SMTL ID : 5m7u.1

Structure of human O-GlcNAc hydrolase with new iminocyclitol type inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x XHA: 2-[(2~{R},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)-1-[3-[3-(trifluoromethyl)phenyl]propyl]pyrrolidin-2-yl]-~{N}-methyl-ethanamide(Non-covalent)

XHA.1: 16 residues within 4Å: Chain A: G.67, F.68, Y.69, K.98, D.174, D.175, Y.219, T.250, V.254, W.278, N.280, D.285, Y.286, N.313 Chain B: W.645, K.648 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.67, A:K.98, A:K.98, A:D.174, A:D.174, A:N.280, A:N.313 Salt bridges: A:D.175, A:D.285 Hydrophobic interactions: B:W.645, B:W.645 XHA.2: 18 residues within 4Å: Chain A: W.645, S.649, W.679 Chain B: G.67, F.68, Y.69, K.98, D.174, D.175, Y.219, T.250, V.254, W.278, N.280, A.283, D.285, Y.286, N.313 14 PLIP interactions: 4 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:W.645, A:W.645, A:W.679, B:V.254 pi-Stacking: A:W.679 Hydrogen bonds: B:K.98, B:K.98, B:D.174, B:Y.219, B:N.280, B:D.285, B:N.313 Salt bridges: B:D.175, B:D.285

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roth, C. et al., Structural and functional insight into human O-GlcNAcase. Nat. Chem. Biol. (2017)

Release Date

2017-03-29

Peptides

Protein O-GlcNAcase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein O-GlcNAcase

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