SMTL ID : 6q8m.1 (1 other biounit)

GH10 endo-xylanase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: V.52, T.53, N.56, L.93, G.96, N.97 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.52 Hydrogen bonds: A:N.56, A:G.96, A:N.97 NAG.2: 4 residues within 4Å: Chain A: N.123, T.169, I.170, A.173 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.123, A:I.170 Water bridges: A:I.170

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

EDO.3: 4 residues within 4Å: Chain A: Q.79, G.119, T.120, W.121 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.79, A:T.120, A:T.120 Water bridges: A:Q.79, A:Q.79 EDO.4: 4 residues within 4Å: Chain A: G.159, Y.161, S.207, A.210 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.172, A:S.207 EDO.5: 4 residues within 4Å: Chain A: N.156, T.160, Y.161, Y.167 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.156, A:Y.161 EDO.6: 9 residues within 4Å: Chain A: T.41, D.42, E.45, G.67, N.68, W.300, D.301, Y.306 Ligands: K.18 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.68, A:D.301 Water bridges: A:D.42, A:N.68, A:W.300 EDO.7: 4 residues within 4Å: Chain A: P.310, F.313, S.314, G.315 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.310, A:G.315 EDO.8: 1 residues within 4Å: Chain A: Q.276 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.276, A:Q.276 EDO.9: 3 residues within 4Å: Chain A: N.156, D.157, R.162 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.157, A:D.157 Water bridges: A:N.156, A:D.158, A:R.162 EDO.10: 7 residues within 4Å: Chain A: V.236, P.237, S.238, Q.276, S.279, D.280, A.283 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.276, A:D.280, A:D.280 Water bridges: A:T.239, A:A.283 EDO.11: 4 residues within 4Å: Chain A: R.209, A.210, Q.213, L.252 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.213 EDO.12: 8 residues within 4Å: Chain A: K.71, W.72, T.105, L.106, W.108, N.110, Q.111, L.112 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.72, A:T.105, A:W.108, A:Q.111 EDO.13: 6 residues within 4Å: Chain A: G.24, N.57, A.59, D.60, K.328, Y.332 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.57, A:N.57, A:K.328, A:K.328, A:Y.332 EDO.14: 5 residues within 4Å: Chain A: Y.196, N.197, H.230, R.264, F.313 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.230, A:R.264, A:R.264 Water bridges: A:S.232 EDO.15: 3 residues within 4Å: Chain A: P.77, S.78, W.115 2 PLIP interactions: 2 interactions with chain A Water bridges: A:P.77, A:P.77 EDO.16: 6 residues within 4Å: Chain A: D.88, A.91, D.92, H.140, Y.141, K.144 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.92, A:H.140 Water bridges: A:D.92, A:K.144 EDO.17: 3 residues within 4Å: Chain A: P.176, I.177, A.218 No protein-ligand interaction detected (PLIP)

2 x K: POTASSIUM ION(Non-covalent)

K.18: 3 residues within 4Å: Chain A: E.45, Y.306 Ligands: EDO.6 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.45, A:Y.306, H2O.3, H2O.12, H2O.13 K.19: 5 residues within 4Å: Chain A: L.34, C.288, V.289, T.291, C.294 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.288, A:T.291, A:C.294, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schroder, S.P. et al., Dynamic and Functional Profiling of Xylan-Degrading Enzymes inAspergillusSecretomes Using Activity-Based Probes. Acs Cent.Sci. (2019)

Release Date

2019-06-05

Peptides

Beta-xylanase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-xylanase

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