SMTL ID : 7zuh.1

PENICILLIN-BINDING PROTEIN 1B (PBP-1B) Streptococcus pneumoniae R6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.47 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: G.543, E.545 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:G.543, H2O.5, H2O.10, H2O.16, H2O.21, H2O.21

25 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 7 residues within 4Å: Chain A: S.460, S.516, K.651, T.652, G.653, T.654, T.655 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: V.533, V.535, K.536 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: R.456, S.457, N.660, N.681 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: I.772, G.773 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: F.452, K.583, H.584 Ligands: CL.14 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: V.724, K.725 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain A: N.759, K.760, S.761 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain A: Y.110, S.111, D.112, I.394, D.395, Q.396 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: S.726, E.727, K.735 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain A: A.591, A.592, D.593, R.595 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain A: R.529 Ligand excluded by PLIP CL.13: 5 residues within 4Å: Chain A: Y.544, E.545, E.561, V.562, Q.566 Ligand excluded by PLIP CL.14: 5 residues within 4Å: Chain A: E.346, H.584, V.585, I.586 Ligands: CL.6 Ligand excluded by PLIP CL.15: 5 residues within 4Å: Chain A: D.337, Y.338, L.339, H.399, Q.403 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain A: S.609, K.610 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain A: T.631, S.634 Ligand excluded by PLIP CL.18: 6 residues within 4Å: Chain A: A.459, S.460, G.653, T.654, T.655, G.656 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain A: E.511, N.514, Y.515 Ligand excluded by PLIP CL.20: 3 residues within 4Å: Chain A: S.775, D.776, A.777 Ligand excluded by PLIP CL.21: 1 residues within 4Å: Chain A: R.358 Ligand excluded by PLIP CL.22: 4 residues within 4Å: Chain A: Y.338, F.341, T.342, N.449 Ligand excluded by PLIP CL.23: 3 residues within 4Å: Chain A: H.678, D.679, D.680 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain A: F.452, T.563, A.565, K.583 Ligand excluded by PLIP CL.25: 2 residues within 4Å: Chain A: T.488, N.489 Ligand excluded by PLIP CL.26: 2 residues within 4Å: Chain A: E.715, R.716 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Flanders, P.L. et al., Combined Structural Analysis and Molecular Dynamics Reveal Penicillin-Binding Protein Inhibition Mode with beta-Lactones. Acs Chem.Biol. (2022)

Release Date

2022-11-02

Peptides

Penicillin-binding protein 1b: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Penicillin-binding protein 1b

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