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Yorodumi- PDB-1ufz: Solution structure of HBS1-like domain in hypothetical protein BA... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ufz | ||||||
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Title | Solution structure of HBS1-like domain in hypothetical protein BAB28515 | ||||||
Components | Hypothetical protein BAB28515 | ||||||
Keywords | TRANSLATION / HBS1-like domain / Structural genomics / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information mRNA decay by 3' to 5' exoribonuclease / translation elongation factor activity / translation / GTPase activity / GTP binding Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | He, F. / Muto, Y. / Hayami, N. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. ...He, F. / Muto, Y. / Hayami, N. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. / Hirota, H. / Yoshida, M. / Kobayashi, N. / Tanaka, A. / Osanai, T. / Matsuo, Y. / Hayashizaki, Y. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structure of HBS1-like domain in hypothetical protein BAB28515 Authors: He, F. / Muto, Y. / Hayami, N. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. / Hirota, H. / Yoshida, M. / Kobayashi, N. / Tanaka, A. / ...Authors: He, F. / Muto, Y. / Hayami, N. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. / Hirota, H. / Yoshida, M. / Kobayashi, N. / Tanaka, A. / Osanai, T. / Matsuo, Y. / Hayashizaki, Y. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ufz.cif.gz | 477.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ufz.ent.gz | 397.8 KB | Display | PDB format |
PDBx/mmJSON format | 1ufz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ufz_validation.pdf.gz | 343 KB | Display | wwPDB validaton report |
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Full document | 1ufz_full_validation.pdf.gz | 504.1 KB | Display | |
Data in XML | 1ufz_validation.xml.gz | 32.6 KB | Display | |
Data in CIF | 1ufz_validation.cif.gz | 49.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uf/1ufz ftp://data.pdbj.org/pub/pdb/validation_reports/uf/1ufz | 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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NMR ensembles |
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-Components
#1: Protein | Mass: 8975.762 Da / Num. of mol.: 1 / Fragment: HBS1-like domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Description: Cell-free synthesis / Gene: RIKEN cDNA 2810035F15 / Plasmid: P020924-27 / References: UniProt: Q69ZS7 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1.0mM U-15N,13C labeled protein; 20mM phosphate buffer NA(pH 6.0); 100mM NaCl; 0.02% NaN3 Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 120mM / pH: 6 / Pressure: Ambient / Temperature: 298 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz |
-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations, structures with the lowest energy, target function Conformers calculated total number: 100 / Conformers submitted total number: 20 |