SMTL ID : 6q3r.1 (1 other biounit)

ASPERGILLUS ACULEATUS GALACTANASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

monomer

Ligands

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.1: 3 residues within 4Å: Chain A: N.112, E.116, T.120 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.116, A:T.120

1 x GAL- GAL: beta-D-galactopyranose-(1-4)-beta-D-galactopyranose(Non-covalent)

GAL-GAL.2: 14 residues within 4Å: Chain A: W.86, D.88, N.135, E.136, Y.215, Y.218, E.246, W.297, N.304, L.307, G.308 Ligands: PEG.3, PG4.9, EDO.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.304, A:N.304

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 2 residues within 4Å: Chain A: G.308 Ligands: GAL-GAL.2 No protein-ligand interaction detected (PLIP) PEG.4: 5 residues within 4Å: Chain A: S.265, S.266, I.267, P.268, F.269 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.269, A:F.269

4 x CA: CALCIUM ION(Non-covalent)

CA.5: 1 residues within 4Å: Chain A: D.38 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.38, A:D.38, H2O.3, H2O.4, H2O.4 CA.6: 2 residues within 4Å: Chain A: D.17, E.64 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.64, H2O.1 CA.7: 1 residues within 4Å: Chain A: E.329 No protein-ligand interaction detected (PLIP) CA.8: 1 residues within 4Å: Chain A: E.147 No protein-ligand interaction detected (PLIP)

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.9: 11 residues within 4Å: Chain A: D.88, P.89, E.136, D.181, D.182, W.184, S.213, Y.214, Y.215 Ligands: GAL-GAL.2, GAL-GAL.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.182, A:Y.215, A:Y.215

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.10: 3 residues within 4Å: Chain A: K.107, W.108, S.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.107, A:K.107 EDO.11: 1 residues within 4Å: Ligands: GAL-GAL.2 No protein-ligand interaction detected (PLIP) EDO.12: 3 residues within 4Å: Chain A: G.27, Q.28, T.29 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.29, A:T.29, A:T.29 EDO.13: 2 residues within 4Å: Chain A: D.17, G.19 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.17 EDO.14: 2 residues within 4Å: Chain A: E.18, Y.20 No protein-ligand interaction detected (PLIP) EDO.15: 2 residues within 4Å: Chain A: E.194, Y.238 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.194, A:E.194 EDO.16: 2 residues within 4Å: Chain A: W.186, N.233 No protein-ligand interaction detected (PLIP)

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

ACT.17: 3 residues within 4Å: Chain A: D.318, T.321, E.323 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.323 Hydrogen bonds: A:T.321, A:E.323 ACT.18: 3 residues within 4Å: Chain A: Y.20, I.302, G.303 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.20, A:Y.20

1 x PG6: 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE(Non-covalent)

PG6.19: 6 residues within 4Å: Chain A: R.138, Y.151, D.182, D.187, Q.188, Y.191 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.182, A:Q.188

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Torpenholt, S. et al., Structure of Aspergillus aculeatus beta-1,4-galactanase in complex with galactobiose. Acta Crystallogr.,Sect.F (2019)

Release Date

2019-06-12

Peptides

Arabinogalactan endo-beta-1,4-galactanase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Arabinogalactan endo-beta-1,4-galactanase

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