SMTL ID : 3wlh.1

Crystal Structure Analysis of Plant Exohydrolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 5 residues within 4Å: Chain A: E.220, N.221, N.222, S.255, T.294 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- NAG- FUL: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-FUL.2: 10 residues within 4Å: Chain A: Y.425, T.438, H.487, K.493, D.495, N.496, N.498, T.500, P.502, E.503 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.438, A:P.502 Hydrogen bonds: A:Y.425, A:E.503 Water bridges: A:Y.425

1 x NAG- NAG- BMA- XYP- FUL: beta-D-xylopyranose-(1-2)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-XYP-FUL.3: 7 residues within 4Å: Chain A: T.118, R.119, D.120, R.566, T.598, T.599, N.600 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.118, A:R.566, A:R.566 Water bridges: A:D.120

2 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.4: 14 residues within 4Å: Chain A: G.56, D.95, F.144, R.158, K.206, H.207, M.250, Y.253, D.285, W.286, M.316, W.430, E.491 Ligands: BGC.5 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.158, A:R.158, A:E.491 Water bridges: A:G.57, A:G.57, A:D.95, A:E.491 BGC.5: 7 residues within 4Å: Chain A: G.56, G.57, W.286, W.430, W.434, E.491 Ligands: BGC.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.57 Water bridges: A:R.291, A:R.291, A:E.491, A:E.491, A:E.491, A:E.491

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: E.383, R.386, K.387, F.561 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.386, A:K.387, A:K.387 GOL.7: 4 residues within 4Å: Chain A: R.119, R.566, L.593, G.594 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.119, A:R.566, A:G.594 GOL.8: 4 residues within 4Å: Chain A: G.21, R.22, M.23, T.24 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.23

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

SO4.9: 3 residues within 4Å: Chain A: P.338, M.339, S.340 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.339, A:S.340 Water bridges: A:S.340, A:S.340

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

2015-03-25

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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