SMTL ID : 1dl2.1

CRYSTAL STRUCTURE OF CLASS I ALPHA-1,2-MANNOSIDASE FROM SACCHAROMYCES CEREVISIAE AT 1.54 ANGSTROM RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

1 x NAG- NDG- 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-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NDG-BMA-MAN-MAN-MAN-MAN.1: 4 residues within 4Å: Chain A: L.60, N.63, L.118, E.477 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.60 Hydrogen bonds: A:N.63, A:E.477

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.2: 8 residues within 4Å: Chain A: D.135, A.138, L.139, L.142, N.191, T.193, Y.194, L.197 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.142, A:L.197

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

NAG.3: 3 residues within 4Å: Chain A: N.84, N.122, T.124 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.84, A:N.84, A:N.122

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 3 residues within 4Å: Chain A: E.246, T.487 Ligands: GOL.5 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.487, A:T.487, H2O.2, H2O.5, H2O.8

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: I.102, L.305, R.395, P.396, E.397, F.461, E.465, E.488 Ligands: CA.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.395, A:E.397, A:E.397, A:E.488 Water bridges: A:R.103, A:T.487

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vallee, F. et al., Crystal structure of a class I alpha1,2-mannosidase involved in N-glycan processing and endoplasmic reticulum quality control. EMBO J. (2000)

Release Date

2000-02-18

Peptides

CLASS I ALPHA-1,2-MANNOSIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CLASS I ALPHA-1,2-MANNOSIDASE