SMTL ID : 7dz6.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: E.146, H.177, D.179, H.182, H.205, R.211, E.240 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.146, A:D.179, A:H.205, A:E.240 MG.2: 7 residues within 4Å: Chain B: E.146, H.177, D.179, H.182, 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.3 MG.4: 8 residues within 4Å: Chain C: E.146, H.177, D.179, H.182, H.205, R.211, E.240 Ligands: PSJ.3 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.146, C:D.179, C:H.205, C:E.240 MG.6: 8 residues within 4Å: Chain D: E.146, H.177, D.179, H.182, H.205, R.211, E.240 Ligands: PSJ.5 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.146, D:D.179, D:H.205, D:E.240

2 x PSJ: D-psicose(Non-covalent)

PSJ.3: 23 residues within 4Å: Chain C: H.9, E.38, P.40, M.41, L.42, S.66, L.67, G.103, V.104, I.109, E.146, V.148, E.152, H.177, D.179, H.182, H.205, R.211, E.240, F.242, V.249, L.253 Ligands: MG.4 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:H.9, C:S.66, C:S.66, C:V.104, C:E.146, C:E.152, C:H.182, C:R.211, C:R.211 Water bridges: C:R.211 PSJ.5: 24 residues within 4Å: Chain D: H.9, E.38, P.40, M.41, L.42, S.66, L.67, G.68, G.103, V.104, I.109, E.146, V.148, E.152, H.177, D.179, H.182, H.205, R.211, E.240, F.242, V.249, L.253 Ligands: MG.6 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:H.9, D:S.66, D:V.104, D:E.146, D:E.152, D:D.179, D:H.182, D:R.211, D:R.211, D:E.240

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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