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Yorodumi- PDB-1xs9: A MODEL OF THE TERNARY COMPLEX FORMED BETWEEN MARA, THE ALPHA-CTD... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1xs9 | |||||||||
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Title | A MODEL OF THE TERNARY COMPLEX FORMED BETWEEN MARA, THE ALPHA-CTD OF RNA POLYMERASE AND DNA | |||||||||
Components |
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Keywords | TRANSCRIPTION/DNA / PROTEIN-DNA COMPLEX / TERNARY COMPLEX / MARA / RNA POLYMERASE / TRANSCRIPTION-DNA COMPLEX | |||||||||
Function / homology | Function and homology information submerged biofilm formation / cellular response to cell envelope stress / cytosolic DNA-directed RNA polymerase complex / regulation of DNA-templated transcription initiation / bacterial-type flagellum assembly / bacterial-type flagellum-dependent cell motility / nitrate assimilation / transcription elongation factor complex / regulation of DNA-templated transcription elongation / transcription antitermination ...submerged biofilm formation / cellular response to cell envelope stress / cytosolic DNA-directed RNA polymerase complex / regulation of DNA-templated transcription initiation / bacterial-type flagellum assembly / bacterial-type flagellum-dependent cell motility / nitrate assimilation / transcription elongation factor complex / regulation of DNA-templated transcription elongation / transcription antitermination / cell motility / DNA-templated transcription initiation / DNA-directed 5'-3' RNA polymerase activity / DNA-directed RNA polymerase / response to heat / intracellular iron ion homeostasis / sequence-specific DNA binding / protein dimerization activity / DNA-binding transcription factor activity / response to antibiotic / negative regulation of DNA-templated transcription / positive regulation of DNA-templated transcription / DNA binding / membrane / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | Escherichia coli (E. coli) | |||||||||
Method | SOLUTION NMR / MODEL BASED ON CHEMICAL SHIFT PERTURBATION MAPPING | |||||||||
Authors | Dangi, B. / Gronenborn, A.M. / Rosner, J.L. / Martin, R.G. | |||||||||
Citation | Journal: Mol.Microbiol. / Year: 2004 Title: Versatility of the carboxy-terminal domain of the alpha subunit of RNA polymerase in transcriptional activation: use of the DNA contact site as a protein contact site for MarA. Authors: Dangi, B. / Gronenborn, A.M. / Rosner, J.L. / Martin, R.G. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1xs9.cif.gz | 105.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1xs9.ent.gz | 82.8 KB | Display | PDB format |
PDBx/mmJSON format | 1xs9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xs/1xs9 ftp://data.pdbj.org/pub/pdb/validation_reports/xs/1xs9 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: DNA chain | Mass: 6182.029 Da / Num. of mol.: 1 / Fragment: PROMOTER REGION / Source method: obtained synthetically |
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#2: DNA chain | Mass: 6083.953 Da / Num. of mol.: 1 / Fragment: PROMOTER REGION / Source method: obtained synthetically |
#3: Protein | Mass: 15723.780 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: marA / Plasmid: PET15B / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) PLYSS / References: UniProt: P0ACH5 |
#4: Protein | Mass: 9291.663 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rpoA, pez, phs, sez / Plasmid: PET15B / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)PLYSS / References: UniProt: P0A7Z4, DNA-directed RNA polymerase |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: HSQC |
-Sample preparation
Details | Contents: AS DESCRIBED IN PAPER |
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Sample conditions | pH: 6.7 / Temperature units: K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: MODEL BASED ON CHEMICAL SHIFT PERTURBATION MAPPING / Software ordinal: 1 / Details: Program HADDOCK was used to generate the nodels | |||||||||||||||
NMR ensemble | Conformers calculated total number: 200 / Conformers submitted total number: 1 |