SMTL ID : 5nqb.1

Rabbit Muscle L-lactate dehydrogenase in complex with malonate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

homo-tetramer

Ligands

7 x MLI: MALONATE ION(Non-functional Binders)

MLI.1: 7 residues within 4Å: Chain A: R.171, H.186, W.188, V.270 Chain C: L.183, S.184, H.186 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain C Water bridges: A:V.270, C:L.183, C:A.207 Salt bridges: A:R.171, A:H.186, C:H.186, C:H.186 MLI.2: 6 residues within 4Å: Chain B: R.171, H.186, W.188, V.270 Chain D: S.184, H.186 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain D Water bridges: B:R.171, B:H.186, B:W.188, D:A.207 Salt bridges: B:R.171, B:H.186, D:H.186, D:H.186 MLI.3: 5 residues within 4Å: Chain B: N.138, L.165, R.169, H.193, A.238 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.138 Water bridges: B:G.162, B:L.165, B:R.169 Salt bridges: B:R.169, B:H.193, B:H.193 MLI.4: 6 residues within 4Å: Chain A: L.183, S.184, H.186 Chain C: R.171, H.186, V.270 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:V.270 Water bridges: C:R.171, C:R.171, C:H.186 Salt bridges: C:R.171, C:H.186, A:H.186, A:H.186 MLI.5: 9 residues within 4Å: Chain C: R.99, Q.100, R.106, N.138, L.165, R.169, H.193, A.238, T.248 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:Q.100, C:N.138, C:T.248, C:T.248 Water bridges: C:R.99, C:N.138, C:H.193 Salt bridges: C:R.106, C:R.106, C:R.169, C:H.193, C:H.193 MLI.6: 6 residues within 4Å: Chain B: L.183, S.184, H.186 Chain D: R.171, H.186, V.270 9 PLIP interactions: 4 interactions with chain B, 5 interactions with chain D Water bridges: B:H.186, B:A.207, D:R.171, D:R.171, D:H.186 Salt bridges: B:H.186, B:H.186, D:R.171, D:H.186 MLI.7: 5 residues within 4Å: Chain D: N.138, R.169, H.193, A.238, T.248 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:A.238 Hydrogen bonds: D:N.138 Water bridges: D:R.169, D:H.193, D:T.248 Salt bridges: D:R.169, D:H.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alam, M.T. et al., The self-inhibitory nature of metabolic networks and its alleviation through compartmentalization. Nat Commun (2017)

Release Date

2017-05-03

Peptides

L-lactate dehydrogenase A chain: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

L-lactate dehydrogenase A chain

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