SMTL ID : 4cu8.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x DGJ: (2R,3S,4R,5S)-2-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL(Non-covalent)

DGJ.1: 12 residues within 4Å: Chain A: R.152, H.348, N.427, E.428, Y.488, E.509, S.512, W.549, W.572, E.580, F.597 Ligands: EDO.37 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.152, A:R.152, A:H.348, A:N.427, A:E.428, A:S.512, A:E.580 Water bridges: A:K.378

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

EDO.2: 8 residues within 4Å: Chain A: I.180, F.286, G.287, R.289, K.415, N.416, N.417, P.418 Ligand excluded by PLIP EDO.3: 3 residues within 4Å: Chain A: Y.290, Y.291, T.455 Ligand excluded by PLIP EDO.4: 4 residues within 4Å: Chain A: W.557, Q.616, Y.686, Q.687 Ligand excluded by PLIP EDO.5: 7 residues within 4Å: Chain A: Y.101, M.102, N.118, G.119, D.382, Y.383 Ligands: EDO.23 Ligand excluded by PLIP EDO.6: 8 residues within 4Å: Chain A: A.432, M.460, A.462, F.465, H.474, I.477, A.478, L.481 Ligand excluded by PLIP EDO.7: 7 residues within 4Å: Chain A: N.531, G.532, P.533, Y.537, W.584, Q.587, T.590 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: K.454, T.455, R.456, Y.457, D.482 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain A: N.260, D.261, K.262 Ligand excluded by PLIP EDO.10: 2 residues within 4Å: Chain A: K.15, K.283 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain A: E.353, L.356, R.413, N.417 Ligand excluded by PLIP EDO.12: 2 residues within 4Å: Chain A: N.29, S.30 Ligand excluded by PLIP EDO.13: 5 residues within 4Å: Chain A: G.376, G.377, K.378, K.379, P.380 Ligand excluded by PLIP EDO.14: 7 residues within 4Å: Chain A: R.517, G.518, D.541, P.606, K.607, H.608, Y.611 Ligand excluded by PLIP EDO.15: 2 residues within 4Å: Chain A: Y.23, K.45 Ligand excluded by PLIP EDO.16: 4 residues within 4Å: Chain A: E.174, K.175, E.395, R.408 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: H.196, V.197, T.198, D.245, A.246 Ligand excluded by PLIP EDO.18: 3 residues within 4Å: Chain A: S.241, T.242, S.243 Ligand excluded by PLIP EDO.19: 4 residues within 4Å: Chain A: Q.335, E.338, P.606, F.610 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain A: Y.326, E.353, Q.354, Q.357 Ligand excluded by PLIP EDO.21: 3 residues within 4Å: Chain A: L.665, N.666, Q.704 Ligand excluded by PLIP EDO.22: 2 residues within 4Å: Chain A: N.636, E.638 Ligand excluded by PLIP EDO.23: 10 residues within 4Å: Chain A: N.118, G.119, Y.120, H.348, N.349, P.350, A.370, F.371, D.372 Ligands: EDO.5 Ligand excluded by PLIP EDO.24: 2 residues within 4Å: Chain A: K.450, K.454 Ligand excluded by PLIP EDO.25: 4 residues within 4Å: Chain A: L.259, I.306, H.309, N.342 Ligand excluded by PLIP EDO.26: 2 residues within 4Å: Chain A: R.525, S.530 Ligand excluded by PLIP EDO.27: 2 residues within 4Å: Chain A: G.671, L.672 Ligand excluded by PLIP EDO.28: 2 residues within 4Å: Chain A: K.836, S.837 Ligand excluded by PLIP EDO.29: 2 residues within 4Å: Chain A: K.668, S.669 Ligand excluded by PLIP EDO.30: 2 residues within 4Å: Chain A: G.430, N.433 Ligand excluded by PLIP EDO.31: 2 residues within 4Å: Chain A: G.472, G.473 Ligand excluded by PLIP EDO.32: 3 residues within 4Å: Chain A: K.677, K.678, Q.679 Ligand excluded by PLIP EDO.33: 2 residues within 4Å: Chain A: L.26, N.72 Ligand excluded by PLIP EDO.34: 2 residues within 4Å: Chain A: V.16, D.17 Ligand excluded by PLIP EDO.35: 1 residues within 4Å: Chain A: S.641 Ligand excluded by PLIP EDO.36: 1 residues within 4Å: Chain A: R.722 Ligand excluded by PLIP EDO.37: 6 residues within 4Å: Chain A: E.428, D.463, R.466, Y.488, W.549 Ligands: DGJ.1 Ligand excluded by PLIP EDO.38: 2 residues within 4Å: Chain A: G.729, K.730 Ligand excluded by PLIP EDO.39: 2 residues within 4Å: Chain A: H.777, G.778 Ligand excluded by PLIP EDO.40: 3 residues within 4Å: Chain A: R.466, G.548, W.549 Ligand excluded by PLIP EDO.41: 2 residues within 4Å: Chain A: N.586, N.588 Ligand excluded by PLIP EDO.42: 3 residues within 4Å: Chain A: I.605, E.756, K.812 Ligand excluded by PLIP EDO.43: 2 residues within 4Å: Chain A: K.207, H.209 Ligand excluded by PLIP EDO.44: 2 residues within 4Å: Chain A: D.714, E.715 Ligand excluded by PLIP EDO.45: 1 residues within 4Å: Chain A: R.713 Ligand excluded by PLIP EDO.46: 3 residues within 4Å: Chain A: Q.65, K.379, N.586 Ligand excluded by PLIP EDO.47: 3 residues within 4Å: Chain A: K.673, W.699, K.700 Ligand excluded by PLIP EDO.48: 2 residues within 4Å: Chain A: K.389, D.390 Ligand excluded by PLIP EDO.49: 2 residues within 4Å: Chain A: R.397, K.398 Ligand excluded by PLIP EDO.50: 5 residues within 4Å: Chain A: A.791, S.792, R.793, E.794, K.807 Ligand excluded by PLIP EDO.51: 2 residues within 4Å: Chain A: R.795, A.800 Ligand excluded by PLIP

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

SO4.52: 6 residues within 4Å: Chain A: K.15, Q.166, E.174, K.175, N.176, K.282 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Q.166, A:E.174, A:N.176 Water bridges: A:R.14, A:R.14, A:K.282 Salt bridges: A:K.15, A:K.175, A:K.282 SO4.53: 3 residues within 4Å: Chain A: K.528, R.546, G.548 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.528, A:R.546 SO4.54: 4 residues within 4Å: Chain A: F.18, Q.20, N.21, K.80 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.21 Water bridges: A:K.80 Salt bridges: A:K.80 SO4.55: 4 residues within 4Å: Chain A: K.738, Q.839, V.840, T.841 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.841 Salt bridges: A:K.738 SO4.56: 3 residues within 4Å: Chain A: L.46, D.47, Q.781 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.47, A:Q.781 Water bridges: A:K.44, A:K.44 Salt bridges: A:K.44

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

GLYCOSIDE HYDROLASE 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GLYCOSIDE HYDROLASE 2

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