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Yorodumi- PDB-1nd9: Solution Structure of the N-terminal Subdomain of Translation Ini... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1nd9 | ||||||
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Title | Solution Structure of the N-terminal Subdomain of Translation Initiation Factor IF2 | ||||||
Components | Translation initiation factor IF-2 | ||||||
Keywords | TRANSLATION / IF2 / initiation factor | ||||||
Function / homology | Function and homology information guanosine tetraphosphate binding / ribosomal small subunit binding / chaperone-mediated protein folding / translational initiation / translation initiation factor activity / response to cold / GTPase activity / GTP binding / membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Laursen, B.S. / Mortensen, K.K. / Sperling-Petersen, H.U. / Hoffman, D.W. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2003 Title: A conserved structural motif at the N terminus of bacterial translation initiation factor IF2 Authors: Laursen, B.S. / Mortensen, K.K. / Sperling-Petersen, H.U. / Hoffman, D.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1nd9.cif.gz | 151 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1nd9.ent.gz | 129.2 KB | Display | PDB format |
PDBx/mmJSON format | 1nd9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nd/1nd9 ftp://data.pdbj.org/pub/pdb/validation_reports/nd/1nd9 | 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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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 5405.960 Da / Num. of mol.: 1 / Fragment: N-terminal Domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: K12 / Plasmid: pET15b / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P0A705 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: The structure was determined using triple-resonance NMR spectroscopy |
-Sample preparation
Details |
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Sample conditions |
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Crystal grow | *PLUS Method: other / Details: NMR |
-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: 500 MHz |
-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: the structures are based on a total of 996 restraints, 918 are NOE-derived distance constraints, 63 dihedral angle restraints,15 distance restraints from hydrogen bonds. | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with acceptable covalent geometry,structures with favorable non-bond energy,structures with the least restraint violations,structures with the lowest energy Conformers calculated total number: 20 / Conformers submitted total number: 10 |