SMTL ID : 4i1i.1

Crystal structure of a putative Cytosolic malate dehydrogenase from Leishmania major Friedlin in complex with NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 24 residues within 4Å: Chain A: G.31, A.33, G.34, Q.35, I.36, L.61, D.62, I.63, C.107, G.108, A.109, F.110, I.128, Q.132, V.149, G.150, N.151, M.176, L.179, H.208, S.257, S.258, A.262 Ligands: EDO.5 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.36, A:V.149, A:L.179, A:A.262 Hydrogen bonds: A:G.31, A:A.33, A:Q.35, A:Q.35, A:I.36, A:A.109, A:Q.132, A:N.151, A:N.151, A:M.176 Water bridges: A:G.34, A:G.37 pi-Stacking: A:F.110

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 3 residues within 4Å: Chain A: G.47, A.48 Chain B: R.46 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Water bridges: A:R.46, A:R.46, B:R.46, B:R.46, B:R.46 Salt bridges: B:R.46 PO4.7: 2 residues within 4Å: Chain B: G.34, Q.35 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.35 Water bridges: B:G.31, B:I.36, B:S.257 PO4.8: 3 residues within 4Å: Chain B: R.183, G.247, S.258 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.258, B:S.258 Water bridges: B:G.247, B:S.258 Salt bridges: B:R.183

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: L.67, K.68, A.71, V.90 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.67 EDO.4: 6 residues within 4Å: Chain A: S.289, D.290, E.291, N.292, V.296, S.298 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.291, A:N.292, A:N.292 EDO.5: 5 residues within 4Å: Chain A: N.151, R.183, H.208, G.247 Ligands: NAD.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.151, A:R.183, A:R.183, A:G.247 Water bridges: A:A.248 EDO.6: 7 residues within 4Å: Chain A: P.214, D.215, T.216, D.217, F.239, V.240, R.328 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.215, A:T.216, A:D.217, A:D.217, A:R.328 Water bridges: A:D.217 EDO.9: 7 residues within 4Å: Chain B: P.214, D.215, T.216, D.217, F.239, V.240, R.328 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.216, B:D.217, B:D.217, B:R.328

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

SSGCID et al., Crystal structure of a putative Cytosolic malate dehydrogenase from Leishmania major Friedlin in complex with NAD. TO BE PUBLISHED

Release Date

2012-12-19

Peptides

Malate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Malate dehydrogenase

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