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Yorodumi- PDB-2tra: RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2tra | ||||||
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Title | RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALS | ||||||
Components | TRNAASP | ||||||
Keywords | T-RNA / SINGLE STRAND / LOOPS | ||||||
Function / homology | SPERMINE / RNA / RNA (> 10) Function and homology information | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 3 Å | ||||||
Authors | Westhof, E. / Dumas, P. / Moras, D. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.A / Year: 1988 Title: Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals. Authors: Westhof, E. / Dumas, P. / Moras, D. #1: Journal: Biochimie / Year: 1988 Title: Hydration of Transfer RNA Molecules. A Crystallographic Study Authors: Westhof, E. / Dumas, P. / Moras, D. #2: Journal: Acta Crystallogr.,Sect.B / Year: 1986 Title: Thee-Dimensional Structure of Yeast T-RNA-ASP. I. Structure Determination Authors: Comarmond, M.B. / Giege, R. / Thierry, J.C. / Moras, D. / Fischer, J. #3: Journal: Proc.Natl.Acad.Sci.USA / Year: 1986 Title: Anticodon-Anticodon Interaction Induces Conformational Changes in T-RNA. Yeast T-RNA-ASP, a Model for T-RNA-M-RNA Recognition Authors: Moras, D. / Dock, A.-C. / Dumas, P. / Westhof, E. / Romby, P. / Ebel, J.-P. / Giege, R. #4: Journal: J.Mol.Biol. / Year: 1985 Title: Crystallographic Refinement of Yeast Aspartic Acid Transfer RNA Authors: Westhof, E. / Dumas, P. / Moras, D. #5: Journal: Biochimie / Year: 1985 Title: Crystal Structure of Yeast T-RNA-ASP. Atomic Coordinates Authors: Dumas, P. / Ebel, J.P. / Giege, R. / Moras, D. / Thierry, J.C. / Westhof, E. #6: Journal: J.Biomol.Struct.Dyn. / Year: 1983 Title: Loop Stereochemistry and Dynamics in Transfer RNA Authors: Westhof, E. / Dumas, P. / Moras, D. #7: Journal: Nature / Year: 1980 Title: Crystal Structure of Yeast T-RNA-ASP Authors: Moras, D. / Comarmond, M.B. / Fischer, J. / Weiss, R. / Thierry, J.C. / Ebel, J.P. / Giege, R. #8: Journal: J.Mol.Biol. / Year: 1977 Title: Yeast Transfer RNA-ASP. A New High-Resolution X-Ray Diffracting Crystal Form of a Transfer RNA Authors: Giege, R. / Moras, D. / Thierry, J.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2tra.cif.gz | 59.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2tra.ent.gz | 41.6 KB | Display | PDB format |
PDBx/mmJSON format | 2tra.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tr/2tra ftp://data.pdbj.org/pub/pdb/validation_reports/tr/2tra | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: RNA chain | Mass: 24181.369 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) |
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#2: Chemical | ChemComp-SPM / |
#3: Chemical | ChemComp-MG / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.21 Å3/Da / Density % sol: 61.66 % |
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Crystal grow | *PLUS Method: unknown |
-Processing
Software | Name: NUCLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 3→10 Å / σ(F): 2 /
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Refinement step | Cycle: LAST / Resolution: 3→10 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 3 Å / Lowest resolution: 10 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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