SMTL ID : 5avn.3 (2 other biounits)

The 1.03 angstrom structure (P212121) of glucose isomerase crystallized in high-strength agarose hydrogel

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.03 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 4 residues within 4Å: Chain A: E.216, H.219, D.254, D.256 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.216, A:H.219, A:D.254, A:D.256, H2O.7 MN.5: 4 residues within 4Å: Chain B: E.216, H.219, D.254, D.256 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.216, B:H.219, B:D.254, B:D.256, H2O.28

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.180, E.216, D.244, D.286 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.180, A:E.216, A:D.244, A:D.286 CA.6: 4 residues within 4Å: Chain B: E.180, E.216, D.244, D.286 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.180, B:E.216, B:D.244, B:D.286

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

SO4.3: 5 residues within 4Å: Chain A: G.18, W.19, Q.20, G.21, R.22 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.18, A:Q.20, A:G.21, A:R.22 Water bridges: A:R.22, A:R.22 Salt bridges: A:R.22 SO4.4: 3 residues within 4Å: Chain A: R.22, D.27, A.28 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.28 Water bridges: A:R.22, A:D.27, A:D.27 Salt bridges: A:R.22 SO4.7: 4 residues within 4Å: Chain B: W.19, Q.20, G.21, R.22 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.20, B:G.21, B:R.22 Water bridges: B:R.22, B:R.22 Salt bridges: B:R.22 SO4.8: 3 residues within 4Å: Chain B: R.22, D.27, A.28 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:A.28 Water bridges: B:D.27, B:D.27 Salt bridges: B:R.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sugiyama, S. et al., Growth of protein crystals in hydrogels prevents osmotic shock. J.Am.Chem.Soc. (2012)

Release Date

2015-07-08

Peptides

Xylose isomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Xylose isomerase

Related Entries With Identical Sequence