+Open data
-Basic information
Entry | Database: PDB / ID: 1jrw | ||||||
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Title | Solution Structure of dAATAA DNA Bulge | ||||||
Components |
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Keywords | DNA / DNA BULGE / five-nucleotide bulge loop / deoxyribonucleic acid | ||||||
Function / homology | DNA / DNA (> 10) Function and homology information | ||||||
Method | SOLUTION NMR / matrix relaxation; torsion angle dynamics; energy minimization | ||||||
Model type details | minimized average | ||||||
Authors | Gollmick, F.A. / Lorenz, M. / Dornberger, U. / von Langen, J. / Diekmann, S. / Fritzsche, H. | ||||||
Citation | Journal: Nucleic Acids Res. / Year: 2002 Title: Solution structure of dAATAA and dAAUAA DNA bulges. Authors: Gollmick, F.A. / Lorenz, M. / Dornberger, U. / von Langen, J. / Diekmann, S. / Fritzsche, H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1jrw.cif.gz | 27.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1jrw.ent.gz | 18.1 KB | Display | PDB format |
PDBx/mmJSON format | 1jrw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1jrw_validation.pdf.gz | 242.9 KB | Display | wwPDB validaton report |
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Full document | 1jrw_full_validation.pdf.gz | 242.6 KB | Display | |
Data in XML | 1jrw_validation.xml.gz | 1.6 KB | Display | |
Data in CIF | 1jrw_validation.cif.gz | 1.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jr/1jrw ftp://data.pdbj.org/pub/pdb/validation_reports/jr/1jrw | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: DNA chain | Mass: 5220.412 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: DNA chain | Mass: 3663.392 Da / Num. of mol.: 1 / Source method: obtained synthetically |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: THE FINAL AVERAGE STRUCTURE WAS OBTAINED BY COORDINATE AVERAGING OF THE FINAL ENSEMBLE OF STRUCTURES, FOLLOWED BY RESTRAINED ENERGY MINIMIZATION. This structure was determined using standard 2D ...Text: THE FINAL AVERAGE STRUCTURE WAS OBTAINED BY COORDINATE AVERAGING OF THE FINAL ENSEMBLE OF STRUCTURES, FOLLOWED BY RESTRAINED ENERGY MINIMIZATION. This structure was determined using standard 2D homonuclear and heteronuclear techniques. |
-Sample preparation
Details |
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Sample conditions | Ionic strength: 100mm Na+ / pH: 7 / Pressure: ambient / Temperature: 300 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | ||||||||||||||||||||
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Radiation wavelength | Relative weight: 1 | ||||||||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: matrix relaxation; torsion angle dynamics; energy minimization Software ordinal: 1 Details: the structures are based on a total of 906 restraints, 645 are NOE-derived distance constraints, 235 dihedral angle restraints, 26 distance restraints from hydrogen bonds. | ||||||||||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||||||||||
NMR ensemble | Conformers submitted total number: 1 |