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Yorodumi- PDB-1ugj: Solution structure of a murine hypothetical protein from RIKEN cD... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ugj | ||||||
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Title | Solution structure of a murine hypothetical protein from RIKEN cDNA 2310057J16 | ||||||
Components | RIKEN cDNA 2310057J16 protein | ||||||
Keywords | structural genomics / unknown function / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information regulation of organelle organization / zonula adherens maintenance / microtubule minus-end / protein transport along microtubule / microtubule anchoring / microtubule minus-end binding / regulation of Golgi organization / establishment or maintenance of microtubule cytoskeleton polarity / cilium movement / epithelial cell-cell adhesion ...regulation of organelle organization / zonula adherens maintenance / microtubule minus-end / protein transport along microtubule / microtubule anchoring / microtubule minus-end binding / regulation of Golgi organization / establishment or maintenance of microtubule cytoskeleton polarity / cilium movement / epithelial cell-cell adhesion / zonula adherens / negative regulation of microtubule depolymerization / establishment of epithelial cell apical/basal polarity / motile cilium / embryo development ending in birth or egg hatching / regulation of focal adhesion assembly / spectrin binding / regulation of microtubule polymerization / axoneme / regulation of microtubule cytoskeleton organization / cytoplasmic microtubule organization / regulation of cell migration / ciliary basal body / microtubule cytoskeleton organization / actin filament binding / microtubule cytoskeleton / neuron projection development / in utero embryonic development / calmodulin binding / centrosome / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Nagashima, T. / Hayashi, F. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. ...Nagashima, T. / Hayashi, F. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. / Hirota, H. / Yoshida, M. / Tanaka, A. / Osanai, T. / Arakawa, T. / Carninci, P. / Kawai, J. / Hayashizaki, Y. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structure of a murine hypothetical protein from RIKEN cDNA 2310057J16 Authors: Nagashima, T. / Hayashi, F. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. / Hirota, H. / Yoshida, M. / Tanaka, A. / Osanai, T. / ...Authors: Nagashima, T. / Hayashi, F. / Shirouzu, M. / Terada, T. / Kigawa, T. / Inoue, M. / Yabuki, T. / Aoki, M. / Seki, E. / Matsuda, T. / Hirota, H. / Yoshida, M. / Tanaka, A. / Osanai, T. / Arakawa, T. / Carninci, P. / Kawai, J. / 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 | 1ugj.cif.gz | 850.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ugj.ent.gz | 713 KB | Display | PDB format |
PDBx/mmJSON format | 1ugj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ugj_validation.pdf.gz | 343.5 KB | Display | wwPDB validaton report |
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Full document | 1ugj_full_validation.pdf.gz | 512.6 KB | Display | |
Data in XML | 1ugj_validation.xml.gz | 70 KB | Display | |
Data in CIF | 1ugj_validation.cif.gz | 86.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ug/1ugj ftp://data.pdbj.org/pub/pdb/validation_reports/ug/1ugj | 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: 15654.800 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Description: Cell-free protein synthesis / Gene: RIKEN cDNA 2310057J16 / Plasmid: P020520-18 / References: UniProt: Q80VC9 |
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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: 1.2mM 13C, 15N-labeled protein; 20mM phosphate buffer; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 10% D2O 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: Varian INOVA / Manufacturer: Varian / Model: INOVA / 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, target function Conformers calculated total number: 100 / Conformers submitted total number: 20 |