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Yorodumi- PDB-2eki: Solution structures of the TGS domain of human developmentally-re... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2eki | ||||||
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Title | Solution structures of the TGS domain of human developmentally-regulated GTP-binding protein 1 | ||||||
Components | Developmentally-regulated GTP-binding protein 1 | ||||||
Keywords | SIGNALING PROTEIN / DRG 1 / Protein NEDD3 / Neural precursor cell expressed developmentally down-regulated protein 3 / Drg / Nedd-3 / Nedd3 / Structural Genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information multicellular organism development / : / regulation of mitotic spindle assembly / potassium ion binding / transcription factor binding / positive regulation of microtubule polymerization / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / cytoplasmic translation / microtubule binding / nuclear body ...multicellular organism development / : / regulation of mitotic spindle assembly / potassium ion binding / transcription factor binding / positive regulation of microtubule polymerization / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / cytoplasmic translation / microtubule binding / nuclear body / GTPase activity / DNA-templated transcription / GTP binding / membrane / identical protein binding / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Sato, M. / Koshiba, S. / Watanabe, S. / Harada, T. / Kigawa, T. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structures of the TGS domain of human developmentally-regulated GTP-binding protein 1 Authors: Sato, M. / Koshiba, S. / Watanabe, S. / Harada, T. / Kigawa, T. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2eki.cif.gz | 568.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2eki.ent.gz | 496.5 KB | Display | PDB format |
PDBx/mmJSON format | 2eki.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ek/2eki ftp://data.pdbj.org/pub/pdb/validation_reports/ek/2eki | 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: 10381.958 Da / Num. of mol.: 1 / Fragment: TGS domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: Cell-free protein synthesis / Gene: DRG1 / Plasmid: P051011-16 / References: UniProt: Q9Y295 |
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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: 1mM TGS domain U-15N, 13C; 20mM d-Tris HCl; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 90% H2O, 10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 120mM / pH: 7.0 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
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-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 |