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Yorodumi- PDB-3lua: Crystal structure of a Signal receiver domain of Two component Si... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3lua | ||||||
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Title | Crystal structure of a Signal receiver domain of Two component Signal Transduction (Histidine Kinase) from Clostridium thermocellum | ||||||
Components | Response regulator receiver protein | ||||||
Keywords | Transcription regulator / Two-component signal transduction system / Histidine Kinase / Phosphorelay / Receiver domain / 11201g / NYSGXRC / PSI-II / Structural Genomics / Protein Structure Initiative / New York SGX Research Center for Structural Genomics | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Clostridium thermocellum (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.4 Å | ||||||
Authors | Satyanarayana, L. / Burley, S.K. / Swaminathan, S. / New York SGX Research Center for Structural Genomics (NYSGXRC) | ||||||
Citation | Journal: To be Published Title: Crystal structure of a Signal receiver domain of Two component Signal Transduction (Histidine Kinase) from Clostridium thermocellum Authors: Satyanarayana, L. / Burley, S.K. / Swaminathan, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3lua.cif.gz | 35.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3lua.ent.gz | 27.1 KB | Display | PDB format |
PDBx/mmJSON format | 3lua.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3lua_validation.pdf.gz | 430 KB | Display | wwPDB validaton report |
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Full document | 3lua_full_validation.pdf.gz | 435.7 KB | Display | |
Data in XML | 3lua_validation.xml.gz | 8.2 KB | Display | |
Data in CIF | 3lua_validation.cif.gz | 10.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lu/3lua ftp://data.pdbj.org/pub/pdb/validation_reports/lu/3lua | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 16491.611 Da / Num. of mol.: 1 / Fragment: signal receiver domain residues 2-130 Source method: isolated from a genetically manipulated source Details: Top10 (Invitrogen) / Source: (gene. exp.) Clostridium thermocellum (bacteria) / Strain: ATCC 27405/DSM 1237 / Gene: 4809959, Cthe_3085 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 (DE3) Codon+RIL / References: UniProt: A3DK02 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.64 Å3/Da / Density % sol: 53.33 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / pH: 7 Details: 0.2M Sodium acetate pH 7.0, 20% PEG 3,350, VAPOR DIFFUSION, SITTING DROP, temperature 292K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X29A / Wavelength: 0.9792 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 26, 2009 / Details: mirrors |
Radiation | Monochromator: Si 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→50 Å / Num. all: 26360 / % possible obs: 100 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 10.9 % / Biso Wilson estimate: 36.9 Å2 / Rsym value: 0.116 / Net I/σ(I): 6.2 |
Reflection shell | Resolution: 2.4→2.49 Å / Redundancy: 10.5 % / Mean I/σ(I) obs: 5.6 / Num. unique all: 2615 / Rsym value: 0.779 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.4→47.05 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 40.9 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.4→47.05 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.55 Å / Rfactor Rfree error: 0.04
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