SMTL ID : 7ehr.1

Levansucrase from Brenneria sp. EniD 312 at 1.33 angstroms resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.33 Å

Oligo State

monomer

Ligands

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

PGE.1: 8 residues within 4Å: Chain A: P.367, S.368, P.370, P.392, G.394, E.395, D.396, S.397 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.397 PGE.2: 5 residues within 4Å: Chain A: P.148, T.178, V.180, V.201, S.203 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.203 PGE.3: 4 residues within 4Å: Chain A: N.381, L.383, Y.427, P.429 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.381 PGE.4: 5 residues within 4Å: Chain A: E.422, F.423, D.424, Y.425 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.425

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 4 residues within 4Å: Chain A: E.206, A.207, D.208, T.214 5 PLIP interactions: 5 interactions with chain A Water bridges: A:E.206, A:E.206, A:T.214, A:T.214, A:S.216 PEG.6: 6 residues within 4Å: Chain A: R.35, Y.266, D.268, G.270, D.333, G.334 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.268 Water bridges: A:R.35, A:R.35, A:G.265

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

1PE.7: 8 residues within 4Å: Chain A: H.119, R.151, W.153, V.173, T.174, P.219, W.221, R.224 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.307 Water bridges: A:Y.220, A:Y.220, A:Y.220, A:R.224, A:R.224

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.8: 7 residues within 4Å: Chain A: N.96, A.99, E.101, Y.102, D.117, R.121 Ligands: PO4.14 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.121

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 5 residues within 4Å: Chain A: K.133, F.423, D.424, Y.427 Ligands: PGE.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.133, A:D.424 Water bridges: A:Y.427 GOL.10: 6 residues within 4Å: Chain A: N.218, Y.220, R.249, F.274, Q.275, D.306 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.218, A:N.218, A:R.249, A:F.274, A:Q.275 GOL.11: 4 residues within 4Å: Chain A: W.85, S.129, R.130, I.136 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.130 Water bridges: A:D.134 GOL.12: 7 residues within 4Å: Chain A: W.67, D.68, L.91, H.119, W.153, R.224, D.225 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.68, A:H.119, A:R.224 GOL.13: 4 residues within 4Å: Chain A: K.236, Y.238, V.283, F.350 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.238, A:Y.238 Water bridges: A:T.28

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.14: 3 residues within 4Å: Chain A: G.120, R.121 Ligands: PE4.8 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.120 Salt bridges: A:R.121 PO4.15: 3 residues within 4Å: Chain A: K.123, Y.125, R.140 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Y.125 Water bridges: A:D.94, A:D.94, A:D.94, A:K.123, A:K.123, A:K.123, A:R.140 Salt bridges: A:K.123 PO4.16: 4 residues within 4Å: Chain A: M.195, V.196, G.197, K.199 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.197 Water bridges: A:A.143, A:M.195, A:F.198, A:K.199 Salt bridges: A:K.199 PO4.17: 1 residues within 4Å: Chain A: R.285 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.236, A:R.285 Salt bridges: A:R.285

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, W. et al., Crystal Structure of Levansucrase from the Gram-Negative Bacterium Brenneria Provides Insights into Its Product Size Specificity. J.Agric.Food Chem. (2022)

Release Date

2022-04-20

Peptides

Levansucrase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Levansucrase