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Yorodumi- PDB-6tna: CRYSTAL STRUCTURE OF YEAST PHENYLALANINE T-RNA. I.CRYSTALLOGRAPHI... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6tna | ||||||||||||
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Title | CRYSTAL STRUCTURE OF YEAST PHENYLALANINE T-RNA. I.CRYSTALLOGRAPHIC REFINEMENT | ||||||||||||
Components | TRNAPHE | ||||||||||||
Keywords | T-RNA / SINGLE STRAND / LOOPS | ||||||||||||
Function / homology | RNA / RNA (> 10) Function and homology information | ||||||||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||||||||
Method | X-RAY DIFFRACTION / Resolution: 2.7 Å | ||||||||||||
Authors | Sussman, J.L. / Holbrook, S.R. / Warrant, R.W. / Church, G.M. / Kim, S.-H. | ||||||||||||
Citation | Journal: J.Mol.Biol. / Year: 1978 Title: Crystal structure of yeast phenylalanine transfer RNA. I. Crystallographic refinement. Authors: Sussman, J.L. / Holbrook, S.R. / Warrant, R.W. / Church, G.M. / Kim, S.H. #1: Journal: J.Mol.Biol. / Year: 1978 Title: Crystal Structure of Yeast Phenylalanine T-RNA. II.Structural Features and Functional Implications Authors: Holbrook, S.R. / Sussman, J.L. / Warrant, R.W. / Kim, S.-H. #2: Journal: Adv.Enzymol.Relat.Areas Mol.Biol. / Year: 1978 Title: Three Dimensional Structure of T-RNA and Its Functional Implications Authors: Kim, S.-H. #3: Journal: Sci.Am. / Year: 1978 Title: The Three-Dimensional Structure of Transfer RNA Authors: Rich, A. / Kim, S.H. #4: Journal: Transfer RNA / Year: 1978 Title: Crystal Structure of Yeast Phenylalanine T-RNA, Its Correlation to the Solution Structure and the Functional Implications Authors: Kim, S.-H. #5: Journal: Nucleic Acids Res. / Year: 1977 Title: RNA-Ligand Interactions. (1) Magnesium Binding Sites in Yeast T-RNA-PHE Authors: Holbrook, S.R. / Sussman, J.L. / Warrant, R.W. / Church, G.M. / Kim, S.-H. #6: Journal: Biochem.Biophys.Res.Commun. / Year: 1976 Title: Idealized Atomic Coordinates of Yeast Phenylalanine Transfer RNA Authors: Sussman, J.L. / Kim, S.-H. #7: Journal: Science / Year: 1976 Title: Three-Dimensional Structure of a Transfer RNA in Two Crystal Forms Authors: Sussman, J.L. / Kim, S.-H. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6tna.cif.gz | 56.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6tna.ent.gz | 37.8 KB | Display | PDB format |
PDBx/mmJSON format | 6tna.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6tna_validation.pdf.gz | 351.3 KB | Display | wwPDB validaton report |
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Full document | 6tna_full_validation.pdf.gz | 372 KB | Display | |
Data in XML | 6tna_validation.xml.gz | 7.2 KB | Display | |
Data in CIF | 6tna_validation.cif.gz | 9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tn/6tna ftp://data.pdbj.org/pub/pdb/validation_reports/tn/6tna | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: RNA chain | Mass: 24890.121 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-MG / #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.99 Å3/Da / Density % sol: 58.84 % |
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Crystal grow | *PLUS Method: other / Details: Kim, S.H., (1971) Proc.Natl.Acad.Sci.USA, 68, 841. |
-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.7 Å / Num. all: 8741 / Num. obs: 8426 / % possible obs: 96.4 % / Observed criterion σ(F): 2 / Rmerge(I) obs: 0.39 |
-Processing
Software | Name: CORELS / Classification: refinement | ||||||||||||
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Refinement | Highest resolution: 2.7 Å /
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Refinement step | Cycle: LAST / Highest resolution: 2.7 Å
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Refinement | *PLUS Highest resolution: 2.7 Å | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |