SMTL ID : 7zle.1

Catalytic domain of UDP-Glucose Glycoprotein Glucosyltransferase from Chaetomium thermophilum in complex with UDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

1 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.1: 12 residues within 4Å: Chain A: A.23, S.24, Y.28, Q.93, D.121, L.253, C.254, N.255, K.263 Ligands: CA.3, PDO.4, PDO.5 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.24, A:S.24, A:Y.28, A:N.255 Water bridges: A:K.263, A:K.263, A:K.263, A:R.266 Salt bridges: A:K.263, A:K.263 pi-Stacking: A:Y.28

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

NAG.2: 3 residues within 4Å: Chain A: H.42, T.43, N.44 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.44

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: D.119, D.121, D.252 Ligands: UDP.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.119, A:D.121, A:D.252, H2O.1, H2O.2

2 x PDO: 1,3-PROPANDIOL(Non-covalent)

PDO.4: 7 residues within 4Å: Chain A: W.97, K.100, S.176, N.211, D.213 Ligands: UDP.1, PDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.100, A:K.100, A:N.211 PDO.5: 7 residues within 4Å: Chain A: V.22, I.96, W.97, K.100, D.119 Ligands: UDP.1, PDO.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.22 Water bridges: A:K.100, A:A.120, A:A.120, A:S.176

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

EDO.6: 5 residues within 4Å: Chain A: Y.163, W.164, S.208, L.209, D.215 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.209 Water bridges: A:W.164, A:D.215 EDO.7: 4 residues within 4Å: Chain A: W.82, Q.88, Q.89, E.95 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.89, A:Q.89 Water bridges: A:W.82, A:Y.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caputo, A.T. et al., A quinolin-8-ol sub-millimolar inhibitor of UGGT, the ER glycoprotein quality control checkpoint. To Be Published

Release Date

2022-06-22

Peptides

UDP-glucose-glycoprotein glucosyltransferase-like protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-glucose-glycoprotein glucosyltransferase-like protein

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