SMTL ID : 5a55.1

The native structure of GH101 from Streptococcus pneumoniae TIGR4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.264, N.266, D.268, N.270, D.275 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.264, A:D.268, A:N.270, A:D.275, H2O.19 CA.3: 5 residues within 4Å: Chain A: D.920, E.922, E.968, W.971, D.1098 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.920, A:E.922, A:E.968, A:W.971, H2O.56 CA.4: 4 residues within 4Å: Chain A: G.750, N.777, D.778, D.894 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.750, A:D.778, A:D.894, H2O.47, H2O.48 CA.7: 3 residues within 4Å: Chain A: S.1, H.2, M.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.2, H2O.1, H2O.1

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 3 residues within 4Å: Chain A: E.390, D.415, H.945 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.390, A:D.415, A:H.945, H2O.25, H2O.29, H2O.29

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

EDO.5: 5 residues within 4Å: Chain A: S.814, N.815, G.887, D.888, E.889 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.815, A:N.815, A:D.888, A:E.889 EDO.6: 4 residues within 4Å: Chain A: W.497, Y.503, W.554, Q.555 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.555 Water bridges: A:E.483

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gregg, K.J. et al., Structural Analysis of a Family 101 Glycoside Hydrolase in Complex with Carbohydrates Reveals Insights Into its Mechanism. J.Biol.Chem. (2015)

Release Date

2015-09-02

Peptides

ENDO-ALPHA-N-ACETYLGALACTOSAMINIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ENDO-ALPHA-N-ACETYLGALACTOSAMINIDASE