SMTL ID : 1xpu.4 (5 other biounits)

Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.05 Å

Oligo State

monomer

Ligands

1 x U- C: 5'-R(*CP*UP*CP*UP*CP*UP*CP*U)-3'(Non-covalent)

U-C.1: 13 residues within 4Å: Chain A: L.58, F.62, F.64, R.66, A.74, G.75, D.78, Y.80, R.102, E.108, R.109, Y.110, A.112 Protein-ligand interaction information (PLIP) not available

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: K.184, T.185, R.212 Ligands: AGS.3, FPD.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.185

1 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.3: 12 residues within 4Å: Chain A: T.158, P.180, K.181, A.182, G.183, K.184, T.185, M.186, R.212, F.355 Ligands: MG.2, FPD.4 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:T.158, A:T.158, A:K.181, A:A.182, A:G.183, A:K.184, A:T.185, A:M.186, A:R.212, A:R.212 Salt bridges: A:K.184

1 x FPD: 5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN(Non-covalent)

FPD.4: 14 residues within 4Å: Chain A: P.180, K.181, K.184, I.209, D.210, E.211, R.212, D.265, S.266, R.269, L.320, T.323 Ligands: MG.2, AGS.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.180, A:E.211 Hydrogen bonds: A:K.184, A:R.212, A:D.265, A:R.269, A:R.269, A:R.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Skordalakes, E. et al., Structural mechanism of inhibition of the rho transcription termination factor by the antibiotic bicyclomycin. Structure (2005)

Release Date

2004-11-02

Peptides

Rho transcription termination factor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Rho transcription termination factor

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