[English] 日本語
Yorodumi- PDB-5oay: M. tuberculosis [4Fe-4S] protein WhiB1 is a four-helix bundle tha... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5oay | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | M. tuberculosis [4Fe-4S] protein WhiB1 is a four-helix bundle that forms a NO-sensitive complex with sigmaA and regulates the major virulence factor ESX-1 | |||||||||
Components | Transcriptional regulator WhiB1 | |||||||||
Keywords | SIGNALING PROTEIN / nitric oxide / sigmaA / iron-sulfur / tuberculosis / Wbl protein | |||||||||
Function / homology | Function and homology information dinitrosyl-iron complex binding / protein-disulfide reductase (NAD(P)H) activity / response to nitric oxide / protein-disulfide reductase activity / cell redox homeostasis / 4 iron, 4 sulfur cluster binding / negative regulation of DNA-templated transcription / DNA binding / metal ion binding / cytoplasm Similarity search - Function | |||||||||
Biological species | Mycobacterium tuberculosis (bacteria) | |||||||||
Method | SOLUTION NMR / simulated annealing | |||||||||
Authors | Williamson, M.P. / Green, J. / Hounslow, A.M. | |||||||||
Funding support | United Kingdom, 2items
| |||||||||
Citation | Journal: Nat Commun / Year: 2017 Title: Structure of a Wbl protein and implications for NO sensing by M. tuberculosis. Authors: Kudhair, B.K. / Hounslow, A.M. / Rolfe, M.D. / Crack, J.C. / Hunt, D.M. / Buxton, R.S. / Smith, L.J. / Le Brun, N.E. / Williamson, M.P. / Green, J. | |||||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 5oay.cif.gz | 265.4 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb5oay.ent.gz | 220 KB | Display | PDB format |
PDBx/mmJSON format | 5oay.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/oa/5oay ftp://data.pdbj.org/pub/pdb/validation_reports/oa/5oay | HTTPS FTP |
---|
-Related structure data
Similar structure data | |
---|---|
Other databases |
|
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 10383.681 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: The sequence provided begins 9 residues before the start of the folded protein Source: (gene. exp.) Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (bacteria) Gene: whiB1, Rv3219 / Production host: Mycobacterium smegmatis (bacteria) / References: UniProt: P9WF43 |
---|---|
#2: Chemical | ChemComp-SF4 / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Type: solution Contents: 25 mM sodium phosphate, 250 mM sodium chloride, 90% H2O/10% D2O Details: TSP added for internal reference / Label: double labeled sample / Solvent system: 90% H2O/10% D2O | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||
Sample conditions | Ionic strength: 300 mM / Label: conditions_1 / pH: 7.0 / PH err: 0.05 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
|
---|
-Processing
NMR software | Name: CNS / Version: 1.2 / Developer: Brunger, Adams, Clore, Gros, Nilges and Read / Classification: structure calculation |
---|---|
Refinement | Method: 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: 62 / Conformers submitted total number: 10 |