+Open data
-Basic information
Entry | Database: PDB / ID: 1xj6 | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of bjFixLH in the unliganded ferrous form | ||||||
Components | Sensor protein fixL | ||||||
Keywords | SIGNALING PROTEIN / TRANSFERASE / PAS domain / heme / oxygen sensor | ||||||
Function / homology | Function and homology information histidine phosphotransfer kinase activity / nitrogen fixation / histidine kinase / phosphorelay sensor kinase activity / regulation of DNA-templated transcription / ATP binding / metal ion binding Similarity search - Function | ||||||
Biological species | Bradyrhizobium japonicum (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Key, J. / Moffat, K. | ||||||
Citation | Journal: Biochemistry / Year: 2005 Title: Crystal Structures of Deoxy and CO-Bound bjFixLH Reveal Details of Ligand Recognition and Signaling Authors: Key, J. / Moffat, K. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1xj6.cif.gz | 61.1 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1xj6.ent.gz | 43.9 KB | Display | PDB format |
PDBx/mmJSON format | 1xj6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xj/1xj6 ftp://data.pdbj.org/pub/pdb/validation_reports/xj/1xj6 | HTTPS FTP |
---|
-Related structure data
Related structure data | 1xj2C 1xj3C 1xj4C 1drmS C: citing same article (ref.) S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
2 |
| ||||||||||||
3 |
| ||||||||||||
4 |
| ||||||||||||
5 |
| ||||||||||||
6 |
| ||||||||||||
Unit cell |
| ||||||||||||
Components on special symmetry positions |
|
-Components
#1: Protein | Mass: 13413.079 Da / Num. of mol.: 2 / Fragment: heme domain Source method: isolated from a genetically manipulated source Details: unliganded / Source: (gene. exp.) Bradyrhizobium japonicum (bacteria) / Gene: fixL / Production host: Escherichia coli (E. coli) References: UniProt: P23222, Transferases; Transferring phosphorus-containing groups; Phosphotransferases with a nitrogenous group as acceptor #2: Chemical | #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
---|
-Sample preparation
Crystal | Density Matthews: 2.51 Å3/Da / Density % sol: 43.4 % |
---|---|
Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8.6 Details: NaCl, Ethylene glycol, TRIS, pH 8.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 298 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 14-BM-C / Wavelength: 0.9 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→40 Å / Num. all: 21079 / Num. obs: 19749 / % possible obs: 93.7 % / Observed criterion σ(I): -3 / Redundancy: 5.14 % / Rmerge(I) obs: 0.059 |
-Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1DRM Resolution: 1.9→40 Å / Cross valid method: THROUGHOUT / σ(F): 2
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→40 Å
| |||||||||||||||||||||||||
Refine LS restraints |
|