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- SASDBD6: Single stranded poly-deoxythymidine DNA (30mer, dT30) -

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Basic information

Entry
Database: SASBDB / ID: SASDBD6
SampleSingle stranded poly-deoxythymidine DNA (30mer, dT30)
  • Poly-deoxythymidine (30mer) (DNA), dT30
CitationDate: 2016 Dec 29
Title: Visualizing single-stranded nucleic acids in solution
Authors: Plumridge A / Meisburger S
Contact author
  • Alex Plumridge (Cornell University, Ithaca, NY, United States)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #592
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 1
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #593
Type: dummy / Software: Custom - GAJOE / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 2
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #594
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 3
Chi-square value: 1.142761 / P-value: 0.008000
Model #595
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 4
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #596
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 5
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #597
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 6
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #598
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 7
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #599
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 8
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #600
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 9
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #601
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 10
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #602
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 11
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #603
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 12
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #604
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 13
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #605
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 14
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #607
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 15
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #608
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 16
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #609
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 17
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #610
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 18
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #611
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 19
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)
Model #612
Type: dummy / Software: Custom - GAJOE (GAJOE1.3) / Radius of dummy atoms: 1.90 A
Comment: Custom SAXS model building/fitting method - state 20
Chi-square value: 1.142761 / P-value: 0.008000
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Single stranded poly-deoxythymidine DNA (30mer, dT30) / Specimen concentration: 0.45-1.80
BufferName: 1mM Na MOPS, 20mM NaCl / pH: 7
Entity #399Name: dT30 / Type: DNA / Description: Poly-deoxythymidine (30mer) / Formula weight: 9.064 / Num. of mol.: 1
Sequence:
TTTTTTTTTT TTTTTTTTTT TTTTTTTTTT

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Experimental information

BeamInstrument name: Cornell High Energy Synchrotron Source (CHESS) G1
City: Ithaca, NY / 国: USA / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.111 Å / Dist. spec. to detc.: 1.8 mm
DetectorName: Finger Lakes CCD / Type: CCD
Scan
Title: dT30 / Measurement date: Apr 1, 2016 / Exposure time: 10 sec. / Number of frames: 20 / Unit: 1/A /
MinMax
Q0.01 0.29
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 258 /
MinMax
Q0.013 0.27
P(R) point1 258
R0 107
Result
Type of curve: extrapolated
GuinierGuinier errorP(R)
Forward scattering, I050.22 0.38 -
Radius of gyration, Rg2.96 nm0.03 3.101 nm

MinMax
D-10.7
Guinier point12 35

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