SMTL ID : 6vrs.1

Single particle reconstruction of glucose isomerase from Streptomyces rubiginosus based on data acquired in the presence of substantial aberrations

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 2.70 Å

Oligo State

homo-tetramer

Ligands

8 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: E.217, H.220, D.255, D.257, D.287 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.217, A:H.220, A:D.255, A:D.257 MN.2: 4 residues within 4Å: Chain A: E.181, E.217, D.245, D.287 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.181, A:E.217, A:D.245, A:D.287, H2O.1 MN.3: 5 residues within 4Å: Chain B: E.217, H.220, D.255, D.257, D.287 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.217, B:E.217, B:H.220, B:D.255, B:D.257 MN.4: 4 residues within 4Å: Chain B: E.181, E.217, D.245, D.287 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.181, B:E.217, B:D.245, B:D.287, H2O.1 MN.5: 4 residues within 4Å: Chain C: E.181, E.217, D.245, D.287 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.181, C:E.217, C:D.245, C:D.287, H2O.1 MN.6: 5 residues within 4Å: Chain C: E.217, H.220, D.255, D.257, D.287 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.217, C:E.217, C:H.220, C:D.255, C:D.257 MN.7: 5 residues within 4Å: Chain D: E.217, H.220, D.255, D.257, D.287 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.217, D:H.220, D:D.255, D:D.257 MN.8: 4 residues within 4Å: Chain D: E.181, E.217, D.245, D.287 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.181, D:E.217, D:D.245, D:D.287, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bromberg, R. et al., High-resolution cryo-EM reconstructions in the presence of substantial aberrations. Iucrj (2020)

Release Date

2020-02-19

Peptides

xylose isomerase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

xylose isomerase

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