SMTL ID : 6rrx.1

GOLGI ALPHA-MANNOSIDASE II in complex with (2S,3R)-2-(Hydroxymethyl)-3-piperidinol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.78, D.80, D.192, H.459, D.460 Ligands: KFW.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.78, A:D.80, A:D.192, A:H.459

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

EDO.2: 7 residues within 4Å: Chain A: R.164, N.165, L.168, M.421, V.424, R.425, V.949 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.165 Water bridges: A:R.164, A:R.951 EDO.4: 7 residues within 4Å: Chain A: S.517, L.556, D.558, R.605, I.607, E.741, R.758 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.517, A:S.517, A:D.558, A:R.605, A:E.741

1 x KFW: (2~{S},3~{R})-2-(hydroxymethyl)piperidin-3-ol(Non-covalent)

KFW.3: 9 residues within 4Å: Chain A: D.80, W.83, D.192, F.194, R.216, H.459, D.460, Y.715 Ligands: ZN.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.194, A:Y.715 Hydrogen bonds: A:Y.257, A:Y.257, A:D.460

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Armstrong, Z. et al., Manno- epi -cyclophellitols Enable Activity-Based Protein Profiling of Human alpha-Mannosidases and Discovery of New Golgi Mannosidase II Inhibitors. J.Am.Chem.Soc. (2020)

Release Date

2020-07-08

Peptides

Alpha-mannosidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-mannosidase 2

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