SMTL ID : 3dx1.1

Golgi alpha-Mannosidase II in complex with Mannostatin analog (1S,2S,3R,4R)-4-aminocyclopentane-1,2,3-triol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.21 Å

Oligo State

monomer

Ligands

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

NAG.1: 1 residues within 4Å: Chain A: N.194 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 2 residues within 4Å: Chain A: R.893, S.924 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.924 Water bridges: A:Q.567, A:R.770, A:R.770, A:R.893, A:R.893, A:R.893, A:R.893 Salt bridges: A:R.893

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: H.90, D.92, D.204, H.471 Ligands: YHO.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.90, A:D.92, A:D.204, A:H.471

1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.4: 5 residues within 4Å: Chain A: K.63, Q.64, Y.267, H.273, P.279 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.63, A:K.63, A:Y.267 Water bridges: A:K.63, A:Q.64

1 x YHO: (1S,2S,3R,4R)-4-aminocyclopentane-1,2,3-triol(Non-covalent)

YHO.5: 12 residues within 4Å: Chain A: H.90, D.92, W.95, D.204, F.206, R.228, Y.269, D.341, H.471, D.472, Y.727 Ligands: ZN.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.95, A:R.228, A:Y.269, A:D.341, A:Y.727

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuntz, D.A. et al., The molecular basis of inhibition of Golgi alpha-mannosidase II by mannostatin A. Chembiochem (2009)

Release Date

2009-07-07

Peptides

Alpha-mannosidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-mannosidase 2

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