SMTL ID : 4plz.1

Crystal structure of Plasmodium falciparum lactate dehydrogenase mutant W107fA.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.05 Å

Oligo State

homo-tetramer

Ligands

4 x OXM: OXAMIC ACID(Non-covalent)

OXM.1: 7 residues within 4Å: Chain A: N.127, L.154, R.158, H.182, A.225, P.235 Ligands: NAI.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.127 Water bridges: A:H.182 Salt bridges: A:R.158, A:H.182 OXM.3: 7 residues within 4Å: Chain B: N.127, L.154, R.158, H.182, A.225, P.235 Ligands: NAI.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.127 Water bridges: B:H.182 Salt bridges: B:R.158, B:H.182 OXM.5: 7 residues within 4Å: Chain C: N.127, L.154, R.158, H.182, A.225, P.235 Ligands: NAI.6 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.127 Water bridges: C:H.182 Salt bridges: C:R.158, C:H.182 OXM.7: 7 residues within 4Å: Chain D: N.127, L.154, R.158, H.182, A.225, P.235 Ligands: NAI.8 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:N.127 Water bridges: D:H.182 Salt bridges: D:R.158, D:H.182

4 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.2: 25 residues within 4Å: Chain A: V.10, G.11, G.13, M.14, I.15, F.34, D.35, I.36, V.37, M.40, Y.67, T.79, A.80, G.81, I.105, E.108, V.125, T.126, N.127, V.129, L.150, L.154, H.182, P.239 Ligands: OXM.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.15, A:V.125, A:L.154, A:P.239 Hydrogen bonds: A:M.14, A:I.15, A:I.36, A:Y.67, A:Y.67, A:G.81, A:N.127, A:N.127, A:L.150 Water bridges: A:G.13, A:G.16 NAI.4: 25 residues within 4Å: Chain B: V.10, G.11, G.13, M.14, I.15, F.34, D.35, I.36, V.37, M.40, Y.67, T.79, A.80, G.81, I.105, E.108, V.125, T.126, N.127, V.129, L.150, L.154, H.182, P.239 Ligands: OXM.3 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.15, B:V.125, B:L.154, B:P.239 Hydrogen bonds: B:M.14, B:I.15, B:I.36, B:Y.67, B:Y.67, B:G.81, B:N.127, B:N.127, B:L.150 Water bridges: B:G.13, B:G.16 NAI.6: 25 residues within 4Å: Chain C: V.10, G.11, G.13, M.14, I.15, F.34, D.35, I.36, V.37, M.40, Y.67, T.79, A.80, G.81, I.105, E.108, V.125, T.126, N.127, V.129, L.150, L.154, H.182, P.239 Ligands: OXM.5 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:I.15, C:V.125, C:L.154, C:P.239 Hydrogen bonds: C:M.14, C:I.15, C:I.36, C:Y.67, C:G.81, C:E.108, C:N.127, C:N.127, C:L.150 Water bridges: C:G.13, C:G.16 NAI.8: 25 residues within 4Å: Chain D: V.10, G.11, G.13, M.14, I.15, F.34, D.35, I.36, V.37, M.40, Y.67, T.79, A.80, G.81, I.105, E.108, V.125, T.126, N.127, V.129, L.150, L.154, H.182, P.239 Ligands: OXM.7 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:I.15, D:V.125, D:L.154, D:P.239 Hydrogen bonds: D:M.14, D:I.15, D:I.36, D:Y.67, D:G.81, D:E.108, D:N.127, D:N.127, D:L.150 Water bridges: D:G.13, D:G.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boucher, J.I. et al., An atomic-resolution view of neofunctionalization in the evolution of apicomplexan lactate dehydrogenases. Elife (2014)

Release Date

2014-07-02

Peptides

L-lactate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

L-lactate dehydrogenase