SMTL ID : 1x39.1

Crystal structure of barley beta-D-glucan glucohydrolase isoenzyme exo1 in complex with gluco-phenylimidazole

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 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- XYP- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[beta-D-xylopyranose-(1-2)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-XYP-FUC.2: 9 residues within 4Å: Chain A: Y.425, T.438, H.487, K.493, D.495, N.496, N.498, P.502, E.503 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.438, A:P.502 Hydrogen bonds: A:Y.425, A:E.503, A:K.493, A:K.493 Water bridges: A:Y.425

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

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

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

SO4.4: 3 residues within 4Å: Chain A: P.338, M.339, S.340 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.339, A:S.340 SO4.5: 5 residues within 4Å: Chain A: P.589, L.590, F.591, R.592, Y.595 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.592 Salt bridges: A:R.592

1 x IDE: (5R,6R,7S,8S)-3-(ANILINOMETHYL)-5,6,7,8-TETRAHYDRO-5-(HYDROXYMETHYL)-IMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL(Non-covalent)

IDE.6: 16 residues within 4Å: Chain A: L.54, D.95, F.144, R.158, K.206, H.207, M.250, Y.253, D.285, W.286, E.287, R.291, M.316, W.430, E.491 Ligands: GOL.9 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:D.95, A:R.158, A:R.158, A:K.206, A:H.207, A:E.491 Water bridges: A:G.57, A:K.206, A:N.219, A:D.285, A:E.491

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 5 residues within 4Å: Chain A: F.463, A.464, E.465, N.466, P.467 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.465, A:N.466, A:N.466 GOL.8: 5 residues within 4Å: Chain A: R.119, I.169, R.566, L.593, G.594 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.119, A:R.566 Water bridges: A:D.166 GOL.9: 5 residues within 4Å: Chain A: G.56, G.57, W.286, W.434 Ligands: IDE.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.56 Water bridges: A:G.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hrmova, M. et al., Structural rationale for low-nanomolar binding of transition state mimics to a family GH3 beta-D-glucan glucohydrolase from barley. Biochemistry (2005)

Release Date

2005-12-20

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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