Home / Optical tweezers / ssDNA Gap construct
17.9 kb DNA with two nicks 5 kb apart. Stretch it to open a 5 kb ssDNA gap between two dsDNA arms.
One Atto dye marks the gap junction: L = 3' end or R = 5' end.
Fluorophore: L – Atto647N · R – Atto565, both in stock for next-day shipment
Other dye? Ask for your fluorophore of choice →
Per vial: ≥ 20 C-Trap runs
$450
| Length | 17,853 bp |
|---|---|
| Structure | Two nicks on the same strand, 5,005 nt apart. Stretching in low-salt buffer releases the fragment between them, leaving a 5,005 nt ssDNA gap (bp 6,453–11,457) between 6,452 bp and 6,396 bp dsDNA arms |
| End labels | 3× biotin at each end |
| Dye position | L: 3′ ss/ds junction, 177 bp from the junction, on the 6,452 bp arm R: 5′ ss/ds junction, 121 bp from the junction, on the 6,396 bp arm |
| Fluorophores | In stock: L – Atto647N (Ex/Em 646/664 nm), R – Atto565 (Ex/Em 563/592 nm) On request: Atto488, Atto565 or Atto647N in either configuration |
| Per vial | ≥ 20 C-Trap runs |
| Concentration | 20 ng/µl |
| Volume | 30 µl |
| Storage | 4 °C |
| Gap conversion | >60 % of tethered molecules under optimal conditions |
| Buffers (not supplied) | Tethering, channels 1–2: 10 mM Tris-HCl pH 8.0, 50 mM NaCl, 0.1 mM EDTA (optional) Conversion, channel 3: 10 mM Tris-HCl pH 8.0, 5 mM NaCl, 0.1 mM EDTA (optional) |
| Price | $450 |
1 C-Trap run = 1.5 µl of construct in 500 µl of tethering buffer (channel 2).
A 17,853 bp DNA construct for optical tweezers, carrying two nicks on the same strand, 5,005 nt apart. Use it as supplied to study nick recognition and repair (PARP1, XRCC1, Pol β, FEN1, LIG1/LIG3), or stretch it to open a 5,005 nt ssDNA gap between two double-stranded handles to study replication, unwinding, resection, nuclease activity and homologous recombination on a single molecule. Track helicases (BLM, WRN, UvrD, PIF1, CMG), nucleases (EXO1, DNA2, MRE11), clamp loading and synthesis (RFC, PCNA, Pol δ, Pol ε), recombinases and mediators (RPA, RAD51, BRCA2), damage signaling (ATR–ATRIP, 9-1-1). Available with a choice of Atto dye on either handle.