SMTL ID : 1pgq.1

CRYSTALLOGRAPHIC STUDY OF COENZYME, COENZYME ANALOGUE AND SUBSTRATE BINDING IN 6-PHOSPHOGLUCONATE DEHYDROGENASE: IMPLICATIONS FOR NADP SPECIFICITY AND THE ENZYME MECHANISM

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.17 Å

Oligo State

homo-dimer

Ligands

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 8 residues within 4Å: Chain A: Y.191, G.258, Q.259, K.260, T.262, R.287 Chain B: R.446, H.452 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.260 Water bridges: A:E.190, A:R.287 Salt bridges: A:R.287, B:R.446, B:H.452 SO4.2: 4 residues within 4Å: Chain A: N.102, V.127, K.183, N.187 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.102, A:V.127, A:N.187 Salt bridges: A:K.183 SO4.3: 3 residues within 4Å: Chain A: G.211, H.212, H.248 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.212, A:K.213 Water bridges: A:H.212, A:H.248 Salt bridges: A:H.212, A:H.248 SO4.5: 8 residues within 4Å: Chain A: R.446, H.452 Chain B: Y.191, G.258, Q.259, K.260, T.262, R.287 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Salt bridges: A:R.446, A:H.452, B:R.287 Hydrogen bonds: B:Y.191, B:K.260 Water bridges: B:R.287, B:R.287 SO4.6: 4 residues within 4Å: Chain B: N.102, V.127, K.183, N.187 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.102, B:V.127, B:N.187 Salt bridges: B:K.183 SO4.7: 3 residues within 4Å: Chain B: G.211, H.212, H.248 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:H.212, B:K.213 Water bridges: B:H.212, B:H.212, B:H.212, B:H.248, B:H.248, B:H.248 Salt bridges: B:H.212, B:H.248

2 x 2AM: ADENOSINE-2'-MONOPHOSPHATE(Non-covalent)

2AM.4: 10 residues within 4Å: Chain A: G.9, L.10, A.11, N.32, R.33, T.34, V.74, K.75, A.79, F.83 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:L.10, A:N.32, A:T.34, A:T.34, A:K.75 Salt bridges: A:R.33 pi-Cation interactions: A:R.33, A:R.33 2AM.8: 10 residues within 4Å: Chain B: G.9, L.10, A.11, N.32, R.33, T.34, V.74, K.75, A.79, F.83 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:L.10, B:N.32, B:T.34, B:T.34, B:K.75 Salt bridges: B:R.33 pi-Cation interactions: B:R.33, B:R.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Adams, M.J. et al., Crystallographic study of coenzyme, coenzyme analogue and substrate binding in 6-phosphogluconate dehydrogenase: implications for NADP specificity and the enzyme mechanism. Structure (1994)

Release Date

1995-02-27

Peptides

6-PHOSPHOGLUCONATE DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

6-PHOSPHOGLUCONATE DEHYDROGENASE

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