SMTL ID : 2ya1.1

Product complex of a multi-modular glycogen-degrading pneumococcal virulence factor SpuA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

monomer

Ligands

1 x BGC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose

BGC-GLC-GLC-GLC.1: 18 residues within 4Å: Chain A: W.27, W.29, W.39, L.73, N.81, D.85, Y.538, D.539, N.585, H.586, F.614, D.649, M.650, K.840, D.860, Y.862 Ligands: GLC-GLC-GLC-GLC.2, GLC-GLC-GLC-GLC.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.539, A:N.585, A:D.649, A:D.766, A:N.81, A:F.614, A:G.615 Water bridges: A:E.678, A:E.678, A:D.766, A:D.766, A:D.766, A:W.27, A:D.85, A:D.85 Salt bridges: A:H.586

1 x GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC-GLC.2: 14 residues within 4Å: Chain A: F.614, M.650, W.680, D.710, R.713, Y.720, P.721, N.767, K.840, D.860 Ligands: BGC-GLC-GLC-GLC.1, BGC-GLC-GLC-GLC.1, BGC-GLC-GLC-GLC.1, NA.6 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.840, A:D.860 Water bridges: A:D.766, A:N.767, A:K.840, A:K.840, A:K.840, A:H.859

1 x GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC.3: 6 residues within 4Å: Chain A: W.134, W.136, W.147, L.177, K.189, N.194 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.196

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

SO4.4: 6 residues within 4Å: Chain A: K.352, G.383, I.384, T.385, D.386, Y.390 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.385, A:D.386, A:Y.390 Water bridges: A:T.385 Salt bridges: A:K.352

5 x NA: SODIUM ION(Non-functional Binders)

NA.5: 5 residues within 4Å: Chain A: A.763, T.769, L.770, H.812, Q.815 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.770, A:H.812 Water bridges: A:T.769, A:F.771 NA.6: 3 residues within 4Å: Chain A: R.681, N.749 Ligands: GLC-GLC-GLC-GLC.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.681, A:N.749 NA.7: 1 residues within 4Å: Chain A: R.523 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.523 NA.8: 2 residues within 4Å: Chain A: K.454, R.906 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.454, A:R.906 NA.9: 1 residues within 4Å: Chain A: D.224 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.218, A:D.224 Water bridges: A:T.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lammerts Van Bueren, A. et al., The Conformation and Function of a Multimodular Glycogen-Degrading Pneumococcal Virulence Factor. Structure (2011)

Release Date

2011-04-20

Peptides

PUTATIVE ALKALINE AMYLOPULLULANASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PUTATIVE ALKALINE AMYLOPULLULANASE