Structure of PDB 2iyo Chain A

Receptor sequence

>2iyoA (length=470) Species: 1358 (Lactococcus lactis)

MAQANFGVVGMAVMGKNLALNVESRGYTVAIYNRTTSKTEEVFKEHQDKN
LVFTKTLEEFVGSLEKPRRIMLMVQAGAATDATIKSLLPLLDIGDILIDG
GNTHFPDTMRRNAELADSGINFIGTGVSGGEKGALLGPSMMPGGQKEAYD
LVAPIFEQIAAKAPQDGKPCVAYMGANGAGHYVKMVHNGIEYGDMQLIAE
SYDLLKRILGLSNAEIQAIFEEWNEGELDSYLIEITKEVLKRKDDEGEGY
IVDKILDKAGNKGTGKWTSESALDLGVPLPLITESVFARYISTYKDERVK
ASKVLSGPALDFSGDKKEVIEKIRKALYFSKIMSYAQGFAQLRKASEEFD
WDLPYGTIAQIWRAGCIIRAEFLQNITDAFDKDSELENLLLDDYFVDITK
RYQEAVRDVVSLAVQAGTPIPTFTSAISYYDSYRSENLPANLIQAQRDYF
GAHTYERTDKAGIFHYDWYT

3D structure

• PDB: 2iyo 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: A
• Resolution: 2.4 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): S128 K184 H187 N188 E191
• Catalytic site (residue number reindexed from 1): S128 K184 H187 N188 E191
• 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	6PG	A	N102 S128 G129 K184 N188 E191 Y192 K262 I367	N102 S128 G129 K184 N188 E191 Y192 K262 I367

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