SMTL ID : 1ps3.1

Golgi alpha-mannosidase II in complex with kifunensine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.1: 2 residues within 4Å: Chain A: K.154, N.194 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.194 Hydrogen bonds: A:N.194 Salt bridges: A:K.154

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.90, D.92, D.204, H.471 Ligands: KIF.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.90, A:D.92, A:D.204, A:H.471

1 x KIF: KIFUNENSINE(Non-covalent)

KIF.3: 15 residues within 4Å: Chain A: H.90, D.92, W.95, D.204, F.206, R.228, Y.269, D.341, W.415, H.471, D.472, Y.727, R.876, G.877 Ligands: ZN.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.92, A:R.228, A:Y.269, A:D.341, A:D.472, A:D.472, A:Y.727

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

MRD.4: 6 residues within 4Å: Chain A: K.63, Q.64, Y.267, H.273, P.279, R.410 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.63, A:K.63, A:Y.267 Hydrogen bonds: A:Q.64 Water bridges: A:V.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shah, N. et al., Comparison of Kifunensine and 1-Deoxymannojirimycin Binding to Class I and II alpha-Mannosidases Demonstrates Different Saccharide Distortions in Inverting and Retaining Catalytic Mechanisms. Biochemistry (2003)

Release Date

2003-12-16

Peptides

Alpha-mannosidase II: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-mannosidase II