SMTL ID : 1n1e.1

Crystal structure of Leishmania mexicana Glycerol-3-phosphate dehydrogenase complexed with DHAP and NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x NDE: ADENOSINE 5'-(TRIHYDROGEN DIPHOSPHATE) P'-5'-ESTER WITH 3-(AMINOCARBONYL)-4-(1-HYDROXYL-2-OXO-3-PHOSPHONOOXY-PROPYL)-1-BETA-D-RIBOFURANOSYLPYRIDINIUM INNER SALT(Non-covalent)

NDE.1: 29 residues within 4Å: Chain A: S.23, G.24, A.25, F.26, G.27, H.45, M.46, F.63, V.92, P.94, F.97, C.123, T.124, K.125, G.153, S.155, F.156, A.157, K.210, N.211, D.263, T.267, L.272, S.273, R.274, N.275, A.297, V.298, E.300 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:F.26, A:F.26, A:F.26 Hydrogen bonds: A:S.23, A:A.25, A:F.26, A:G.27, A:H.45, A:K.125, A:K.125, A:S.155, A:S.155, A:A.157, A:K.210, A:R.274, A:N.275, A:N.275, A:V.298 Water bridges: A:S.23, A:S.23, A:N.211, A:R.274, A:R.274, A:R.274, A:R.274, A:R.274 Salt bridges: A:K.210, A:R.274, A:R.274, A:R.274 pi-Stacking: A:F.97 NDE.2: 29 residues within 4Å: Chain B: S.23, G.24, A.25, F.26, G.27, H.45, M.46, F.63, V.92, P.94, F.97, C.123, T.124, K.125, G.153, S.155, F.156, A.157, K.210, N.211, D.263, T.267, L.272, S.273, R.274, N.275, A.297, V.298, E.300 32 PLIP interactions: 32 interactions with chain B Hydrophobic interactions: B:F.26, B:F.26, B:F.26 Hydrogen bonds: B:S.23, B:A.25, B:F.26, B:G.27, B:K.125, B:K.125, B:S.155, B:S.155, B:A.157, B:K.210, B:N.211, B:R.274, B:N.275, B:N.275, B:V.298, B:E.300 Water bridges: B:S.23, B:S.23, B:R.274, B:R.274, B:R.274, B:R.274, B:R.274, B:E.300 Salt bridges: B:K.210, B:R.274, B:R.274, B:R.274 pi-Stacking: B:F.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choe, J. et al., Leishmania mexicana Glycerol-3-phosphate Dehydrogenase Showed Conformational Changes Upon Binding a Bi-substrate Adduct. J.Mol.Biol. (2003)

Release Date

2003-05-27

Peptides

glycerol-3-phosphate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

glycerol-3-phosphate dehydrogenase

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