Structure of PDB 3zhu Chain D

Receptor sequence

>3zhuD (length=852) Species: 1772 (Mycolicibacterium smegmatis)

DSIEDKNARVIELIAAYRNRGHLMADIDPLRLDNTRFRLTLWDLDREFKV
DGGVQRKKLRDILSVLRDAYCRHVGVEYTHILEPEQQRWIQERVETKHDK
PTVAEQKYILSKLNAAEAFETFLQTKYVGQKRFSLEGAETVIPMMDAVID
QCAEHGLDEVVIAMPHRGRLNVLANIVGKPYSQIFSEFEGNLNPSQAHGS
GDVKYHLGATGTYIQMFGDNDIEVSLTANPSHLEAVDPVLEGLVRAKQDL
LDTGEEGSDNRFSVVPLMLHGDAAFAGQGVVAETLNLALLRGYRTGGTIH
IVVNNQIGFTTAPTDSRSSEYCTDVAKMIGAPIFHVNGDDPEACAWVARL
AVDFRQAFKKDVVIDMLCYRRRGHNEGDDPSMTQPYMYDVIDTKRGSRKA
YTEALIGRGDISMKEAEDALRDYQGQLERVFNEVRELEKHEIEPSESVEA
DQQIPLATAVDKAMLQRIGDAHLALPEGFTVHPRVRPVLEKRREMAYEGR
IDWAFAELLALGSLIAEGKLVRLSGQDTQRGTFTQRHAVIVDRKTGEEFT
PLQLLATNPDGTPTGGKFLVYNSALSEFAAVGFEYGYSVGNPDAMVLWEA
QFGDFVNGAQSIIDEFISSGEAKWGQLSDVVLLLPHGHEGQGPDHTSGRI
ERFLQLWAEGSMTIAMPSTPANYFHLLRRHGKDGIQRPLIVFTPKSMLRN
KAAVSDIRDFTESKFRSVLEEPMYTDGEGDRNKVTRLLLTSGKIYYELAA
RKAKENREDVAIVRIEQLAPLPRRRLAETLDRYPNVKEKFWVQEEPANQG
AWPSFGLTLPEILPDHFTGLKRISRRAMSAPSSGSSKVHAVEQQEILDTA
FG

3D structure

• PDB: 3zhu A Dual Conformation of the Post-Decarboxylation Intermediate is Associated with Distinct Enzyme States in Mycobacterial Alpha-Ketoglutarate Decarboxylase (Kgd).
• Chain: D
• Resolution: 2.3 Å

Enzymatic activity

• Enzyme Commision number: 1.2.4.2: oxoglutarate dehydrogenase (succinyl-transferring).
  2.2.1.5: 2-hydroxy-3-oxoadipate synthase.
  2.3.1.61: dihydrolipoyllysine-residue succinyltransferase.
  4.1.1.71: 2-oxoglutarate decarboxylase.

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	TD8	D	Q901 L950 E952 Q976 F980 H1020	Q526 L575 E577 Q601 F605 H645
BS02	TD8	D	F506 H539 R540 Y578 H579 S604 L606 G644 A646 A647 N678 I680 G681 H747	F133 H166 R167 Y205 H206 S231 L233 G271 A273 A274 N305 I307 G308 H374
BS03	MG	D	D645 N678 I680	D272 N305 I307
BS04	CA	D	D1004 H1055 D1058 I1060	D629 H680 D683 I685

Gene Ontology

Molecular Function

• GO:0016624 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
• GO:0030976 thiamine pyrophosphate binding

External links

• PDB: RCSB:3zhu, PDBe:3zhu, PDBj:3zhu
• PDBsum: 3zhu
• PubMed: 24171907
• UniProt: A0R2B1|KGD_MYCS2 Multifunctional 2-oxoglutarate metabolism enzyme (Gene Name=kgd)