SMTL ID : 5n6v.1

Crystal structure of Neisseria polysaccharea amylosucrase mutant derived from Neutral genetic Drift-based engineering

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

2 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 11 residues within 4Å: Chain A: D.231, V.434, P.435, F.436, Q.437, Y.438, W.498, S.505, D.506, D.507, S.508 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.506, A:S.508, A:D.231, A:Q.437, A:Y.438 Water bridges: A:D.231, A:D.506, A:D.231, A:D.231 GLC-FRU.2: 6 residues within 4Å: Chain A: L.12, D.13, Y.15, T.16, P.17, R.20 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.20, A:R.20 Water bridges: A:R.20, A:D.13, A:Y.15

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 9 residues within 4Å: Chain A: D.144, Y.147, H.187, F.229, F.250, Q.254, D.286, E.328, R.509 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Y.147, A:Q.254, A:D.286, A:E.328, A:R.509 Water bridges: A:R.284, A:R.284, A:D.393, A:D.393

1 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.4: 4 residues within 4Å: Chain A: T.363, H.414, F.417, F.426 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.414

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.5: 8 residues within 4Å: Chain A: L.457, A.458, D.460, L.493, L.520, T.529, A.530, A.531 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.530, A:A.531 Water bridges: A:D.460 Salt bridges: A:D.460, A:D.460

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 5 residues within 4Å: Chain A: Q.371, Y.375, R.376, D.403, Y.406 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.376

2 x FRU: beta-D-fructofuranose(Non-covalent)

FRU.7: 6 residues within 4Å: Chain A: R.86, W.92, Q.98, T.128, G.176, S.178 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.86, A:Q.98, A:T.128, A:G.176, A:S.178, A:S.178 Water bridges: A:N.89, A:G.176, A:S.178, A:D.281 FRU.8: 3 residues within 4Å: Chain A: P.597, K.599, A.628 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.628 Water bridges: A:R.550, A:A.628

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.9: 7 residues within 4Å: Chain A: W.194, L.204, F.205, F.208, W.263, R.266, A.267 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.266, A:R.266 Water bridges: A:Q.67, A:Q.67

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Daude, D. et al., Neutral Genetic Drift-Based Engineering of a Sucrose-Utilizing Enzyme toward Glycodiversification. Acs Catalysis (2019)

Release Date

2018-03-07

Peptides

Amylosucrase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Amylosucrase