SMTL ID : 6nu7.1

Structure of sucrose-6-phosphate hydrolase from Lactobacillus gasseri

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: Q.169, F.171, L.226, V.227, F.228, N.293 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.169, A:L.226 Water bridges: A:N.293 EDO.3: 2 residues within 4Å: Chain A: R.5, E.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.5, A:E.6 Water bridges: A:E.6 EDO.4: 6 residues within 4Å: Chain A: H.86 Chain B: H.86, N.346, L.347, N.486, I.488 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.86, B:N.486 Water bridges: B:N.346 EDO.7: 6 residues within 4Å: Chain B: Q.169, F.171, L.226, V.227, F.228, N.293 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.169, B:L.226 Water bridges: B:N.293 EDO.9: 2 residues within 4Å: Chain B: R.5, E.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.5, B:E.6 Water bridges: B:E.6 EDO.10: 6 residues within 4Å: Chain A: H.86, N.346, L.347, N.486, I.488 Chain B: H.86 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.86, A:N.486 Water bridges: A:N.346

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

TRS.2: 7 residues within 4Å: Chain A: N.46, D.47, Y.106, S.107, R.166, D.167, E.222 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.46, A:D.47, A:D.47, A:S.107, A:R.166, A:D.167 Water bridges: A:Y.106, A:Y.106, A:E.222 TRS.8: 7 residues within 4Å: Chain B: N.46, D.47, Y.106, S.107, R.166, D.167, E.222 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.46, B:D.47, B:D.47, B:S.107, B:R.166, B:D.167 Water bridges: B:Y.106, B:Y.106, B:E.222

4 x NA: SODIUM ION(Non-functional Binders)

NA.5: 1 residues within 4Å: Chain A: N.298 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.298 Water bridges: A:D.296, A:G.297, A:N.298, A:N.298 NA.6: 4 residues within 4Å: Chain A: R.410, V.417, G.422, A.423 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.410, A:V.417 Water bridges: A:V.417 NA.11: 1 residues within 4Å: Chain B: N.298 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.298, B:N.298 NA.12: 4 residues within 4Å: Chain B: R.410, V.417, G.422, A.423 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.410, B:G.422 Water bridges: B:V.417

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lima, M.Z.T. et al., Structure of sucrose-6-phosphate hydrolase from Lactobacillus gasseri. To Be Published

Release Date

2020-02-05

Peptides

Sucrose-6-phosphate hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Sucrose-6-phosphate hydrolase

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