+Open data
-Basic information
Entry | Database: PDB / ID: 1xj3 | ||||||
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Title | bjFixLH in 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 |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1xj3.cif.gz | 39 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1xj3.ent.gz | 26 KB | Display | PDB format |
PDBx/mmJSON format | 1xj3.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1xj3_validation.pdf.gz | 458.3 KB | Display | wwPDB validaton report |
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Full document | 1xj3_full_validation.pdf.gz | 458.7 KB | Display | |
Data in XML | 1xj3_validation.xml.gz | 4 KB | Display | |
Data in CIF | 1xj3_validation.cif.gz | 6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xj/1xj3 ftp://data.pdbj.org/pub/pdb/validation_reports/xj/1xj3 | HTTPS FTP |
-Related structure data
Related structure data | 1xj2C 1xj4C 1xj6C 1drmS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 13101.703 Da / Num. of mol.: 1 / Fragment: heme domain Source method: isolated from a genetically manipulated source Details: reduced, unliganded form / 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 |
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#2: Chemical | ChemComp-HEM / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 3.57 Å3/Da / Density % sol: 59.3 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 9 Details: NaCl, PEI, CAPSO, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 298 K |
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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: 14771 / Num. obs: 13604 / % possible obs: 92.1 % / Observed criterion σ(I): -3 / Redundancy: 16.29 % / Rmerge(I) obs: 0.031 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1DRM Resolution: 1.9→40 Å / Cross valid method: THROUGHOUT / σ(F): 2
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Refinement step | Cycle: LAST / Resolution: 1.9→40 Å
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Refine LS restraints |
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