SMTL ID : 2xvg.1

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 6 residues within 4Å: Chain A: H.882, E.885 Ligands: CL.2, CL.3, CL.4, NI.9 Ligand excluded by PLIP CL.2: 5 residues within 4Å: Chain A: N.503, H.882 Ligands: CL.1, CL.3, NI.9 Ligand excluded by PLIP CL.3: 6 residues within 4Å: Chain A: N.503, H.882 Ligands: CL.1, CL.2, CL.4, NI.9 Ligand excluded by PLIP CL.4: 6 residues within 4Å: Chain A: Q.881, H.882, E.885 Ligands: CL.1, CL.3, NI.9 Ligand excluded by PLIP

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 3 residues within 4Å: Chain A: W.347, W.542 Ligands: EDO.8 No protein-ligand interaction detected (PLIP) EDO.7: 3 residues within 4Å: Chain A: V.105, P.106, F.107 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.107 EDO.8: 3 residues within 4Å: Chain A: R.443, W.542 Ligands: EDO.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.471

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

SO4.6: 3 residues within 4Å: Chain A: D.164, K.401, E.611 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.164 Salt bridges: A:K.401

2 x NI: NICKEL (II) ION(Non-covalent)

NI.9: 7 residues within 4Å: Chain A: N.503, H.882, E.885 Ligands: CL.1, CL.2, CL.3, CL.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.882 NI.10: 1 residues within 4Å: Chain A: H.500 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.500, H2O.1, H2O.1, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Larsbrink, J. et al., Structural and Enzymatic Characterisation of a Glycoside Hydrolase Family 31 Alpha-Xylosidase from Cellvibrio Japonicus Involved in Xyloglucan Saccharification. Biochem.J. (2011)

Release Date

2011-04-13

Peptides

ALPHA XYLOSIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ALPHA XYLOSIDASE

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