SMTL ID : 1hyh.1

CRYSTAL STRUCTURE OF L-2-HYDROXYISOCAPROATE DEHYDROGENASE FROM LACTOBACILLUS CONFUSUS AT 2.2 ANGSTROMS RESOLUTION-AN EXAMPLE OF STRONG ASYMMETRY BETWEEN SUBUNITS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: N.123, L.150, R.154, H.178, T.228 Ligands: NAD.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.123, A:T.228, A:T.228 Salt bridges: A:R.154, A:H.178 SO4.3: 6 residues within 4Å: Chain B: N.123, L.150, R.154, H.178, T.228 Ligands: NAD.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.123, B:T.228 Salt bridges: B:R.154, B:H.178 SO4.5: 5 residues within 4Å: Chain C: L.150, R.154, H.178, T.228 Ligands: NAD.6 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:R.154, C:H.178 SO4.7: 5 residues within 4Å: Chain D: L.150, R.154, H.178, T.228 Ligands: NAD.8 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.228 Salt bridges: D:R.154, D:H.178

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

NAD.2: 28 residues within 4Å: Chain A: I.7, G.8, L.9, G.10, N.11, V.12, D.33, A.34, T.76, L.77, G.78, N.79, I.80, Q.83, E.94, F.97, M.101, V.105, I.121, S.122, N.123, V.125, T.146, L.150, H.178, T.228, V.232 Ligands: SO4.1 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:V.232, A:V.232 Hydrogen bonds: A:L.9, A:N.11, A:N.11, A:V.12, A:A.34, A:L.77, A:G.78, A:I.80, A:Q.83, A:E.94, A:I.121, A:N.123, A:N.123, A:T.146 Water bridges: A:G.13 NAD.4: 27 residues within 4Å: Chain B: G.8, L.9, G.10, N.11, V.12, D.33, A.34, N.35, T.76, L.77, G.78, N.79, I.80, E.94, F.97, M.101, V.105, I.121, S.122, N.123, V.125, T.146, L.150, H.178, T.228, V.232 Ligands: SO4.3 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:I.121, B:L.150, B:V.232, B:V.232 Hydrogen bonds: B:L.9, B:N.11, B:N.11, B:V.12, B:A.34, B:N.35, B:L.77, B:G.78, B:I.80, B:E.94, B:I.121, B:N.123, B:N.123, B:T.146 Water bridges: B:G.10, B:G.13 NAD.6: 19 residues within 4Å: Chain C: G.8, L.9, G.10, N.11, V.12, D.33, A.34, T.76, L.77, G.78, M.101, I.121, S.122, N.123, L.150, H.178, T.228, V.232 Ligands: SO4.5 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:V.232, C:V.232 Hydrogen bonds: C:L.9, C:N.11, C:N.11, C:V.12, C:A.34, C:N.35, C:L.77, C:S.122, C:T.146 Water bridges: C:G.10, C:G.13 NAD.8: 20 residues within 4Å: Chain D: G.8, L.9, G.10, N.11, V.12, D.33, A.34, N.35, T.76, L.77, G.78, M.101, I.121, S.122, N.123, L.150, H.178, T.228, V.232 Ligands: SO4.7 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:V.232 Hydrogen bonds: D:L.9, D:N.11, D:N.11, D:V.12, D:A.34, D:N.35, D:L.77, D:S.122, D:N.123, D:T.146 Water bridges: D:G.10, D:G.13

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Niefind, K. et al., Crystal structure of L-2-hydroxyisocaproate dehydrogenase from Lactobacillus confusus at 2.2 A resolution. An example of strong asymmetry between subunits. J.Mol.Biol. (1995)

Release Date

1995-10-15

Peptides

L-2-HYDROXYISOCAPROATE DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

L-2-HYDROXYISOCAPROATE DEHYDROGENASE