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Yorodumi- PDB-1ws6: The Structure of Thermus thermphillus HB8 hypothetical protein TT... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ws6 | ||||||
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Title | The Structure of Thermus thermphillus HB8 hypothetical protein TTHA0928 | ||||||
Components | methyltransferase | ||||||
Keywords | TRANSFERASE / methyltransferase / STRUCTURAL GENOMICS / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Thermus thermophilus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.5 Å | ||||||
Authors | Sasaki, C. / Sugiura, I. / Sugio, S. / Tamura, T. / Inagaki, K. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: TO BE PUBLISHED Title: The structure of thermus thermphillus HB8 hypothetical protein TTHA0928 Authors: Sasaki, C. / Sugiura, I. / Sugio, S. / Tamura, T. / Inagaki, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ws6.cif.gz | 42.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ws6.ent.gz | 32.5 KB | Display | PDB format |
PDBx/mmJSON format | 1ws6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ws6_validation.pdf.gz | 417.7 KB | Display | wwPDB validaton report |
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Full document | 1ws6_full_validation.pdf.gz | 425.5 KB | Display | |
Data in XML | 1ws6_validation.xml.gz | 10.4 KB | Display | |
Data in CIF | 1ws6_validation.cif.gz | 13.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ws/1ws6 ftp://data.pdbj.org/pub/pdb/validation_reports/ws/1ws6 | 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
#1: Protein | Mass: 18698.502 Da / Num. of mol.: 1 / Fragment: residues 15-185 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Thermus thermophilus (bacteria) / Strain: HB8 / Plasmid: pET-11a / Production host: Escherichia coli (E. coli) / Strain (production host): HMS174(DE3) References: GenBank: 55772310, UniProt: Q5SJT0*PLUS, Transferases; Transferring one-carbon groups; Methyltransferases |
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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: 2.71 Å3/Da / Density % sol: 54.57 % |
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Crystal grow | Temperature: 278 K / Method: microbatch / pH: 6.5 Details: PEG 10000, potassium thiocyanate, pH 6.5, micro-batch, temperature 278K |
-Data collection
Diffraction | Mean temperature: 174 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL12B2 / Wavelength: 0.88, 0.9795, 0.9795, 1.03 | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Feb 18, 2003 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.5→50 Å / Num. all: 7434 / Num. obs: 7434 / % possible obs: 100 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 6.7 % / Biso Wilson estimate: 18.6 Å2 / Rmerge(I) obs: 0.077 | ||||||||||||
Reflection shell | Resolution: 2.5→2.59 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.335 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.5→50 Å / σ(F): 0 / σ(I): 2 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: -0.037 Å2
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Refinement step | Cycle: LAST / Resolution: 2.5→50 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.5→2.59 Å /
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