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Yorodumi- PDB-1woz: Crystal structure of uncharacterized protein ST1454 from Sulfolob... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1woz | ||||||
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Title | Crystal structure of uncharacterized protein ST1454 from Sulfolobus tokodaii | ||||||
Components | 177aa long conserved hypothetical protein (ST1454) | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION | ||||||
Function / homology | Function and homology information corrinoid adenosyltransferase / corrinoid adenosyltransferase activity / ATP binding Similarity search - Function | ||||||
Biological species | Sulfolobus tokodaii (archaea) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.94 Å | ||||||
Authors | Sasaki, T. / Tanaka, Y. / Yasutake, Y. / Yao, M. / Tanaka, I. / Tsumoto, K. / Kumagai, I. | ||||||
Citation | Journal: To be Published Title: Crystal structure of the uncharacterized protein ST1454 from Sulfolobus tokodaii. Authors: Sasaki, T. / Tanaka, Y. / Yasutake, Y. / Yao, M. / Tanaka, I. / Tsumoto, K. / Kumagai, I. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1woz.cif.gz | 43.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1woz.ent.gz | 33.6 KB | Display | PDB format |
PDBx/mmJSON format | 1woz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1woz_validation.pdf.gz | 760.2 KB | Display | wwPDB validaton report |
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Full document | 1woz_full_validation.pdf.gz | 761.6 KB | Display | |
Data in XML | 1woz_validation.xml.gz | 9.3 KB | Display | |
Data in CIF | 1woz_validation.cif.gz | 12.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wo/1woz ftp://data.pdbj.org/pub/pdb/validation_reports/wo/1woz | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Details | The biological assembly is a trimer generated from the monomer in the asymmetric unit by the operations: -z+1/2, -x, y+1/2 and -y, z-1/2, -x+1/2. |
-Components
#1: Protein | Mass: 20608.080 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sulfolobus tokodaii (archaea) / Strain: 7 / Gene: ST1454 / Plasmid: pET20B / Production host: Escherichia coli (E. coli) / Strain (production host): B834(DE3) / References: UniProt: Q970Z7 |
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#2: Chemical | ChemComp-POG / ( |
#3: 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: 2.48 Å3/Da / Density % sol: 50 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.1 Details: HEPES buffer, Ammonium sulfate, PEG400, Polypropylene glycol 400, pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL38B1 / Wavelength: 0.97967, 0.97997, 0.9000 | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Oct 17, 2003 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.94→50 Å / Num. all: 15276 / Num. obs: 15276 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 19.2 % / Biso Wilson estimate: 36.7 Å2 / Rsym value: 0.08 / Net I/σ(I): 9 | ||||||||||||
Reflection shell | Resolution: 1.94→2.01 Å / Redundancy: 19.7 % / Num. unique all: 1502 / Rsym value: 0.399 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.94→40 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 26.587 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.94→40 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.94→2.01 Å
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