SMTL ID : 6je2.2 (1 other biounit)

Ligand complex structure of GH10 family xylanase XynAF1, soaking for 80 minutes

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.22 Å

Oligo State

monomer

Ligands

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

XYP-XYP.1: 13 residues within 4Å: Chain A: N.46, K.49, H.82, W.86, Q.89, N.130, E.131, Q.206, E.238, W.278, W.286 Ligands: XYP-XYP.2, GOL.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.46, A:K.49, A:W.278 Water bridges: A:D.20 XYP-XYP.2: 10 residues within 4Å: Chain A: W.86, E.131, Y.174, N.175, Q.206, H.208, R.242, W.286, F.291 Ligands: XYP-XYP.1 5 PLIP interactions: 5 interactions with chain A Water bridges: A:W.86, A:S.88, A:S.88, A:E.131, A:Q.206

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 5 residues within 4Å: Chain A: N.101, L.105, I.147, I.148, A.151 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.101, A:I.148 Water bridges: A:I.148

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 10 residues within 4Å: Chain A: T.19, E.23, G.45, N.46, W.278, D.279, Y.284, S.285, W.286 Ligands: XYP-XYP.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.46, A:D.279, A:Y.284, A:W.286 Water bridges: A:D.240, A:W.278 GOL.5: 3 residues within 4Å: Chain A: Y.178, S.179, D.219 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.179 GOL.6: 6 residues within 4Å: Chain A: A.1, N.35, D.37, D.38, K.306, Y.310 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.35, A:D.37, A:D.37, A:D.38, A:K.306, A:K.306 Water bridges: A:Q.32, A:Y.310, A:Y.310

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, G. et al., Crystal structure of GH10 family xylanase XynAF1 from Aspergillus fumigatus Z5. To Be Published

Release Date

2020-05-20

Peptides

Beta-xylanase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-xylanase

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