SMTL ID : 2bh9.1

X-RAY STRUCTURE OF A DELETION VARIANT OF HUMAN GLUCOSE 6-PHOSPHATE DEHYDROGENASE COMPLEXED WITH STRUCTURAL AND COENZYME NADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 15 residues within 4Å: Chain A: G.12, S.14, G.15, D.16, L.17, A.45, R.46, S.47, Y.86, A.115, L.116, P.117, Y.121, E.144, K.145 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.17 Hydrogen bonds: A:S.14, A:S.14, A:D.16, A:L.17, A:R.46, A:R.46, A:S.47, A:S.47, A:Y.86, A:Y.86 Water bridges: A:A.18, A:T.119, A:K.145 Salt bridges: A:R.46 NAP.2: 16 residues within 4Å: Chain A: K.212, K.340, R.344, R.367, A.373, Y.375, K.377, D.395, T.397, R.461, D.467, M.470, F.475, Y.477, Y.481, W.483 29 PLIP interactions: 29 interactions with chain A Hydrogen bonds: A:R.344, A:R.367, A:R.367, A:Y.375, A:T.397, A:R.461 Water bridges: A:T.210, A:K.212, A:K.212, A:R.331, A:R.331, A:K.340, A:E.342, A:R.344, A:R.367, A:Y.375 Salt bridges: A:K.212, A:K.340, A:R.344, A:R.344, A:K.377, A:K.377, A:R.461 pi-Stacking: A:Y.375, A:Y.477, A:Y.477, A:W.483, A:W.483 pi-Cation interactions: A:R.461 NAP.5: 15 residues within 4Å: Chain B: G.12, S.14, G.15, D.16, L.17, A.45, R.46, S.47, Y.86, A.115, L.116, P.117, Y.121, E.144, K.145 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:L.17 Hydrogen bonds: B:S.14, B:S.14, B:D.16, B:L.17, B:R.46, B:R.46, B:S.47, B:S.47, B:Y.86, B:Y.121 Water bridges: B:A.18, B:K.145 Salt bridges: B:R.46 NAP.6: 16 residues within 4Å: Chain B: K.212, K.340, R.344, R.367, A.373, Y.375, K.377, D.395, T.397, R.461, D.467, M.470, F.475, Y.477, Y.481, W.483 30 PLIP interactions: 30 interactions with chain B Hydrogen bonds: B:R.344, B:R.367, B:R.367, B:T.397, B:T.397, B:R.461 Water bridges: B:K.212, B:R.331, B:R.331, B:E.338, B:K.340, B:R.344, B:R.344, B:R.367, B:Y.375, B:Y.477, B:Y.477 Salt bridges: B:K.212, B:K.340, B:R.344, B:R.344, B:K.377, B:K.377, B:R.461 pi-Stacking: B:Y.375, B:Y.477, B:Y.477, B:W.483, B:W.483 pi-Cation interactions: B:R.461

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: G.222, Y.223, E.226, T.301 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.226, A:T.301 GOL.4: 3 residues within 4Å: Chain A: P.441, Q.445, L.448 No protein-ligand interaction detected (PLIP) GOL.7: 4 residues within 4Å: Chain B: G.222, Y.223, E.226, T.301 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.226, B:T.301 GOL.8: 3 residues within 4Å: Chain B: P.441, Q.445, L.448 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kotaka, M. et al., Structural Studies of Glucose-6-Phosphate and Nadp+ Binding to Human Glucose-6-Phosphate Dehydrogenase. Acta Crystallogr.,Sect.D (2005)

Release Date

2005-04-25

Peptides

GLUCOSE-6-PHOSPHATE 1-DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

GLUCOSE-6-PHOSPHATE 1-DEHYDROGENASE

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