalytic site (residue number reindexed from 1): S127 K183 H186 N187 E190
• Enzyme Commision number: 1.1.1.44: phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating).

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	A2P	C	N33 R34 T35 K38 V74 Q75 A79 T83	N32 R33 T34 K37 V73 Q74 A78 T82

Gene Ontology

Molecular Function

• GO:0004616 phosphogluconate dehydrogenase (decarboxylating) activity
• GO:0016491 oxidoreductase activity
• GO:0050661 NADP binding

Biological Process

• GO:0006098 pentose-phosphate shunt
• GO:0009051 pentose-phosphate shunt, oxidative branch
• GO:0016054 organic acid catabolic process
• GO:0019521 D-gluconate metabolic process
• GO:0046177 D-gluconate catabolic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:2iyp, PDBe:2iyp, PDBj:2iyp
• PDBsum: 2iyp
• PubMed: 17222187
• UniProt: P96789|6PGD_LACLM 6-phosphogluconate dehydrogenase, decarboxylating (Gene Name=gnd)