moddeling and dissect spatial structures of nucleic acids
Commonly used fiber models
| Description | Twist | Rise | Action |
|---|---|---|---|
| RNA (generic sequence: A, C, G, U) | 32.7 | 2.548 | |
| A-DNA (generic sequence: A, C, G, T) | 32.7 | 2.548 | |
| B-DNA (generic sequence: A, C, G, T) | 36.0 | 3.375 | |
| C-DNA (generic sequence: A, C, G, T) | 40.0 | 3.32 | |
| Pauling triplex model (generic sequence: A, C, G, T, U) | 105.0 | 3.40 | |
| poly(I) : poly(I) : poly(I) : poly(I) | 31.3 | 3.410 |
Full list of available fiber models
| Index | Description | Twist | Rise | Action |
|---|---|---|---|---|
| 1 | A-DNA (calf thymus; generic sequence: A, C, G and T) | 32.7 | 2.548 | |
| 2 | A-DNA poly d(ABr5U) : poly d(ABr5U) | 65.5 | 5.095 | |
| 3 | A-DNA (calf thymus) poly d(A1T2C3G4G5A6A7T8G9G10T11) | 0.0 | 28.030 | |
| 4 | B-DNA (calf thymus; generic sequence: A, C, G and T) | 36.0 | 3.375 | |
| 5 | B-DNA poly d(CG) : poly d(CG) | 72.0 | 6.720 | |
| 6 | B-DNA (calf thymus) poly d(C1C2C3C4C5) : poly d(G6G7G8G9G10) | 180.0 | 16.864 | |
| 7 | C-DNA (calf thymus; generic sequence: A, C, G and T) | 38.6 | 3.310 | |
| 8 | C-DNA poly d(GGT) : poly d(ACC) | 40.0 | 3.312 | |
| 9 | C-DNA poly d(G1G2T3) : poly d(A4C5C6) | 120.0 | 9.937 | |
| 10 | C-DNA poly d(AG) : poly d(CT) | 80.0 | 6.467 | |
| 11 | C-DNA poly d(A1G2) : poly d(C3T4) | 80.0 | 6.467 | |
| 12 | D-DNA poly d(AAT) : poly d(ATT) | 45.0 | 3.013 | |
| 13 | D-DNA poly d(CI) : poly d(CI) | 90.0 | 6.125 | |
| 14 | D-DNA poly d(A1T2A3T4A5T6) : poly d(A1T2A3T4A5T6) | -90.0 | 18.500 | |
| 15 | Z-DNA poly d(GC) : poly d(GC) | -60.0 | 7.250 | |
| 16 | Z-DNA poly d(As4T) : poly d(As4T) | -51.4 | 7.571 | |
| 17 | L-DNA (calf thymus) poly d(GC) : poly d(GC) | 0.0 | 10.200 | |
| 18 | B'-DNA alpha poly d(A) : poly d(T) (H-DNA) | 36.0 | 3.230 | |
| 19 | B'-DNA beta2 poly d(A) : poly d(T) (H-DNA beta) | 36.0 | 3.233 | |
| 20 | A-RNA poly (A) : poly (U) | 32.7 | 2.812 | |
| 21 | A'-RNA poly (I) : poly (C) | 30.0 | 3.000 | |
| 22 | Hybrid poly (A) : poly d(T) | 32.7 | 2.560 | |
| 23 | Hybrid poly d(G) : poly (C) | 32.0 | 2.780 | |
| 24 | Hybrid poly d(I) : poly (C) | 36.0 | 3.130 | |
| 25 | Hybrid poly d(A) : poly (U) | 32.7 | 3.060 | |
| 26 | 10-fold poly (X) : poly (X) | 36.0 | 3.010 | |
| 27 | 11-fold poly (X) : poly (X) | 32.7 | 2.518 | |
| 28 | poly (s2U) : poly (s2U) (symmetric base-pair) | 32.7 | 2.596 | |
| 29 | poly (s2U) : poly (s2U) (asymmetric base-pair) | 32.7 | 2.596 | |
| 30 | poly d(C) : poly d(I) : poly d(C) | 32.7 | 3.160 | |
| 31 | poly d(T) : poly d(A) : poly d(T) | 30.0 | 3.260 | |
| 32 | poly (U) : poly (A) : poly(U) (11-fold) | 32.7 | 3.040 | |
| 33 | poly (U) : poly (A) : poly(U) (12-fold) | 30.0 | 3.040 | |
| 34 | poly (I) : poly (A) : poly(I) | 30.0 | 3.290 | |
| 35 | poly(I) : poly(I) : poly(I) : poly(I) | 31.3 | 3.410 | |
| 36 | poly (C) or poly (mC) or poly (eC) | 60.0 | 3.155 | |
| 37 | B'-DNA beta2 poly d(A) : poly d(U) | 36.0 | 3.200 | |
| 38 | B'-DNA beta1 poly d(A) : poly d(T) | 36.0 | 3.240 | |
| 39 | B'-DNA beta2 poly d(AI) : poly d(CT) | 72.0 | 6.480 | |
| 40 | B'-DNA beta1 poly d(AI) : poly d(CT) | 72.0 | 6.460 | |
| 41 | B'-DNA poly d(AATT) : poly d(AATT) | 144.0 | 13.540 | |
| 42 | poly(U) : poly d(A) : poly(U) [cf. #32] | 32.7 | 3.040 | |
| 43 | Beta poly d(A) : poly d(U) [cf. #37] | 36.0 | 3.200 | |
| 44 | poly d(A) : poly d(T) (Ca salt) | 36.0 | 3.233 | |
| 45 | poly d(A) : poly d(T) (Na salt) | 36.0 | 3.233 | |
| 46 | B-DNA (BI-type nucleotides; generic sequence: A, C, G and T) | 36.0 | 3.38 | |
| 47 | C-DNA (BII-type nucleotides; generic sequence: A, C, G and T) | 40.0 | 3.32 | |
| 48 | D(A)-DNA poly d(AT) : poly d(AT) (right-handed) | 87.8 | 6.02 | |
| 49 | S-DNA poly d(CG) : poly d(CG) (C_BG_A, right-handed) | 60.0 | 7.20 | |
| 50 | S-DNA poly d(GC) : poly d(GC) (C_AG_B, right-handed) | 60.0 | 7.20 | |
| 51 | B*-DNA poly d(A) : poly d(T) | 31.6 | 3.22 | |
| 52 | D(B)-DNA poly d(AT) : poly d(AT) [cf. #48] | 90.0 | 6.06 | |
| 53 | C-DNA (generic sequence: A, C, G and T) (depreciated) | -38.7 | 3.29 | |
| 54 | A-DNA (generic sequence: A, C, G and T) [cf. #1] | 32.73 | 2.56 | |
| 55 | B-DNA (generic sequence: A, C, G and T) [cf. #4] | 36.0 | 3.39 | |
| 56 | Pauling triplex model (generic sequence: A, C, G, T, U) | 105.0 | 3.40 |