SMTL ID : 2zm2.2 (1 other biounit)

Structure of 6-aminohexanoate-dimer hydrolase, A61V/A124V/R187S/F264C/G291R/G338A/D370Y mutant (Hyb-S4M94)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.107, R.251, D.252 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.252, A:D.252 Water bridges: A:D.252 Salt bridges: A:R.107, A:R.251 SO4.2: 1 residues within 4Å: Chain A: R.293 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.293 SO4.3: 5 residues within 4Å: Chain A: P.173, Q.178, R.182, S.187, R.190 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.178, A:S.187 Water bridges: A:R.182, A:T.188, A:R.190 Salt bridges: A:R.182, A:R.190 SO4.4: 1 residues within 4Å: Chain A: R.205 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.205 SO4.5: 2 residues within 4Å: Chain A: R.274, R.278 9 PLIP interactions: 9 interactions with chain A Water bridges: A:D.248, A:R.274, A:R.278, A:R.278, A:R.278, A:R.278, A:R.278 Salt bridges: A:R.274, A:R.278

4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.6: 12 residues within 4Å: Chain A: S.112, Y.215, D.314, G.316, F.317, W.331, I.343, G.344, I.345, Y.370, H.375 Ligands: GOL.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.112, A:G.344, A:I.345 Water bridges: A:Y.215, A:Q.348 MES.7: 2 residues within 4Å: Chain A: R.99, G.101 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.99 MES.8: 6 residues within 4Å: Chain A: Q.69, L.70, P.71, D.72, R.76, D.384 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.72 Salt bridges: A:R.76, A:D.384 MES.9: 13 residues within 4Å: Chain A: M.111, S.112, K.115, Y.166, V.177, H.180, G.181, W.186, S.217, H.266, G.267, I.345 Ligands: GOL.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.217 Water bridges: A:S.112 Salt bridges: A:K.115, A:H.266

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 9 residues within 4Å: Chain A: Y.166, E.168, V.177, Y.215, C.216, S.217, I.345 Ligands: MES.6, MES.9 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.215, A:S.217 Water bridges: A:S.112, A:E.168 GOL.11: 8 residues within 4Å: Chain A: L.155, D.159, Q.161, G.306, G.307, S.308, T.327, R.328 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.159, A:Q.161, A:S.308, A:T.327, A:R.328, A:R.328 Water bridges: A:Q.161, A:R.302 GOL.12: 4 residues within 4Å: Chain A: N.335, E.336, R.337, R.387 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.335, A:E.336, A:E.336, A:R.387 Water bridges: A:E.336, A:R.337 GOL.13: 6 residues within 4Å: Chain A: E.96, Y.98, P.104, D.105, D.250, R.274 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.96, A:D.250, A:D.250

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ohki, T. et al., Two alternative modes for optimizing nylon-6 byproduct hydrolytic activity from a carboxylesterase with a beta-lactamase fold: X-ray crystallographic analysis of directly evolved 6-aminohexanoate-dimer hydrolase. Protein Sci. (2009)

Release Date

2009-04-21

Peptides

6-aminohexanoate-dimer hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

6-aminohexanoate-dimer hydrolase

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