SMTL ID : 6ojb.1

Crystal Structure of Aspergillus fumigatus Ega3 complex with galactosamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

monomer

Ligands

8 x NAG: N-ACETYL-D-GLUCOSAMINE(Post Translational Modification)(Non-covalent)(Non-functional Binders)

NAG.1: 4 residues within 4Å: Chain A: Y.65, N.68, N.289 Ligands: NAG.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.289 Water bridges: A:Y.65 NAG.2: 6 residues within 4Å: Chain A: L.64, Y.65 Ligands: NAG.1, BMA.3, MAN.6, MAN.7 No protein-ligand interaction detected (PLIP) NAG.9: 4 residues within 4Å: Chain A: N.45, N.188, S.212 Ligands: NAG.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.188, A:S.212 Water bridges: A:N.45, A:N.45 NAG.10: 5 residues within 4Å: Chain A: I.184, P.211, S.212 Ligands: NAG.9, BMA.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.212, A:S.212, A:S.212 NAG.16: 5 residues within 4Å: Chain A: N.137, S.139, S.140, L.176 Ligands: NAG.17 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.137 NAG.17: 1 residues within 4Å: Ligands: NAG.16 No protein-ligand interaction detected (PLIP) NAG.18: 3 residues within 4Å: Chain A: K.50, W.51, N.198 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.198 NAG.19: 4 residues within 4Å: Chain A: P.238, G.274, A.276, N.277 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.276 Hydrogen bonds: A:N.277

2 x BMA: BETA-D-MANNOSE(Non-functional Binders)(Non-covalent)

BMA.3: 3 residues within 4Å: Ligands: NAG.2, MAN.4, MAN.6 No protein-ligand interaction detected (PLIP) BMA.11: 3 residues within 4Å: Chain A: P.211 Ligands: NAG.10, MAN.12 No protein-ligand interaction detected (PLIP)

9 x MAN: ALPHA-D-MANNOSE(Non-functional Binders)(Non-covalent)

MAN.4: 3 residues within 4Å: Ligands: BMA.3, MAN.5, MAN.8 No protein-ligand interaction detected (PLIP) MAN.5: 2 residues within 4Å: Ligands: MAN.4, MAN.8 No protein-ligand interaction detected (PLIP) MAN.6: 3 residues within 4Å: Ligands: NAG.2, BMA.3, MAN.7 No protein-ligand interaction detected (PLIP) MAN.7: 5 residues within 4Å: Chain A: L.64, N.256, N.286 Ligands: NAG.2, MAN.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.256, A:N.286 MAN.8: 2 residues within 4Å: Ligands: MAN.4, MAN.5 No protein-ligand interaction detected (PLIP) MAN.12: 4 residues within 4Å: Chain A: P.211 Ligands: BMA.11, MAN.13, MAN.14 No protein-ligand interaction detected (PLIP) MAN.13: 5 residues within 4Å: Chain A: I.210, P.211, T.233, V.236 Ligands: MAN.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.233 MAN.14: 2 residues within 4Å: Ligands: MAN.12, MAN.15 No protein-ligand interaction detected (PLIP) MAN.15: 1 residues within 4Å: Ligands: MAN.14 No protein-ligand interaction detected (PLIP)

1 x X6X: 2-amino-2-deoxy-alpha-D-galactopyranose(Non-covalent)

X6X.20: 11 residues within 4Å: Chain A: L.63, L.64, Y.102, E.109, W.111, R.112, W.130, E.133, D.165, N.286, L.287 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.112, A:E.133, A:D.165, A:D.165, A:N.286 Water bridges: A:L.63, A:L.63, A:R.112, A:W.130, A:N.166

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Bamford, N.C. et al., Ega3 from the fungal pathogenAspergillus fumigatusis an endo-alpha-1,4-galactosaminidase that disrupts microbial biofilms. J.Biol.Chem. (2019)

Release Date

2019-08-14

Peptides

Endo alpha-1,4 polygalactosaminidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endo alpha-1,4 polygalactosaminidase