SMTL ID : 3cv5.1

GOLGI MANNOSIDASE II D204A catalytic nucleophile mutant complex with 3alpha,6alpha-mannopentaose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose(Post Translational Modification)

BMA-MAN-MAN-MAN-MAN.1: 22 residues within 4Å: Chain A: H.90, D.92, W.95, A.204, F.206, R.228, Y.269, R.289, L.295, D.340, D.341, R.343, W.415, H.471, D.472, Y.727, D.873, E.875, R.876, G.877, G.879 Ligands: ZN.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.877, A:D.873, A:E.875, A:G.879 Water bridges: A:G.879, A:D.873, A:E.875

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

NAG.2: 1 residues within 4Å: Chain A: N.194 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.154

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 6 residues within 4Å: Chain A: H.90, D.92, A.204, H.471, D.472 Ligands: BMA-MAN-MAN-MAN-MAN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.90, A:D.92, A:D.92, A:H.471

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

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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shah, N. et al., Golgi alpha-mannosidase II cleaves two sugars sequentially in the same catalytic site. Proc.Natl.Acad.Sci.Usa (2008)

Release Date

2008-06-24

Peptides

Alpha-mannosidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-mannosidase 2

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