SMTL ID : 7dz2.1

Crystal structures of D-allulose 3-epimerase from Sinorhizobium fredii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: E.146, D.179, H.205, R.211, E.240 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.146, A:D.179, A:H.205, A:E.240, H2O.4 MG.4: 5 residues within 4Å: Chain B: E.146, D.179, H.205, R.211, E.240 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.146, B:D.179, B:H.205, B:E.240, H2O.16 MG.7: 4 residues within 4Å: Chain C: E.146, D.179, H.205, E.240 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.146, C:D.179, C:H.205, C:E.240, H2O.24, H2O.29 MG.8: 4 residues within 4Å: Chain D: E.146, D.179, H.205, E.240 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.146, D:D.179, D:H.205, D:E.240, H2O.37, H2O.37

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

SO4.2: 6 residues within 4Å: Chain A: W.13, T.14, M.15, N.16, R.24, P.246 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:M.15, A:N.16, A:N.16 Water bridges: A:R.24, A:R.24 Salt bridges: A:R.24 SO4.3: 4 residues within 4Å: Chain A: N.244, D.262, E.263, E.264 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.244, A:N.244, A:E.263 SO4.5: 3 residues within 4Å: Chain A: Q.280 Chain B: N.192, D.196 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.196 Water bridges: B:W.160, B:N.192, B:N.192 SO4.6: 4 residues within 4Å: Chain B: N.244, D.262, E.263, E.264 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.244, B:E.263, B:E.263, B:E.264

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, C. et al., Substantial Improvement of an Epimerase for the Synthesis of D-Allulose by Biosensor-Based High-Throughput Microdroplet Screening. Angew.Chem.Int.Ed.Engl. (2023)

Release Date

2022-08-03

Peptides

D-tagatose 3-epimerase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

D-tagatose 3-epimerase

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