SMTL ID : 4rdz.1

Crystal structure of VmoLac in P64 space group

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

4 x CO: COBALT (II) ION(Non-covalent)

CO.1: 6 residues within 4Å: Chain A: H.24, H.26, K.139, D.258 Ligands: CO.2, MYR.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.24, A:H.26, A:D.258, H2O.19 CO.2: 7 residues within 4Å: Chain A: H.24, K.139, H.172, H.201, R.225 Ligands: CO.1, MYR.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.172, A:H.201, H2O.19 CO.5: 6 residues within 4Å: Chain B: H.24, H.26, K.139, D.258 Ligands: CO.6, MYR.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.24, B:H.26, B:D.258, H2O.39 CO.6: 7 residues within 4Å: Chain B: H.24, K.139, H.172, H.201, R.225 Ligands: CO.5, MYR.8 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.172, B:H.201, H2O.39

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: T.100, Y.101, T.102, W.265 Chain B: F.106 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.100, A:Y.101, A:T.102, A:T.102, A:W.265 Water bridges: B:E.103 GOL.7: 4 residues within 4Å: Chain B: E.212, R.216, R.247, W.249 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.212, B:R.216, B:R.247, B:R.247 Water bridges: B:R.247

2 x MYR: MYRISTIC ACID(Non-covalent)

MYR.4: 16 residues within 4Å: Chain A: H.26, L.29, Y.99, K.139, H.172, R.225, I.230, D.258, I.263, W.265, Y.266, V.270, T.274, W.278 Ligands: CO.1, CO.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.29, A:I.263, A:W.265, A:Y.266, A:V.270, A:W.278 Hydrogen bonds: A:Y.99 Water bridges: A:R.225 Salt bridges: A:H.26, A:H.172, A:H.201, A:R.225 MYR.8: 15 residues within 4Å: Chain B: H.26, L.29, Y.99, K.139, H.172, R.225, L.228, I.230, D.258, I.263, W.265, Y.266, T.274 Ligands: CO.5, CO.6 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.29, B:L.228, B:I.230, B:W.265, B:Y.266, B:T.274 Water bridges: B:R.225 Salt bridges: B:H.26, B:H.172, B:H.201, B:R.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hiblot, J. et al., Crystal structure of VmoLac, a tentative quorum quenching lactonase from the extremophilic crenarchaeon Vulcanisaeta moutnovskia. Sci Rep (2015)

Release Date

2015-02-25

Peptides

Parathion hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Parathion hydrolase

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