SMTL ID : 1eom.1

CRYSTAL STRUCTURE OF THE COMPLEX OF ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3 WITH A BIANTENNARY COMPLEX OCTASACCHARIDE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x NAG- MAN- MAN- NAG- GAL- MAN- NAG- GAL: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-MAN-MAN-NAG-GAL-MAN-NAG-GAL.1: 18 residues within 4Å: Chain A: I.16, D.18, R.20, F.39, G.40, K.42, W.44, M.58, N.85, D.87, D.126, E.128, H.129, Q.211, Y.213, Y.243, E.245, Y.272 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.40, A:K.42, A:N.85, A:H.129, A:K.42 Water bridges: A:G.40, A:N.85, A:D.89, A:D.89

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: G.54, K.63, S.64, Y.65 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.54, A:Y.65 Water bridges: A:G.54, A:K.63, A:K.66 SO4.3: 2 residues within 4Å: Chain A: H.129, S.130 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.130, A:S.130 Salt bridges: A:H.129 SO4.4: 3 residues within 4Å: Chain A: T.159, P.160, K.196 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.135, A:N.135 Salt bridges: A:K.196 SO4.5: 2 residues within 4Å: Chain A: N.216, S.218 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.216, A:S.218, A:S.218 SO4.6: 2 residues within 4Å: Chain A: T.176, N.204 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.176, A:N.204 SO4.7: 2 residues within 4Å: Chain A: K.25, K.63 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.25 Salt bridges: A:K.25, A:K.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Waddling, C.A. et al., Structural basis for the substrate specificity of endo-beta-N-acetylglucosaminidase F(3). Biochemistry (2000)

Release Date

2000-07-27

Peptides

ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3

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