SMTL ID : 3lop.1

Crystal structure of substrate-binding periplasmic protein (Pbp) from Ralstonia solanacearum

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x LEU: LEUCINE(Non-covalent)

LEU.1: 12 residues within 4Å: Chain A: Q.18, V.81, G.82, T.83, A.106, T.107, Y.125, L.153, T.205, S.230, R.285 Ligands: MG.9 9 PLIP interactions: 8 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.125, A:L.153, A:L.153 Hydrogen bonds: A:Q.18, A:G.82, A:A.106, L.1 Water bridges: A:R.285 Salt bridges: A:R.285

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

EDO.2: 7 residues within 4Å: Chain A: R.30, F.33, D.34, N.37, I.47, R.48, L.49 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.30, A:L.49 Water bridges: A:N.37, A:I.47 EDO.3: 2 residues within 4Å: Chain A: G.44, T.46 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.46 EDO.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EDO.5: 6 residues within 4Å: Chain A: P.255, N.262, G.326, G.327, F.328, Y.342 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.262 Water bridges: A:F.328 EDO.6: 3 residues within 4Å: Chain A: R.48, L.49, V.50 No protein-ligand interaction detected (PLIP)

2 x NI: NICKEL (II) ION(Non-covalent)

NI.7: 2 residues within 4Å: Chain A: H.314, E.318 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.318, A:E.318, H2O.11, H2O.12, H2O.17 NI.8: 2 residues within 4Å: Chain A: G.327, H.341 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 7 residues within 4Å: Chain A: A.106, T.107, K.122, Y.125, S.230, R.285 Ligands: LEU.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:A.106, A:Y.125

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

MN.10: 1 residues within 4Å: Chain A: W.35 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Palani, K. et al., Crystal structure of substrate-binding periplasmic protein (Pbp) from Ralstonia solanacearum. To be Published

Release Date

2010-02-23

Peptides

Substrate binding periplasmic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Substrate binding periplasmic protein