SMTL ID : 2f7o.1

Golgi alpha-mannosidase II complex with mannostatin A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.43 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 ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.90, D.92, D.204, H.471 Ligands: MSN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.90, A:D.92, A:D.204, A:H.471

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

PO4.3: 4 residues within 4Å: Chain A: Q.567, R.770, R.893, S.924 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.924 Water bridges: A:R.770, A:R.770, A:R.770, A:R.893, A:R.893, A:R.893 Salt bridges: A:R.770, A:R.893

1 x MSN: (1R,2R,3R,4S,5R)-4-AMINO-5-(METHYLTHIO)CYCLOPENTANE-1,2,3-TRIOL(Non-covalent)

MSN.4: 13 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, R.876 Ligands: ZN.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.95, A:Y.269, A:D.341, A:Y.727 Water bridges: A:R.228

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.5: 6 residues within 4Å: Chain A: K.63, Q.64, Y.267, H.273, P.279, R.410 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.63, A:Y.267, A:Y.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kawatkar, S.P. et al., Structural Basis of the Inhibition of Golgi alpha-Mannosidase II by Mannostatin A and the Role of the Thiomethyl Moiety in Ligand-Protein Interactions. J.Am.Chem.Soc. (2006)

Release Date

2006-07-04

Peptides

alpha-mannosidase II: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

alpha-mannosidase II

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