SMTL ID : 3i0p.1

Crystal structure of malate dehydrogenase from Entamoeba histolytica

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 29 residues within 4Å: Chain A: M.47, H.50, H.123, F.124, G.125, I.126, A.127, T.145, A.147, T.163, P.165, C.179, F.180, D.181, G.182, A.183, P.188, R.191, Y.324, A.326, G.327, K.329, E.330 Chain B: F.155, E.240, H.245, K.246, Y.248, C.249 21 PLIP interactions: 16 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:P.165, A:P.188 Hydrogen bonds: A:G.125, A:A.127, A:D.181, A:D.181, A:D.181, A:A.183, A:G.327, A:K.329, A:E.330, B:E.240, B:E.240 Water bridges: A:F.124, A:T.145, A:E.328 Salt bridges: A:R.191, A:R.191, B:H.245, B:K.246, B:K.246 NAD.3: 29 residues within 4Å: Chain A: F.155, E.240, H.245, K.246, Y.248, C.249 Chain B: M.47, H.50, H.123, F.124, G.125, I.126, A.127, T.145, A.147, T.163, P.165, C.179, F.180, D.181, G.182, A.183, P.188, R.191, Y.324, A.326, G.327, K.329, E.330 19 PLIP interactions: 4 interactions with chain A, 15 interactions with chain B Hydrogen bonds: A:E.240, B:G.125, B:A.127, B:D.181, B:D.181, B:D.181, B:A.183, B:G.327, B:K.329, B:E.330 Salt bridges: A:H.245, A:K.246, A:K.246, B:R.191, B:R.191 Hydrophobic interactions: B:P.165, B:P.188 Water bridges: B:F.124, B:E.328

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: S.10, D.12, T.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.10, A:S.10 GOL.4: 3 residues within 4Å: Chain B: S.10, D.12, T.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.10, B:S.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Edwards, T.E. et al., Crystal structure of malate dehydrogenase from Entamoeba histolytica. To be Published

Release Date

2009-07-14

Peptides

Malate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Malate dehydrogenase