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SMTL ID : 4zh4.1 (1 other biounit)

Crystal structure of Escherichia coli RNA polymerase in complex with CBRP18

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.99 Å

Oligo State

hetero-2-1-1-1-1-mer

Ligands

1 x 4OE: 5-(4-fluorophenyl)-4-[4-fluoro-3-(trifluoromethyl)phenyl]-1H-pyrazole(Non-covalent)

4OE.1:

14 residues within 4Å:

Chain C: V.550, H.551, P.552, Y.555, R.637, G.640, E.641, S.642
Chain D: K.749, P.750, I.755, L.770, F.773, I.774

5 PLIP interactions:

3 interactions with chain C, 2 interactions with chain D

Hydrophobic interactions: C:P.552, D:F.773, D:I.774
Hydrogen bonds: C:S.642, C:S.642

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2:

3 residues within 4Å:

Chain D: D.460, D.462, D.464

No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.3:	5 residues within 4Å: Chain D: C.70, C.72, K.74, C.85, C.88 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.70, D:C.72, D:C.85
ZN.4:	4 residues within 4Å: Chain D: C.814, C.888, C.895, C.898 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.814, D:C.888, D:C.895, D:C.898

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Feng, Y. et al., Structural Basis of Transcription Inhibition by CBR Hydroxamidines and CBR Pyrazoles. Structure (2015)

Release Date

2015-08-05

Peptides

DNA-directed RNA polymerase subunit alpha: AB
DNA-directed RNA polymerase subunit beta: C
DNA-directed RNA polymerase subunit beta': D
DNA-directed RNA polymerase subunit omega: E
RNA polymerase sigma factor RpoD: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

DNA-directed RNA polymerase subunit alpha

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase subunit beta'

DNA-directed RNA polymerase subunit omega

RNA polymerase sigma factor RpoD

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3iyd.1 | 3lu0.1 | 4jk1.1 | 4jk1.2 | 4jk2.1 | 4jk2.2 | 4jkr.1 | 4jkr.2 | 4kmu.1 | 4kmu.2 | 4kn4.1 | 4kn4.2 | 4kn7.1 | 4kn7.2 | 4ljz.1 | 4ljz.2 | 4lk0.1 | 4lk0.2 | 4lk1.1 | 4lk1.2 | 4llg.1 | 4llg.2 | 4mex.1 | 4mex.2 | 4mey.1 | 4mey.2 | 4s20.1 | 4s20.2 | 4xsx.1 | 4xsx.2 more...less...

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