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Yorodumi- PDB-1wx8: Solution Structure of the N-terminal Ubiquitin-like Domain in the... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1wx8 | ||||||
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Title | Solution Structure of the N-terminal Ubiquitin-like Domain in the 4931431F19Rik Protein | ||||||
Components | RIKEN cDNA 4931431F19 | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / Ubiquitin-like domain / Ubiquilin 1-like / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information polyubiquitin modification-dependent protein binding / ubiquitin-dependent protein catabolic process / mitochondrion / cytosol Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Zhao, C. / Tomizawa, T. / Koshiba, S. / Inoue, M. / Kigawa, T. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution Structure of the N-terminal Ubiquitin-like Domain in the 4931431F19Rik Protein Authors: Zhao, C. / Tomizawa, T. / Koshiba, S. / Inoue, M. / Kigawa, T. / Yokoyama, S. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR DETERMINED |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1wx8.cif.gz | 570.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1wx8.ent.gz | 497.2 KB | Display | PDB format |
PDBx/mmJSON format | 1wx8.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wx/1wx8 ftp://data.pdbj.org/pub/pdb/validation_reports/wx/1wx8 | HTTPS FTP |
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-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: 10526.910 Da / Num. of mol.: 1 / Fragment: ubiquitin-like domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Description: Cell-free protein synthesis / Gene: Riken cDNA 4931431F19 / Plasmid: P040705-07 / References: UniProt: Q9D4I8 |
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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: 1.51mM protein U-15N, 13C, 20mM d-Tris-HCl (pH7.0), 100mM NaCl, 1mM d-DTT, 0.02% NaN3, 10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 100mM / pH: 7.0 / Pressure: ambient / Temperature: 298.0 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: target function,structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 20 |