SMTL ID : 2bml.1

Ofloxacin-like antibiotics inhibit pneumococcal cell wall degrading virulence factors

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.1: 4 residues within 4Å: Chain A: W.28, W.36, Y.57, E.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.28, A:Y.57, A:E.83 TRS.2: 5 residues within 4Å: Chain A: W.69, W.76, Y.101, L.109 Chain B: D.120 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.120, B:D.120

2 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.3: 2 residues within 4Å: Chain B: W.14 Ligands: SO4.8 1 PLIP interactions: 1 interactions with chain B Water bridges: B:F.7 P6G.5: 6 residues within 4Å: Chain B: W.49, W.56, Y.72, Y.77, D.106 Ligands: SO4.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.49, B:Y.77

1 x XED: DEXTROFLOXACINE(Non-covalent)

XED.4: 3 residues within 4Å: Chain B: W.28, W.36, E.83 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:E.83 pi-Cation interactions: B:W.28, B:W.28

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.6: 3 residues within 4Å: Chain A: D.120 Chain B: W.69, W.76 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.76

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

SO4.7: 3 residues within 4Å: Chain B: K.51, W.56 Ligands: P6G.5 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.51, B:K.51, B:S.88, B:S.88 Salt bridges: B:K.51 SO4.8: 3 residues within 4Å: Chain B: K.9, W.14 Ligands: P6G.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.14 Salt bridges: B:K.9 SO4.9: 2 residues within 4Å: Chain A: Q.93 Chain B: N.89 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.93, A:Q.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fernandez-Tornero, C. et al., Ofloxacin-Like Antibiotics Inhibit Pneumococcal Cell Wall-Degrading Virulence Factors. J.Biol.Chem. (2005)

Release Date

2005-03-30

Peptides

AUTOLYSIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

AUTOLYSIN