SMTL ID : 5z66.1

Structure of periplasmic trehalase from Diamondback moth gut bacteria complexed with validoxylamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: H.181, W.182, D.183, K.184 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.183, A:K.184 Water bridges: A:H.181, A:W.182, A:W.182 Salt bridges: A:H.181, A:K.184 SO4.2: 3 residues within 4Å: Chain A: R.405, N.406, Q.407 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.406, A:N.406, A:Q.407 Water bridges: A:R.405, A:R.405, A:R.405 Salt bridges: A:R.405 SO4.3: 4 residues within 4Å: Chain A: E.224, K.350, R.357, K.419 7 PLIP interactions: 7 interactions with chain A Water bridges: A:K.350, A:K.350, A:R.357, A:R.357 Salt bridges: A:K.350, A:R.357, A:K.419 SO4.4: 5 residues within 4Å: Chain A: Y.247, D.250, K.262, R.263, D.279 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.250, A:D.250, A:D.279 Water bridges: A:R.263 Salt bridges: A:K.262, A:R.263 SO4.5: 3 residues within 4Å: Chain A: T.136, D.138, K.139 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.136, A:D.138, A:K.139 Water bridges: A:T.136, A:T.136, A:T.136 SO4.6: 3 residues within 4Å: Chain A: C.546, D.547, S.548 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.547, A:S.548 Water bridges: A:D.547, A:D.547 SO4.7: 1 residues within 4Å: Chain A: K.152 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.152, A:K.152 Salt bridges: A:K.152 SO4.8: 2 residues within 4Å: Chain A: P.541, K.542 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.542 Water bridges: A:C.540, A:A.543

1 x VDM: (1S,2S,3R,6S)-4-(HYDROXYMETHYL)-6-{[(1S,2S,3S,4R,5R)-2,3,4-TRIHYDROXY-5-(HYDROXYMETHYL)CYCLOHEXYL]AMINO}CYCLOHEX-4-ENE-1,2,3-TRIOL(Non-covalent)

VDM.9: 22 residues within 4Å: Chain A: P.157, R.160, F.161, Y.165, W.167, D.168, N.204, Y.210, R.213, Q.215, R.284, E.286, S.287, A.314, G.317, D.319, Q.453, W.454, E.518, Y.519, F.525, W.527 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:F.161, A:F.161, A:Y.165 Hydrogen bonds: A:R.160, A:R.160, A:W.167, A:D.168, A:N.204, A:N.204, A:Y.210, A:R.213, A:Q.215, A:R.284, A:S.287, A:S.287, A:D.319, A:Q.453, A:W.454, A:E.518 Water bridges: A:D.319

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 3 residues within 4Å: Chain A: S.231, D.232, K.235 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.235, A:K.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Adhav, A. et al., Mechanistic insights into enzymatic catalysis by trehalase from the insect gut endosymbiont Enterobacter cloacae. Febs J. (2019)

Release Date

2019-01-23

Peptides

Periplasmic trehalase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Periplasmic trehalase

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