Table 1. Structural characteristics of the reporter constructs
| Construct |
Helix axisa |
Rotational orientationb (°) |
Distancec (bp) |
|
| pST0/TLN |
Straight |
– |
131 |
| pST0/TLN-7 |
Straight |
– |
124 |
| pST0/TLN-10 |
Straight |
– |
121 |
| pST0/TLN-17 |
Straight |
– |
114 |
| pST0/TLN-21 |
Straight |
– |
110 |
| pST0/TLN+46 |
Straight |
– |
177 |
| pST0/TLN+87 |
Straight |
– |
218 |
| pST4/TLN |
Straight (zigzag) |
– |
131 |
| pST4/TLN-6 |
Straight (zigzag) |
– |
125 |
| pST4/TLN-10 |
Straight (zigzag) |
– |
121 |
| pST4/TLN-16 |
Straight (zigzag) |
– |
115 |
| pST4/TLN-20 |
Straight (zigzag) |
– |
111 |
| pST4/TLN+47 |
Straight (zigzag) |
– |
178 |
| pST4/TLN+89 |
Straight (zigzag) |
– |
220 |
| pLHC4/TLN |
Left-handedly curved |
–17.1 |
131 |
| pLHC4/TLN-6 |
Left-handedly curved |
137.1 |
125 |
| pLHC4/TLN-10 |
Left-handedly curved |
0 |
121 |
| pLHC4/TLN-16 |
Left-handedly curved |
154.3 |
115 |
| pLHC4/TLN-20 |
Left-handedly curved |
17.1 |
111 |
| pLHC4/TLN+47 |
Left-handedly curved |
154.3 |
178 |
| pLHC4/TLN+89 |
Left-handedly curved |
154.3 |
220 |
| pTDC4/TLN |
Two-dimensionally curved |
34.3 |
131 |
| pTDC4/TLN-7 |
Two-dimensionally curved |
154.3 |
124 |
| pTDC4/TLN-10 |
Two-dimensionally curved |
51.4 |
121 |
| pTDC4/TLN-17 |
Two-dimensionally curved |
171.4 |
114 |
| pTDC4/TLN-21 |
Two-dimensionally curved |
34.3 |
110 |
| pTDC4/TLN+47 |
Two-dimensionally curved |
–154.3 |
178 |
| pTDC4/TLN+89 |
Two-dimensionally curved |
–154.3 |
220 |
| pRHC4/TLN |
Right-handedly curved |
137.1 |
131 |
| pRHC4/TLN-7 |
Right-handedly curved |
–102.9 |
124 |
| pRHC4/TLN-10 |
Right-handedly curved |
154.3 |
121 |
| pRHC4/TLN-17 |
Right-handedly curved |
–85.7 |
114 |
| pRHC4/TLN-21 |
Right-handedly curved |
137.1 |
110 |
| pRHC4/TLN+47 |
Right-handedly curved |
–51.4 |
178 |
| pRHC4/TLN+89 |
Right-handedly curved |
–51.4 |
220 |
| |
aTrajectory of the helical axis of the curved DNA or straight DNA region.
bThe rotational angle of the curved DNA center relative to the center of the TATA box. The angle is calculated as [(D/10.5) – n]360, where D is the distance between the centers (bp) and n is the integer nearest to the value of D/10.5. The minus sign corresponds to the leftwards rotation relative to the center of the TATA box.
cDistance between the center of the TATA box and the nucleotide at the downstream end of the synthetic curved DNA or straight DNA.
