SMTL ID : 4mdh.1

REFINED CRYSTAL STRUCTURE OF CYTOPLASMIC MALATE DEHYDROGENASE AT 2.5-ANGSTROMS RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 7 residues within 4Å: Chain A: N.131, L.158, R.162, H.187, G.231, S.242 Ligands: NAD.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.131, A:S.242 Water bridges: A:R.162, A:S.242 Salt bridges: A:R.162, A:H.187 SO4.3: 5 residues within 4Å: Chain B: R.92, N.131, R.162, H.187 Ligands: NAD.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.92, B:N.131, B:R.162 Salt bridges: B:H.187

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

NAD.2: 24 residues within 4Å: Chain A: G.11, A.13, G.14, Q.15, I.16, D.42, I.43, V.87, G.88, S.89, M.90, P.91, R.92, I.108, Q.112, V.129, G.130, N.131, A.133, L.155, H.187, S.242, A.246 Ligands: SO4.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.16, A:A.246 Hydrogen bonds: A:G.11, A:A.13, A:Q.15, A:Q.15, A:I.16, A:S.89, A:S.89, A:M.90, A:R.92, A:N.131, A:N.131, A:L.155 Water bridges: A:A.17 NAD.4: 22 residues within 4Å: Chain B: G.11, A.13, G.14, Q.15, I.16, D.42, I.43, M.46, V.87, G.88, S.89, P.91, R.92, I.108, V.129, G.130, N.131, L.155, L.158, H.187, S.241 Ligands: SO4.3 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:I.16, B:L.158 Hydrogen bonds: B:G.11, B:G.11, B:A.13, B:Q.15, B:Q.15, B:I.16, B:S.89, B:S.89, B:S.89, B:N.131, B:N.131, B:L.155 Water bridges: B:A.17, B:S.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Birktoft, J.J. et al., Refined crystal structure of cytoplasmic malate dehydrogenase at 2.5-A resolution. Biochemistry (1989)

Release Date

1989-04-19

Peptides

CYTOPLASMIC MALATE DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CYTOPLASMIC MALATE DEHYDROGENASE