SMTL ID : 7t8v.2 (1 other biounit)

Co-crystal structure of Chaetomium glucosidase I with EB-0159

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x W9Y: (1S,2S,3R,4S,5S)-1-(hydroxymethyl)-5-[(6-{[2-nitro-4-(1H-1,2,3-triazol-1-yl)phenyl]amino}hexyl)amino]cyclohexane-1,2,3,4-tetrol(Non-covalent)

W9Y.1: 18 residues within 4Å: Chain A: P.414, F.418, F.419, R.421, F.423, W.425, D.426, K.472, P.474, F.477, G.586, D.588, Y.727, W.728, W.733, E.785, F.800, W.803 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.419 Hydrogen bonds: A:F.418, A:D.426, A:G.586 Water bridges: A:R.461

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.2: 5 residues within 4Å: Chain A: L.235, T.236, Y.237, Q.251, Q.252 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.236, A:T.236

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

SO4.3: 5 residues within 4Å: Chain A: G.369, H.370, G.466, A.467, R.470 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.370, A:G.466, A:A.467 Salt bridges: A:H.370, A:R.470 SO4.4: 7 residues within 4Å: Chain A: S.181, E.182, N.183, G.186, Y.187, E.188, G.189 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.182, A:N.183, A:N.183, A:E.188, A:G.189, A:D.190 SO4.5: 3 residues within 4Å: Chain A: W.706, R.764, N.768 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.706, A:N.768 Salt bridges: A:R.764 SO4.6: 2 residues within 4Å: Chain A: A.393, R.396 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.396 SO4.7: 4 residues within 4Å: Chain A: T.578, V.579, S.580, H.581 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.578, A:V.579, A:S.580 Salt bridges: A:H.581

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 1 residues within 4Å: Chain A: R.336 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.336 GOL.9: 8 residues within 4Å: Chain A: R.375, Y.407, L.452, D.454, W.458, I.459, A.460, Q.463 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.375, A:L.452, A:D.454, A:A.460, A:Q.463, A:Q.463 GOL.10: 3 residues within 4Å: Chain A: T.315, S.316, K.317 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.315, A:T.315, A:S.316, A:K.317

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karade, S.S. et al., Identification of Endoplasmic Reticulum alpha-Glucosidase I from a Thermophilic Fungus as a Platform for Structure-Guided Antiviral Drug Design. Biochemistry (2022)

Release Date

2022-05-04

Peptides

Chaetomium alpha glucosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Chaetomium alpha glucosidase

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