Table 1 FRET efficiency of target capture complex and strand transfer complex

From: DNA strand breaks and gaps target retroviral intasome binding and integration

Target DNA

ETCC ± σTCC

ESTC ± σSTC

GC

–

0.54 ± 0.06

G/T

–

0.32 ± 0.08

Nick (5’-P)

0.15 ± 0.08

0.27 ± 0.04, 0.10 ± 0.04

1nt Gap (5’-P)

0.16 ± 0.05

0.16 ± 0.05

2nt Gap (5’-P)

0.18 ± 0.10

0.21 ± 0.05

Nick (5’-OH)

0.17 ± 0.07

0.17 ± 0.05

1nt Gap (5’-OH)

0.19 ± 0.05

0.18 ± 0.05

2nt Gap (5’-OH)

0.23 ± 0.11

0.24 ± 0.05

Cy3-PFV-ddA

1nt Gap (5’-OH)

0.15 ± 0.05

-

Blocked-end Target DNA

1nt Gap (5’-OH)

0.18 ± 0.05

0.19 ± 0.05

R-Cy5 Target DNA

  

1nt Gap (5’-OH)

0.21 ± 0.10

0.29 ± 0.06

  1. Wild type Cy3-PFV or Cy3-PFV-ddA intasome interaction with Target DNA substrates labeled with Cy5 and Alexa488 (see: Supplementary Table 1). FRET values were calculated as described (Methods) by fitting Target Capture Complex (TCC) and Strand Transfer Complex (STC) FRET distributions with a single or two [Nick (5’P) ESTC] Gaussian distributions. E and σ indicate the mean and standard deviation, respectively.
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