Table 1 Summary of ACCORD results in comparison with the results of LOGICOIL prediction.
From: ACCORD: an assessment tool to determine the orientation of homodimeric coiled-coils
Gene (Origin) | Residues | CC length (Å) | 1st prediction* (score) | 2nd prediction* (score) | MW of Fusion protein/CC (kDa)** | MALS (kDa) | Oligomer (ACCORD) | PDB (ref) |
|---|---|---|---|---|---|---|---|---|
SspB (E. coli) | M1–K165 | — | — | — | 18.3 | — | — | 1OX8 (ref. 32) |
Parallel (Para) | ||||||||
GCN4 (S. cerevisiae) | R249–R281 | 49.7 | Para dimer (1.25) | Anti dimer (0.97) | 23.4/4.0 | 58.8 | Dimer | 2ZTA7 |
APC (H. sapiens) | A2–I55 | 81.7 | Para dimer (1.32) | Trimer (1.19) | 25.5/6.1 | 59.0 | Dimer | 1DEB45 |
Atg16 (S. cerevisiae) | V58–R130 | 89.2 | Para dimer (1.37) | Anti dimer (0.89) | 27.8/8.4 | 64.0 | Dimer | 3A7O*** |
SCOC (H. sapiens) | M78–K159 | 89.8 | Trimer (1.11) | Anti dimer (1.03) | 28.8/9.4 | 86.2 | Dimer | 4BWD46 |
LRRFIP1 (H. sapiens) | D162–E249 | 124.4 | Para dimer (1.14) | Anti dimer (0.97) | 30.0/10.6 | 71.8 | Dimer | 4H22 (ref. 47) |
Ndel1 (R. norvegicus) | D8–D99 | 134.6 | Para dimer (1.14) | Anti dimer (0.97) | 30.4/11.0 | 70.0 | Dimer | 2V71 (ref. 48) |
TPM1 (G. gallus) | M1–E98 | 154.0 | Para dimer (1.05) | Tetramer (1.04) | 30.6/11.2 | 64.6 | Dimer | 3U1A49 |
ROCK1 (H. sapiens) | L535–K709 | 225.7 | Tetramer (1.12) | Anti dimer (1.02) | 40.0/20.6 | 95.9 | Dimer | 3O0Z34 |
Antiparallel (Anti) | ||||||||
MDV1 (S. cerevisiae) | Q231–G300 | 89.9 | Tetramer (1.08) | Anti dimer (1.03) | 27.6/8.2 | 65.2/107.1 | Dimer/tetramer | 2XU6 (ref. 43) |
Mfn1 (M. musculus) | F660–H735 | 91.0 | Tetramer (1.21) | Anti dimer (1.0) | 28.2/8.8 | 90.0 | Tetramer | 1T3J50 |
LMNA (H. sapiens) | A328–S398 | 91.1 | Tetramer (1.11) | Para dimer (1.09) | 27.9/8.5 | — | Aggregation | 2XV5 (ref. 51) |
BECN1 (H. sapiens) | E174–K266 | 139.6 | Anti dimer (1.03) | Tetramer (1.02) | 30.7/11.3 | 138.0 | Tetramer | 3Q8T44 |
TRIM25 (H. sapiens) | A194–Q356 | 164.0 | Tetramer (1.15) | Para dimer (1.03) | 38.4/18.8 | 119.3 | Tetramer | 4CFG*** |
TRIM5 (M. mulatta) | M133–L241 | 169.8 | Trimer (1.16) | Tetramer (1.14) | 32.6/13.2 | — | Aggregation | 4TN3 (ref. 52) |
Prediction | ||||||||
NDP52 (H. sapiens) | E141–E334 | — | Para dimer (1.24) | Tetramer (1.06) | 42.6/23.2 | 102.5 (2.4) | Dimer | **** |
