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Yorodumi- PDB-2m6o: The actinobacterial transcription factor RbpA binds to the princi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2m6o | ||||||
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Title | The actinobacterial transcription factor RbpA binds to the principal sigma subunit of RNA polymerase | ||||||
Components | Uncharacterized protein | ||||||
Keywords | TRANSCRIPTION / RbpA / RNAP / Sigma factor | ||||||
Function / homology | Function and homology information bacterial-type RNA polymerase holo enzyme binding / bacterial-type RNA polymerase core enzyme binding / response to antibiotic / positive regulation of DNA-templated transcription / zinc ion binding Similarity search - Function | ||||||
Biological species | Streptomyces coelicolor (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing, distance geometry | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Liu, B. / Tabib-Salazar, A. / Doughty, P. / Lewis, R. / Ghosh, S. / Parsy, M. / Simpson, P. / Matthews, S. / Paget, M. | ||||||
Citation | Journal: Nucleic Acids Res. / Year: 2013 Title: The actinobacterial transcription factor RbpA binds to the principal sigma subunit of RNA polymerase. Authors: Tabib-Salazar, A. / Liu, B. / Doughty, P. / Lewis, R.A. / Ghosh, S. / Parsy, M.L. / Simpson, P.J. / O'Dwyer, K. / Matthews, S.J. / Paget, M.S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2m6o.cif.gz | 159.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2m6o.ent.gz | 132.6 KB | Display | PDB format |
PDBx/mmJSON format | 2m6o.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2m6o_validation.pdf.gz | 396.8 KB | Display | wwPDB validaton report |
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Full document | 2m6o_full_validation.pdf.gz | 447.3 KB | Display | |
Data in XML | 2m6o_validation.xml.gz | 10.2 KB | Display | |
Data in CIF | 2m6o_validation.cif.gz | 15.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/m6/2m6o ftp://data.pdbj.org/pub/pdb/validation_reports/m6/2m6o | 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/peptide | Mass: 5358.016 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptomyces coelicolor (bacteria) / Strain: ATCC BAA-471 / A3(2) / M145 / Gene: SCO1421 / Production host: Escherichia coli (E. coli) / References: UniProt: Q9RKY0 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 3 mM beta-mercaptoethanol, 500 mM sodium chloride, 20 mM TRIS, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0.5 / pH: 7.5 / Pressure: ambient / Temperature: 310 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, distance geometry / Software ordinal: 1 | |||||||||
NMR representative | Selection criteria: lowest energy | |||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 10 |