SMTL ID : 6mi1.1

CRYSTAL STRUCTURE ANALYSIS OF THE VARIANT PLANT EXOHYDROLASE ARG158ALA-GLU161ALA IN COMPLEX WITH METHYL 6-THIO-BETA-GENTIOBIOSIDE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x U1Y- BGC: beta-D-glucopyranose-(1-6)-methyl 6-thio-beta-D-glucopyranoside(Non-covalent)

U1Y-BGC.1: 15 residues within 4Å: Chain A: L.58, G.60, G.61, D.99, F.148, K.210, H.211, M.254, Y.257, D.289, W.290, M.320, W.434, W.438, E.495 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.210, A:H.211, A:H.211, A:G.61 Water bridges: A:D.99

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

NAG.2: 4 residues within 4Å: Chain A: D.499, N.500, N.502, T.504 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.499 NAG.3: 3 residues within 4Å: Chain A: E.224, N.225, N.226 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.226 NAG.4: 1 residues within 4Å: Chain A: N.604 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.604

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: R.123, R.570, L.597, G.598 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.123, A:R.570 GOL.6: 3 residues within 4Å: Chain A: A.200, G.201, K.202 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.202 Water bridges: A:N.365 GOL.7: 2 residues within 4Å: Chain A: Y.306, K.309 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.309 GOL.8: 5 residues within 4Å: Chain A: L.137, Q.375, K.378, E.380, H.381 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.375, A:Q.375 Water bridges: A:E.133 GOL.9: 2 residues within 4Å: Chain A: G.443, R.444 No protein-ligand interaction detected (PLIP) GOL.10: 4 residues within 4Å: Chain A: A.468, E.469, N.470, P.471 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.469, A:N.470, A:N.470 GOL.11: 2 residues within 4Å: Chain A: T.28, L.29 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.29 Water bridges: A:A.30 GOL.12: 3 residues within 4Å: Chain A: P.411, K.412, K.413 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.412, A:K.413, A:K.413 GOL.13: 4 residues within 4Å: Chain A: E.387, R.390, K.391, F.565 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.390, A:R.390, A:K.391 GOL.14: 2 residues within 4Å: Chain A: K.10, M.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.10, A:M.86

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

SO4.15: 3 residues within 4Å: Chain A: P.342, M.343, S.344 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.343, A:S.344 SO4.16: 3 residues within 4Å: Chain A: T.298, P.299, A.300 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.300 SO4.17: 3 residues within 4Å: Chain A: G.566, N.604, A.605 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.566, A:A.605

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Streltsov, V.A. et al., Discovery of processive catalysis by an exo-hydrolase with a pocket-shaped active site. Nat Commun (2019)

Release Date

2019-05-29

Peptides

Beta-D-glucan exohydrolase isoenzyme ExoI: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-D-glucan exohydrolase isoenzyme ExoI

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