SMTL ID : 4gwk.2 (1 other biounit)

Crystal structure of 6-phosphogluconate dehydrogenase complexed with 3-phosphoglyceric acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-dimer

Ligands

4 x 3PG: 3-PHOSPHOGLYCERIC ACID(Non-covalent)

3PG.1: 5 residues within 4Å: Chain A: A.213, Q.214, K.249, H.250, P.253 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.214, A:H.250 Water bridges: A:Q.214, A:D.215, A:H.250 Salt bridges: A:K.249, A:H.250, A:H.250 3PG.4: 7 residues within 4Å: Chain A: E.192, Y.193, K.262, G.263, T.264, R.289 Chain B: R.448 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:T.264, A:R.289, B:R.448, B:R.448 Water bridges: A:Y.193, A:Y.193 Salt bridges: A:R.289, B:R.448, B:R.448 3PG.5: 5 residues within 4Å: Chain B: A.213, Q.214, K.249, H.250, P.253 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Q.214, B:H.250 Water bridges: B:Q.214, B:D.215 Salt bridges: B:K.249, B:H.250, B:H.250 3PG.8: 7 residues within 4Å: Chain A: R.448 Chain B: E.192, Y.193, K.262, G.263, T.264, R.289 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Y.193, B:T.264, B:R.289, A:R.448, A:R.448 Water bridges: B:E.192, B:Y.193, B:G.263 Salt bridges: B:R.289, A:R.448, A:R.448

4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 5 residues within 4Å: Chain A: E.106, Y.107, R.108, M.186, W.267 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.107, A:R.108 Water bridges: A:Y.107, A:R.108 Salt bridges: A:E.106 MES.3: 5 residues within 4Å: Chain A: G.132, E.133 Chain B: F.451, G.452, A.453 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.133 Salt bridges: A:E.133 MES.6: 5 residues within 4Å: Chain B: E.106, Y.107, R.108, M.186, W.267 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.107, B:R.108 Water bridges: B:R.108, B:R.108 Salt bridges: B:E.106 MES.7: 5 residues within 4Å: Chain A: F.451, G.452, A.453 Chain B: G.132, E.133 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.133 Salt bridges: B:E.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hitosugi, T. et al., Phosphoglycerate mutase 1 coordinates glycolysis and biosynthesis to promote tumor growth. Cancer Cell (2012)

Release Date

2012-11-28

Peptides

6-phosphogluconate dehydrogenase, decarboxylating: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

6-phosphogluconate dehydrogenase, decarboxylating

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