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Yorodumi- PDB-3lai: Structural insights into the molecular mechanism of H-NOX activation -
+Open data
-Basic information
Entry | Database: PDB / ID: 3lai | ||||||
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Title | Structural insights into the molecular mechanism of H-NOX activation | ||||||
Components | Methyl-accepting chemotaxis proteinMethyl-accepting chemotaxis proteins | ||||||
Keywords | SIGNALING PROTEIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Thermoanaerobacter tengcongensis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.144 Å | ||||||
Authors | Olea Jr, C. / Herzik Jr, M.A. / Kuriyan, J. / Marletta, M.A. | ||||||
Citation | Journal: Protein Sci. / Year: 2010 Title: Structural insights into the molecular mechanism of H-NOX activation. Authors: Olea, C. / Herzik, M.A. / Kuriyan, J. / Marletta, M.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3lai.cif.gz | 130.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3lai.ent.gz | 102.6 KB | Display | PDB format |
PDBx/mmJSON format | 3lai.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/la/3lai ftp://data.pdbj.org/pub/pdb/validation_reports/la/3lai | HTTPS FTP |
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-Related structure data
Related structure data | 3lahC 1u55S S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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3 |
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Unit cell |
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Details | AUTHOR STATES THAT THE BIOLOGICAL ASSEMBLY IS UNKNOWN. |
-Components
#1: Protein | Mass: 21966.406 Da / Num. of mol.: 3 / Fragment: UNP residues 1-188 / Mutation: H102G Source method: isolated from a genetically manipulated source Source: (gene. exp.) Thermoanaerobacter tengcongensis (bacteria) Gene: Tar4, TTE0680 / Production host: Escherichia coli (E. coli) / References: UniProt: Q8RBX6 #2: Chemical | #3: Chemical | ChemComp-IMD / #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.47 Å3/Da / Density % sol: 50.23 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 20% PEG 3350, 0.2 M Potassium Chloride, seeding, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 5.0.3 / Wavelength: 0.9765 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 2, 2009 |
Radiation | Monochromator: Asymmetric curved crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9765 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→50 Å / Num. all: 69144 / Num. obs: 36578 / % possible obs: 100 % |
Reflection shell | Resolution: 2.14→2.22 Å / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1U55 Resolution: 2.144→46.341 Å / SU ML: 0.3 / σ(F): 1.34 / Phase error: 26.6 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 50.774 Å2 / ksol: 0.336 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.144→46.341 Å
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Refine LS restraints |
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LS refinement shell |
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