SMTL ID : 7f8d.1

Malate Dehydrogenase from Geobacillus stearothermophilus (gs-MDH) G218Y mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 24 residues within 4Å: Chain A: I.31, G.32, G.34, F.35, T.36, D.56, I.57, L.60, Y.90, T.102, A.103, G.104, I.123, Q.126, V.127, L.143, T.144, N.145, V.147, Q.168, L.172, H.200, A.250, P.254 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.143, A:L.143, A:L.172, A:P.254 Hydrogen bonds: A:G.34, A:F.35, A:T.36, A:Y.90, A:G.104, A:Q.126, A:Q.126, A:L.143, A:N.145, A:N.145, A:Q.168 Water bridges: A:G.37, A:S.249, A:S.249 NAD.2: 23 residues within 4Å: Chain B: G.32, G.34, F.35, T.36, D.56, I.57, L.60, T.102, A.103, G.104, I.105, A.106, I.123, Q.126, V.127, L.143, T.144, N.145, Q.168, L.172, H.200, S.249, P.254 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.143, B:L.172, B:P.254, B:P.254 Hydrogen bonds: B:G.34, B:F.35, B:T.36, B:T.102, B:G.104, B:I.105, B:Q.126, B:L.143, B:N.145, B:Q.168, B:S.249 Water bridges: B:G.37, B:G.37 NAD.3: 24 residues within 4Å: Chain C: I.31, G.32, G.34, F.35, T.36, D.56, I.57, L.60, Y.90, T.102, A.103, G.104, I.123, Q.126, V.127, L.143, T.144, N.145, V.147, Q.168, L.172, H.200, A.250, P.254 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:L.143, C:P.254 Hydrogen bonds: C:F.35, C:T.36, C:T.36, C:I.57, C:G.104, C:Q.126, C:L.143, C:N.145, C:N.145, C:Q.168 Water bridges: C:G.34, C:G.37 NAD.4: 24 residues within 4Å: Chain D: I.31, G.32, G.34, F.35, T.36, D.56, I.57, L.60, Y.90, T.102, A.103, G.104, I.123, Q.126, L.143, T.144, N.145, V.147, Q.168, L.172, H.200, S.249, A.250, P.254 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:L.143, D:L.172, D:P.254 Hydrogen bonds: D:A.33, D:G.34, D:F.35, D:T.36, D:I.57, D:Y.90, D:G.104, D:Q.126, D:L.143, D:N.145, D:N.145, D:Q.168 Water bridges: D:G.37, D:S.249

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shimozawa, Y. et al., Increasing loop flexibility affords low-temperature adaptation of a moderate thermophilic malate dehydrogenase from Geobacillus stearothermophilus. Protein Eng.Des.Sel. (2021)

Release Date

2022-02-23

Peptides

Malate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Malate dehydrogenase