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Yorodumi- PDB-2mc6: A bacteriophage transcription regulator inhibits bacterial transc... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2mc6 | ||||||
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Title | A bacteriophage transcription regulator inhibits bacterial transcription initiation by sigma-factor displacement | ||||||
Components |
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Keywords | TRANSCRIPTION / p7 / RNAP / sigma factor / beta prime subunit / NTD / TRANSFERASE | ||||||
Function / homology | Function and homology information DNA-directed 5'-3' RNA polymerase activity / DNA-directed RNA polymerase / DNA-templated transcription / magnesium ion binding / DNA binding / zinc ion binding Similarity search - Function | ||||||
Biological species | Xanthomonas phage Xp10 (virus) Xanthomonas oryzae pv. oryzae (bacteria) | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Liu, B. / Shadrin, A. / Sheppard, C. / Xu, Y. / Severinov, K. / Matthews, S. / Wigneshweraraj, S. | ||||||
Citation | Journal: Nucleic Acids Res. / Year: 2014 Title: A bacteriophage transcription regulator inhibits bacterial transcription initiation by sigma-factor displacement. Authors: Liu, B. / Shadrin, A. / Sheppard, C. / Mekler, V. / Xu, Y. / Severinov, K. / Matthews, S. / Wigneshweraraj, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2mc6.cif.gz | 35.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2mc6.ent.gz | 24.4 KB | Display | PDB format |
PDBx/mmJSON format | 2mc6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2mc6_validation.pdf.gz | 404 KB | Display | wwPDB validaton report |
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Full document | 2mc6_full_validation.pdf.gz | 406.3 KB | Display | |
Data in XML | 2mc6_validation.xml.gz | 5 KB | Display | |
Data in CIF | 2mc6_validation.cif.gz | 5.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mc/2mc6 ftp://data.pdbj.org/pub/pdb/validation_reports/mc/2mc6 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8188.970 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Xanthomonas phage Xp10 (virus) / Production host: Escherichia coli (E. coli) / References: UniProt: Q8LTJ5 |
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#2: Protein/peptide | Mass: 1236.460 Da / Num. of mol.: 1 / Fragment: UNP residues 1-10 / Source method: obtained synthetically / Source: (synth.) Xanthomonas oryzae pv. oryzae (bacteria) / References: UniProt: Q8KTH8, DNA-directed RNA polymerase |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 5 mM sodium chloride, 5 mM potassium phosphate, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | |||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 10 / pH: 8.7 / Pressure: ambient / Temperature: 283 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing / Software ordinal: 1 | |||||||||
NMR representative | Selection criteria: lowest energy | |||||||||
NMR ensemble | Conformers calculated total number: 20 / Conformers submitted total number: 1 |