+Open data
-Basic information
Entry | Database: PDB / ID: 2cw4 | ||||||
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Title | Crystal structure of TTHA0137 from Thermus Thermophilus HB8 | ||||||
Components | translation initiation inhibitor | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Thermus thermophilus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Wang, H. / Murayama, K. / Terada, T. / Shirouzu, M. / Kuramitsu, S. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: TO BE PUBLISHED Title: Crystal structure of TTHA0137 from Thermus Thermophilus HB8 Authors: Wang, H. / Murayama, K. / Terada, T. / Shirouzu, M. / Kuramitsu, S. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2cw4.cif.gz | 32.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2cw4.ent.gz | 24.8 KB | Display | PDB format |
PDBx/mmJSON format | 2cw4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2cw4_validation.pdf.gz | 427.5 KB | Display | wwPDB validaton report |
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Full document | 2cw4_full_validation.pdf.gz | 430.3 KB | Display | |
Data in XML | 2cw4_validation.xml.gz | 7.6 KB | Display | |
Data in CIF | 2cw4_validation.cif.gz | 9.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cw/2cw4 ftp://data.pdbj.org/pub/pdb/validation_reports/cw/2cw4 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 13297.769 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Thermus thermophilus (bacteria) / Plasmid: pET11a / Production host: Escherichia coli (E. coli) / References: UniProt: Q5SM06 |
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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: 2.2 Å3/Da / Density % sol: 43.6 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: PEG1500 BIS-TRIS, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Apr 18, 2005 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→50 Å / Num. obs: 10369 / % possible obs: 99.3 % / Observed criterion σ(I): -3 / Redundancy: 6.1 % / Biso Wilson estimate: 14.7 Å2 / Rsym value: 0.054 / Net I/σ(I): 30.97 |
Reflection shell | Resolution: 1.8→1.86 Å / Redundancy: 4.8 % / Mean I/σ(I) obs: 10.7 / Num. unique all: 974 / Rsym value: 0.13 / % possible all: 93 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.8→27.91 Å / Data cutoff high absF: 1310874.94 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 Details: This is a twinned structure. The twinning operator is (h,k,l) -> (h,-h-k,-l) and twinning fraction is 0.355.
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 45.9009 Å2 / ksol: 0.365402 e/Å3 | ||||||||||||||||||||
Displacement parameters | Biso mean: 17.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.8→27.91 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.8→1.88 Å / Total num. of bins used: 8
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Xplor file |
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