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Open data
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Basic information
Entry | Database: PDB / ID: 5odm | |||||||||||||||||||||||
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Title | NtiPr polyamide in complex with 5'CGATGTACTACG3 | |||||||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / minor groove binders- hairpin polyamides | Function / homology | Chem-9T8 / 5-propan-2-yl-1,3-thiazole-4-carbaldehyde / GAMMA-AMINO-BUTANOIC ACID / 4-AMINO-(1-METHYLIMIDAZOLE)-2-CARBOXYLIC ACID / 4-AMINO-(1-METHYLPYRROLE)-2-CARBOXYLIC ACID / DNA / DNA (> 10) | ![]() Biological species | ![]() Method | SOLUTION NMR / molecular dynamics / matrix relaxation | ![]() Padroni, G. / Parkinson, J. / Burley, G.A. | ![]() ![]() Title: Structural basis of DNA duplex distortion induced by thiazole-containing hairpin polyamides. Authors: Padroni, G. / Parkinson, J.A. / Fox, K.R. / Burley, G.A. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 193.9 KB | Display | ![]() |
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PDB format | ![]() | 156.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Summary document | ![]() | 428.8 KB | Display | ![]() |
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Full document | ![]() | 520.8 KB | Display | |
Data in XML | ![]() | 13 KB | Display | |
Data in CIF | ![]() | 19.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5oczC ![]() 5odfC ![]() 5oe1C C: citing same article ( |
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Similar structure data | |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
-DNA chain , 1 types, 2 molecules AB
#1: DNA chain | Mass: 3582.424 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) ![]() |
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-Non-polymers , 5 types, 10 molecules ![](data/chem/img/9U2.gif)
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![](data/chem/img/PYB.gif)
![](data/chem/img/ABU.gif)
![](data/chem/img/IMT.gif)
![](data/chem/img/9T8.gif)
#2: Chemical | ChemComp-9U2 / | ||||||
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#3: Chemical | ChemComp-PYB / #4: Chemical | ChemComp-ABU / | #5: Chemical | ChemComp-IMT / | #6: Chemical | ChemComp-9T8 / | |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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Sample preparation
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Sample |
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Sample conditions | Ionic strength: 100 phosphate mM / Label: Standard / pH: 7.4 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 600 MHz |
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Processing
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Refinement |
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NMR ensemble | Conformer selection criteria: clustering / Conformers calculated total number: 2000 / Conformers submitted total number: 10 |