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Open data
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Basic information
Entry | Database: PDB / ID: 5oga | ||||||||||||||||||||
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Title | Structure of minimal i-motif domain | ||||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / i-motif / DNA non-canonical structure / minor groove tetrad | Function / homology | DNA / DNA (> 10) | ![]() Biological species | synthetic construct (others) | Method | SOLUTION NMR / simulated annealing | ![]() Mir, B. / Serrano, I. / Buitrago, D. / Orozco, M. / Escaja, N. / Gonzalez, C. | ![]() ![]() Title: Prevalent Sequences in the Human Genome Can Form Mini i-Motif Structures at Physiological pH. Authors: Mir, B. / Serrano, I. / Buitrago, D. / Orozco, M. / Escaja, N. / Gonzalez, C. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 135.2 KB | Display | ![]() |
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PDB format | ![]() | 109.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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NMR ensembles |
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Components
#1: DNA chain | Mass: 6275.114 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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Sample preparation
Details | Type: solution / Contents: 0.5 mM LL3, 90% H2O/10% D2O / Label: LL3 / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.5 mM / Component: LL3 / Isotopic labeling: none |
Sample conditions | Ionic strength: 10 mM NaPi mM / Label: LL3 / pH: 7 / Pressure: 1 atm / Temperature: 278 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 600 MHz |
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Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 5 | ||||||||||||||||||
NMR representative | Selection criteria: null | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 10 / Conformers submitted total number: 10 |