SMTL ID : 1i10.2 (1 other biounit)

HUMAN MUSCLE L-LACTATE DEHYDROGENASE M CHAIN, TERNARY COMPLEX WITH NADH AND OXAMATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 4 residues within 4Å: Chain A: R.170, H.185, W.187 Chain C: H.185 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:W.187 Salt bridges: A:R.170, A:H.185, C:H.185 Water bridges: C:H.185 ACT.4: 4 residues within 4Å: Chain B: R.170, H.185, W.187 Chain D: H.185 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:W.187 Salt bridges: B:R.170, B:H.185, D:H.185 Water bridges: D:H.185 ACT.7: 6 residues within 4Å: Chain A: L.182, S.183, H.185 Chain C: R.170, H.185, W.187 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:W.187 Salt bridges: C:R.170, C:H.185, A:H.185 ACT.10: 3 residues within 4Å: Chain B: H.185 Chain D: R.170, H.185 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain B Water bridges: D:R.170, D:W.187 Salt bridges: D:R.170, D:H.185, B:H.185

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

NAI.2: 24 residues within 4Å: Chain A: G.28, A.29, V.30, D.51, V.52, I.53, T.94, A.95, G.96, A.97, R.98, Q.99, I.115, F.118, I.119, V.135, S.136, N.137, S.160, L.164, H.192, T.247, I.251 Ligands: OXM.3 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.251, A:I.251 Hydrogen bonds: A:V.27, A:A.29, A:V.30, A:V.52, A:G.96, A:Q.99, A:V.135, A:N.137, A:N.137, A:S.160 Water bridges: A:G.28, A:G.28 Salt bridges: A:R.98, A:R.98 NAI.5: 24 residues within 4Å: Chain B: G.28, A.29, V.30, D.51, V.52, I.53, T.94, A.95, G.96, A.97, R.98, L.108, N.112, I.115, I.119, V.135, N.137, V.139, S.160, L.164, H.192, T.247, I.251 Ligands: OXM.6 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:V.30, B:I.251, B:I.251 Hydrogen bonds: B:V.27, B:A.29, B:V.30, B:V.52, B:G.96, B:A.97, B:N.112, B:V.135, B:N.137, B:N.137, B:S.160 Water bridges: B:G.28, B:G.31, B:R.98, B:Q.99 Salt bridges: B:R.98, B:R.98 NAI.8: 22 residues within 4Å: Chain C: G.26, G.28, A.29, V.30, D.51, V.52, I.53, T.94, A.95, G.96, R.98, I.115, I.119, V.135, S.136, N.137, S.160, L.164, H.192, T.247, I.251 Ligands: OXM.9 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:V.30, C:I.251 Hydrogen bonds: C:V.27, C:V.30, C:V.52, C:G.96, C:V.135, C:N.137, C:N.137, C:S.160 Water bridges: C:G.28, C:G.28, C:A.29, C:Y.82 Salt bridges: C:R.98 NAI.11: 25 residues within 4Å: Chain D: G.26, G.28, A.29, V.30, D.51, V.52, I.53, T.94, A.95, G.96, A.97, R.98, N.112, I.115, I.119, V.135, S.136, N.137, V.139, S.160, L.164, H.192, T.247, I.251 Ligands: OXM.12 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:I.251, D:I.251 Hydrogen bonds: D:V.27, D:G.28, D:A.29, D:V.30, D:V.52, D:G.96, D:A.97, D:N.112, D:V.135, D:N.137, D:N.137, D:S.160 Water bridges: D:G.31, D:Q.99 Salt bridges: D:R.98, D:R.98

4 x OXM: OXAMIC ACID(Non-covalent)

OXM.3: 8 residues within 4Å: Chain A: Q.99, N.137, L.164, R.168, H.192, A.237, T.247 Ligands: NAI.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.99, A:N.137, A:T.247 Salt bridges: A:R.168, A:H.192 OXM.6: 9 residues within 4Å: Chain B: Q.99, R.105, N.137, L.164, R.168, H.192, A.237, T.247 Ligands: NAI.5 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Q.99, B:R.105, B:N.137, B:T.247, B:T.247 Water bridges: B:T.247 Salt bridges: B:R.105, B:R.168, B:H.192 OXM.9: 6 residues within 4Å: Chain C: N.137, L.164, R.168, H.192, A.237 Ligands: NAI.8 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.137 Salt bridges: C:R.168, C:H.192 OXM.12: 8 residues within 4Å: Chain D: Q.99, R.105, N.137, R.168, H.192, A.237, T.247 Ligands: NAI.11 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:Q.99, D:R.105, D:N.137, D:T.247, D:T.247, D:T.247 Water bridges: D:T.247 Salt bridges: D:R.105, D:R.168, D:H.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Read, J.A. et al., Structural basis for altered activity of M- and H-isozyme forms of human lactate dehydrogenase. Proteins (2001)

Release Date

2001-03-28

Peptides

L-LACTATE DEHYDROGENASE M CHAIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

L-LACTATE DEHYDROGENASE M CHAIN

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