SMTL ID : 2i74.2 (1 other biounit)

Crystal structure of mouse Peptide N-Glycanase C-terminal domain in complex with mannopentaose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose

MAN-MAN-MAN-MAN.1: 12 residues within 4Å: Chain A: K.57, E.59, D.61, W.62, M.64, Y.66, V.152, W.154, Q.155, H.156, Q.158, R.161 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.59, A:Q.155, A:H.156, A:Q.158, A:R.161, A:R.161

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 4 residues within 4Å: Chain A: N.120, L.121, L.122, Y.130 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.122 Hydrogen bonds: A:Y.130 Water bridges: A:L.122 ACT.3: 1 residues within 4Å: Chain A: E.71 No protein-ligand interaction detected (PLIP) ACT.4: 3 residues within 4Å: Chain A: N.120, L.121, L.122 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.122

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: R.109, E.144, S.146 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.109, A:S.146, A:S.146 Water bridges: A:E.144, A:R.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, X. et al., Structural and biochemical studies of the C-terminal domain of mouse peptide-N-glycanase identify it as a mannose-binding module. Proc.Natl.Acad.Sci.Usa (2006)

Release Date

2006-10-24

Peptides

PNGase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

PNGase

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