SMTL ID : 2xxj.1

Penta mutant of lactate dehydrogenase from Thermus thermophilus, ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: R.150, H.165, Y.167, V.249 Chain D: S.163, H.165 9 PLIP interactions: 3 interactions with chain D, 6 interactions with chain A Hydrogen bonds: D:Q.162, A:Y.167 Water bridges: D:Q.162, A:R.150, A:R.150, A:Y.167 Salt bridges: D:H.165, A:R.150, A:H.165 SO4.4: 6 residues within 4Å: Chain B: S.163, H.165 Chain C: R.150, H.165, Y.167, V.249 10 PLIP interactions: 7 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:Y.167, C:V.249 Water bridges: C:R.150, C:Q.184, C:V.249, B:H.165, B:H.165 Salt bridges: C:R.150, C:H.165, B:H.165

2 x OXM: OXAMIC ACID(Non-covalent)

OXM.2: 9 residues within 4Å: Chain B: Q.79, R.85, N.117, L.144, R.148, H.172, A.217, T.227 Ligands: NAD.3 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.85, B:N.117, B:N.117, B:T.227 Water bridges: B:T.227 Salt bridges: B:R.85, B:R.148, B:H.172 OXM.5: 9 residues within 4Å: Chain D: Q.79, R.85, N.117, L.144, R.148, H.172, A.217, T.227 Ligands: NAD.6 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:Q.79, D:R.85, D:N.117, D:T.227, D:T.227, D:T.227 Salt bridges: D:R.85, D:R.148, D:H.172

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

NAD.3: 29 residues within 4Å: Chain B: V.6, G.7, G.9, M.10, V.11, D.32, L.33, L.37, Y.62, A.74, A.75, G.76, V.77, A.78, Q.79, L.88, N.92, V.95, V.99, A.115, T.116, N.117, V.119, S.140, L.144, H.172, T.227, I.231 Ligands: OXM.2 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:V.11, B:I.231, B:I.231 Hydrogen bonds: B:M.10, B:V.11, B:L.33, B:Y.62, B:Y.62, B:G.76, B:V.77, B:Q.79, B:N.92, B:N.117, B:N.117, B:S.140 Water bridges: B:G.9, B:G.12, B:A.78, B:Q.79, B:S.140, B:H.172 NAD.6: 28 residues within 4Å: Chain D: V.6, G.7, G.9, M.10, V.11, V.31, D.32, L.33, L.37, Y.62, A.74, A.75, G.76, V.77, A.78, Q.79, N.92, V.99, A.115, T.116, N.117, V.119, S.140, L.144, H.172, T.227, I.231 Ligands: OXM.5 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:I.231 Hydrogen bonds: D:M.10, D:V.11, D:L.33, D:Y.62, D:G.76, D:G.76, D:V.77, D:N.92, D:N.117, D:N.117, D:S.140, D:S.140 Water bridges: D:G.9, D:G.12, D:Q.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tickle, J. et al., Lactate Dehydrogenase from T. Thermophilus, Penta- Mutant (Ternary Complex). To be Published

Release Date

2010-11-24

Peptides

L-LACTATE DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

L-LACTATE DEHYDROGENASE

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