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Yorodumi- PDB-1z0r: Solution Structure of the N-terminal DNA Recognition Domain of th... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1z0r | |||||||||
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Title | Solution Structure of the N-terminal DNA Recognition Domain of the Bacillus subtilis Transcription-State Regulator AbrB | |||||||||
Components | Transition state regulatory protein abrB | |||||||||
Keywords | TRANSCRIPTION / SCOP database / N-terminal DNA-binding domain / transition state regulator | |||||||||
Function / homology | Function and homology information regulation of sporulation / sporulation resulting in formation of a cellular spore / negative regulation of DNA-templated transcription / DNA binding / identical protein binding Similarity search - Function | |||||||||
Biological species | Bacillus subtilis (bacteria) | |||||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | |||||||||
Authors | Bobay, B.G. / Andreeva, A. / Mueller, G.A. / Cavanagh, J. / Murzin, A.G. | |||||||||
Citation | Journal: Febs Lett. / Year: 2005 Title: Revised structure of the AbrB N-terminal domain unifies a diverse superfamily of putative DNA-binding proteins. Authors: Bobay, B.G. / Andreeva, A. / Mueller, G.A. / Cavanagh, J. / Murzin, A.G. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1z0r.cif.gz | 269 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1z0r.ent.gz | 235.7 KB | Display | PDB format |
PDBx/mmJSON format | 1z0r.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/z0/1z0r ftp://data.pdbj.org/pub/pdb/validation_reports/z0/1z0r | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar 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: 6111.287 Da / Num. of mol.: 2 / Fragment: N-Terminal Dimer from Residues 1-53 (of 94) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacillus subtilis (bacteria) / Gene: abrB / Plasmid: pet-24 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE)3 / References: UniProt: P08874 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: New relationships found in process of updating the SCOP database resulted in revision of the structure of the N-terminal, DNA-binding domain of the transition state regulator AbrB. |
-Sample preparation
Details | Contents: 1-2mM AbrB; 95% pure; 20mM Phosphate, 15mM KCl, 1mM EDTA, 1mM DTT Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 15mM KCl / pH: 5.8 / Pressure: ambient / Temperature: 305 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
-Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing / Software ordinal: 1 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 10 / Conformers submitted total number: 7 |