SMTL ID : 5mdh.1

CRYSTAL STRUCTURE OF TERNARY COMPLEX OF PORCINE CYTOPLASMIC MALATE DEHYDROGENASE ALPHA-KETOMALONATE AND TNAD AT 2.4 ANGSTROMS RESOLUTION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 25 residues within 4Å: Chain A: G.10, A.12, G.13, Q.14, I.15, D.41, I.42, M.45, V.86, G.87, S.88, M.89, P.90, I.107, Q.111, V.128, G.129, N.130, L.154, L.157, H.186, S.240, S.241, A.245 Ligands: MAK.2 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:V.128, A:L.157, A:A.245 Hydrogen bonds: A:G.10, A:A.12, A:A.12, A:Q.14, A:I.15, A:S.88, A:S.88, A:S.88, A:Q.111, A:V.128, A:N.130, A:S.240 Water bridges: A:G.13, A:A.16, A:R.91, A:S.240 NAD.3: 22 residues within 4Å: Chain B: G.10, A.12, G.13, Q.14, I.15, D.41, I.42, M.45, V.86, G.87, S.88, R.91, I.107, Q.111, V.128, G.129, N.130, L.154, L.157, H.186, S.240 Ligands: MAK.4 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.15, B:L.157 Hydrogen bonds: B:G.10, B:A.12, B:G.13, B:I.15, B:S.88, B:S.88, B:S.88, B:Q.111, B:N.130, B:L.154, B:S.240 Water bridges: B:G.13, B:L.157

2 x MAK: ALPHA-KETOMALONIC ACID(Non-covalent)(Covalent)

MAK.2: 9 residues within 4Å: Chain A: R.91, R.97, N.130, L.157, R.161, H.186, I.234, S.241 Ligands: NAD.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:R.97, A:N.130, A:N.130, A:H.186, A:S.241, A:S.241 Water bridges: A:S.240, A:S.240 Salt bridges: A:R.91, A:R.97, A:R.161 MAK.4: 11 residues within 4Å: Chain B: R.91, R.97, N.130, L.157, D.158, R.161, H.186, G.230, I.234, S.241 Ligands: NAD.3 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.97, B:R.97 Water bridges: B:D.158, B:D.158, B:R.161 Salt bridges: B:R.91, B:R.91, B:R.97, B:R.97, B:R.161, B:R.161, B:H.186

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chapman, A.D. et al., Structural basis of substrate specificity in malate dehydrogenases: crystal structure of a ternary complex of porcine cytoplasmic malate dehydrogenase, alpha-ketomalonate and tetrahydoNAD. J.Mol.Biol. (1999)

Release Date

1999-05-18

Peptides

MALATE DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MALATE DEHYDROGENASE