SMTL ID : 2xim.1

ARGININE RESIDUES AS STABILIZING ELEMENTS IN PROTEINS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x XYL: Xylitol(Non-covalent)

XYL.1: 14 residues within 4Å: Chain A: W.15, H.53, F.93, W.136, E.180, K.182, E.216, H.219, D.244, D.254, D.291 Chain B: F.25 Ligands: MG.2, MG.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:H.53, A:T.89, A:E.180, A:H.219, A:D.254 Water bridges: A:W.15, A:H.53, A:N.214, A:E.216, A:D.291, A:D.291 XYL.4: 15 residues within 4Å: Chain A: F.25 Chain B: W.15, H.53, T.89, F.93, W.136, E.180, K.182, E.216, H.219, D.244, D.254, D.291 Ligands: MG.5, MG.6 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.89, B:H.219, B:D.244, B:D.254 Water bridges: B:N.214, B:D.291, B:D.291 XYL.7: 14 residues within 4Å: Chain C: W.15, H.53, F.93, W.136, E.180, K.182, E.216, H.219, D.244, D.254, D.291 Chain D: F.25 Ligands: MG.8, MG.9 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:H.53, C:E.180, C:K.182, C:H.219 Water bridges: C:W.15, C:N.214, C:D.291, C:D.291 XYL.10: 14 residues within 4Å: Chain C: F.25 Chain D: W.15, H.53, F.93, W.136, E.180, K.182, E.216, H.219, D.244, D.254, D.291 Ligands: MG.11, MG.12 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:H.53, D:H.219, D:D.254 Water bridges: D:W.15, D:T.89, D:N.214, D:E.216, D:D.291

8 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: E.180, E.216, D.244, D.291 Ligands: XYL.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.180, A:E.216, A:D.244, A:D.291 MG.3: 5 residues within 4Å: Chain A: E.216, H.219, D.254, D.256 Ligands: XYL.1 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.6 MG.5: 5 residues within 4Å: Chain B: E.180, E.216, D.244, D.291 Ligands: XYL.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.180, B:E.216, B:D.244, B:D.291 MG.6: 5 residues within 4Å: Chain B: E.216, H.219, D.254, D.256 Ligands: XYL.4 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.254, H2O.15 MG.8: 5 residues within 4Å: Chain C: E.180, E.216, D.244, D.291 Ligands: XYL.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.180, C:E.216, C:D.244, C:D.291 MG.9: 5 residues within 4Å: Chain C: E.216, H.219, D.254, D.256 Ligands: XYL.7 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.216, C:H.219, C:D.254, C:D.256, H2O.24 MG.11: 5 residues within 4Å: Chain D: E.180, E.216, D.244, D.291 Ligands: XYL.10 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.180, D:E.216, D:D.244, D:D.291 MG.12: 5 residues within 4Å: Chain D: E.216, H.219, D.254, D.256 Ligands: XYL.10 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.216, D:H.219, D:D.254, D:D.256, H2O.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mrabet, N.T. et al., Arginine residues as stabilizing elements in proteins. Biochemistry (1992)

Release Date

1993-04-15

Peptides

D-XYLOSE ISOMERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

D-XYLOSE ISOMERASE