SMTL ID : 2vgd.1

Crystal structure of environmental isolated GH11 in complex with xylobiose and feruloyl-arabino-xylotriose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x XYP- XYP- XYP: beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-beta-D-xylopyranose(Non-functional Binders)

XYP-XYP-XYP.1: 11 residues within 4Å: Chain A: N.69, N.95, Y.97, Y.112, W.120, R.147, Q.161, W.163, E.202, Y.204 Ligands: FX3.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.69, A:Y.112, A:Q.161 Water bridges: A:R.147, A:R.147, A:E.202, A:E.202

1 x XYP- XYP: beta-D-xylopyranose-(1-4)-beta-D-xylopyranose(Non-covalent)

XYP-XYP.2: 10 residues within 4Å: Chain A: S.41, W.43, V.71, Y.101, W.103, E.110, P.151, S.152, I.153, Y.196 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.43

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 5 residues within 4Å: Chain A: S.135, D.136, Y.140, I.175, H.180 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.136, A:D.136

1 x FX3: 5-O-[(2E)-3-(4-hydroxy-3-methoxyphenyl)prop-2-enoyl]-alpha-L-ribofuranose(Non-functional Binders)

FX3.4: 7 residues within 4Å: Chain A: D.126, Q.146, R.147, V.148, N.149, P.151 Ligands: XYP-XYP-XYP.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.126, A:R.147, A:V.148 Salt bridges: A:R.147

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain A: F.90, N.91 3 PLIP interactions: 3 interactions with chain A Water bridges: A:F.90, A:F.90, A:S.92 GOL.6: 5 residues within 4Å: Chain A: R.121, P.122, P.123, G.124, Y.143 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.121, A:G.124, A:Y.143 GOL.7: 3 residues within 4Å: Chain A: W.117, S.168, K.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.169, A:K.169 GOL.8: 2 residues within 4Å: Chain A: V.148, N.149 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vardakou, M. et al., Understanding the Structural Basis for Substrate and Inhibitor Recognition in Eukaryotic Gh11 Xylanases. J.Mol.Biol. (2008)

Release Date

2007-12-25

Peptides

ENXYN11A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ENXYN11A