SMTL ID : 4cuc.1

Unravelling the multiple functions of the architecturally intricate Streptococcus pneumoniae beta-galactosidase, BgaA.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x NAG- GAL: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-GAL.1: 11 residues within 4Å: Chain A: R.152, E.428, D.463, R.466, Y.488, Q.509, W.549, W.572, E.580, T.582, F.597 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.152, A:E.428, A:Q.509, A:Q.509, A:T.582, A:R.466 Water bridges: A:R.152, A:Y.577, A:E.580, A:R.466 Salt bridges: A:R.466 NAG-GAL.13: 11 residues within 4Å: Chain B: R.152, E.428, D.463, R.466, Y.488, Q.509, W.549, W.572, E.580, T.582, F.597 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.152, B:E.428, B:Y.488, B:Q.509, B:Q.509, B:T.582, B:T.582, B:D.463, B:R.466 Water bridges: B:R.152, B:E.580, B:E.580, B:R.466 Salt bridges: B:R.466

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

SO4.2: 7 residues within 4Å: Chain A: K.15, Q.166, E.174, K.175, N.176, K.282, D.284 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Q.166, A:Q.166, A:N.176, A:D.284 Water bridges: A:R.14, A:K.175 Salt bridges: A:K.15, A:K.175, A:K.282 SO4.3: 3 residues within 4Å: Chain A: K.673, W.699, K.700 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.700, A:K.700 Salt bridges: A:K.673 SO4.4: 3 residues within 4Å: Chain A: K.528, R.546, G.548 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.546, A:R.546, A:G.548 Salt bridges: A:K.528, A:R.546 SO4.5: 3 residues within 4Å: Chain A: L.46, D.47, Q.781 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.47, A:D.47, A:Q.781 SO4.6: 4 residues within 4Å: Chain A: K.738, Q.839, V.840, T.841 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.839, A:T.841 Water bridges: A:K.738, A:K.738 Salt bridges: A:K.738 SO4.7: 4 residues within 4Å: Chain A: F.18, Q.20, N.21, K.80 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.20, A:N.21 Water bridges: A:K.80 Salt bridges: A:K.80 SO4.14: 7 residues within 4Å: Chain B: K.15, Q.166, E.174, K.175, N.176, K.282, D.284 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:Q.166, B:Q.166, B:N.176, B:D.284 Water bridges: B:R.14, B:K.175, B:T.178 Salt bridges: B:K.15, B:K.175, B:K.282 SO4.15: 3 residues within 4Å: Chain B: K.673, W.699, K.700 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.700, B:K.700 Salt bridges: B:K.673 SO4.16: 3 residues within 4Å: Chain B: K.528, R.546, G.548 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.546, B:R.546, B:G.548 Salt bridges: B:K.528, B:R.546 SO4.17: 3 residues within 4Å: Chain B: L.46, D.47, Q.781 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.47, B:D.47, B:Q.781 SO4.18: 4 residues within 4Å: Chain B: K.738, Q.839, V.840, T.841 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.839, B:T.841 Water bridges: B:K.738, B:K.738, B:T.841 Salt bridges: B:K.738 SO4.19: 4 residues within 4Å: Chain B: F.18, Q.20, N.21, K.80 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.20, B:N.21 Water bridges: B:K.80 Salt bridges: B:K.80

10 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.8: 4 residues within 4Å: Chain A: K.454, T.455, R.456, Y.457 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.457 Hydrogen bonds: A:K.454 MPD.9: 4 residues within 4Å: Chain A: G.729, K.730, D.759, S.760 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:D.759 MPD.10: 9 residues within 4Å: Chain A: P.523, R.525, E.526, Y.542, G.543, N.544, T.552, R.653, Y.696 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:N.544, A:T.552 Hydrogen bonds: A:P.523, A:R.653, A:R.653 Water bridges: A:T.554 MPD.11: 4 residues within 4Å: Chain A: N.586, Q.587, N.588, Q.589 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.589 Hydrogen bonds: A:N.588, A:N.588 MPD.12: 1 residues within 4Å: Chain A: K.637 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.637 MPD.20: 4 residues within 4Å: Chain B: K.454, T.455, R.456, Y.457 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.457 Hydrogen bonds: B:K.454 MPD.21: 4 residues within 4Å: Chain B: G.729, K.730, D.759, S.760 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:D.759 MPD.22: 9 residues within 4Å: Chain B: P.523, R.525, E.526, Y.542, G.543, N.544, T.552, R.653, Y.696 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:N.544, B:T.552 Hydrogen bonds: B:P.523, B:R.653, B:R.653 Water bridges: B:T.554 MPD.23: 4 residues within 4Å: Chain B: N.586, Q.587, N.588, Q.589 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Q.589 Hydrogen bonds: B:N.588, B:N.588 MPD.24: 1 residues within 4Å: Chain B: K.637 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.637

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, A.K. et al., Unravelling the Multiple Functions of the Architecturally Intricate Streptococcus Pneumoniae Beta-Galactosidase, BgaA. Plos Pathog. (2014)

Release Date

2014-08-20

Peptides

BETA-GALACTOSIDASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

BETA-GALACTOSIDASE