SMTL ID : 6rrj.1

GOLGI ALPHA-MANNOSIDASE II in complex with 5-(Adamantan-1yl-methoxy)-pentyl 2,5-dideoxy-2,5-imino-D-talo-hexonamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x KFE: (2~{S},3~{R},4~{S},5~{R})-~{N}-[5-(1-adamantylmethoxy)pentyl]-5-(hydroxymethyl)-3,4-bis(oxidanyl)pyrrolidine-2-carboxamide(Non-covalent)

KFE.1: 15 residues within 4Å: Chain A: H.78, D.80, W.83, D.192, F.194, R.216, Y.257, D.329, H.459, D.460, T.465, Y.715, E.863, G.865 Ligands: ZN.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:E.863 Hydrogen bonds: A:R.216, A:Y.257, A:D.329, A:T.465, A:T.465

1 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 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.165 Water bridges: A:E.428

1 x ZN: ZINC ION(Non-covalent)

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

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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