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Yorodumi- PDB-2lb4: DNA / RNA Hybrid containing a central stereo specific Sp borano p... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2lb4 | ||||||
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Title | DNA / RNA Hybrid containing a central stereo specific Sp borano phosphate linkage | ||||||
Components |
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Keywords | DNA/RNA / nucleic acid heteroduplex / RNase H1 activity / DNA-RNA complex | ||||||
Function / homology | DNA / RNA Function and homology information | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Model details | structure with lowest restraint violations, model 1 | ||||||
Authors | Johnson, C.N. / Spring, A.M. / Shaw, B.R. / Germann, M.W. | ||||||
Citation | Journal: Biochemistry / Year: 2011 Title: Structural Basis of the RNase H1 Activity on Stereo Regular Borano Phosphonate DNA/RNA Hybrids. Authors: Johnson, C.N. / Spring, A.M. / Sergueev, D. / Shaw, B.R. / Germann, M.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2lb4.cif.gz | 22.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2lb4.ent.gz | 12.9 KB | Display | PDB format |
PDBx/mmJSON format | 2lb4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2lb4_validation.pdf.gz | 334.7 KB | Display | wwPDB validaton report |
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Full document | 2lb4_full_validation.pdf.gz | 339.3 KB | Display | |
Data in XML | 2lb4_validation.xml.gz | 2.7 KB | Display | |
Data in CIF | 2lb4_validation.cif.gz | 2.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lb/2lb4 ftp://data.pdbj.org/pub/pdb/validation_reports/lb/2lb4 | HTTPS FTP |
-Related structure data
Related structure data | 2larC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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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: DNA chain | Mass: 2743.637 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: RNA chain | Mass: 2854.782 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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-Sample preparation
Details |
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Sample |
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Sample conditions | Ionic strength: 50 / pH: 7.0 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 1 | ||||||||||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: structure with lowest restraint violations | ||||||||||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structure with lowest restraint violations Conformers calculated total number: 10 / Conformers submitted total number: 1 |