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Yorodumi- PDB-2eis: X-ray structure of acyl-CoA hydrolase-like protein, TT1379, from ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2eis | ||||||
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Title | X-ray structure of acyl-CoA hydrolase-like protein, TT1379, from Thermus thermophilus HB8 | ||||||
Components | Hypothetical protein TTHB207Hypothesis | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / CoA binding motif / 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 / SYNCHROTRON / MAD, MOLECULAR REPLACEMENT / Resolution: 2.1 Å | ||||||
Authors | Kamitori, S. / Yoshida, H. / Satoh, S. / Iino, H. / Ebihara, A. / Chen, L. / Fu, Z.-Q. / Chrzas, J. / Wang, B.-C. / Yokoyama, S. ...Kamitori, S. / Yoshida, H. / Satoh, S. / Iino, H. / Ebihara, A. / Chen, L. / Fu, Z.-Q. / Chrzas, J. / Wang, B.-C. / Yokoyama, S. / Kuramitsu, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: X-ray structure of acyl-CoA hydrolase-like protein, TT1379, from Thermus thermophilus HB8 Authors: Kamitori, S. / Yoshida, H. / Satoh, S. / Iino, H. / Ebihara, A. / Chen, L. / Fu, Z.-Q. / Chrzas, J. / Wang, B.-C. / Yokoyama, S. / Kuramitsu, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2eis.cif.gz | 63.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2eis.ent.gz | 51.7 KB | Display | PDB format |
PDBx/mmJSON format | 2eis.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ei/2eis ftp://data.pdbj.org/pub/pdb/validation_reports/ei/2eis | HTTPS FTP |
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-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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-Components
#1: Protein | Mass: 14783.212 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Thermus thermophilus (bacteria) / Strain: HB8 / Gene: TTHB207 / Plasmid: pET-11a / Production host: Escherichia coli (E. coli) / Strain (production host): B834(DE3) / References: UniProt: Q53VX2 #2: Chemical | #3: 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: 3.32 Å3/Da / Density % sol: 62.99 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 5.2 Details: 30% v/v Propylene Glycol, 4% v/v PEG 400, 20% v/v Glycerol, 0.1M Na3Citrate, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 22-ID / Wavelength: 0.9793 Å |
Detector | Type: MARMOSAIC 300 mm CCD / Detector: CCD / Date: Feb 2, 2007 / Details: ROSENBAUM |
Radiation | Monochromator: SI CHANNEL 220 / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→50 Å / Num. all: 23244 / Num. obs: 23244 / % possible obs: 100 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Biso Wilson estimate: 20.5 Å2 / Rmerge(I) obs: 0.08 / Net I/σ(I): 11.3 |
Reflection shell | Resolution: 2.1→2.18 Å / Rmerge(I) obs: 0.287 / Num. unique all: 2285 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MAD, MOLECULAR REPLACEMENT / Resolution: 2.1→47.26 Å / Rfactor Rfree error: 0.005 / Data cutoff high absF: 116937.47 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 78.4709 Å2 / ksol: 0.399674 e/Å3 | ||||||||||||||||||||
Displacement parameters | Biso mean: 38.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.1→47.26 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.18 Å / Rfactor Rfree error: 0.019 / Total num. of bins used: 10
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Xplor file |
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