| ParF |
| ID: | 1406283536 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 206 (203) | ||
| Sequences: | 10174 (6891) | ||
| Seq/Len: | 50.118 | ||
| Nf(neff/√len): | 483.7 |
HHblits Results: (2013_03)
Sequences per length for each position, BEFORE the coverage/gap filter was applied
Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 50.118).
Sequences per length for each position, AFTER the coverage/gap filter was applied
Residue pairs sorted by coevolution strength:
Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.
| i | j | Scaled score | Prob |
| 19_V | 80_I | 4.289 | 1.00 |
| 167_T | 193_E | 3.987 | 1.00 |
| 56_D | 76_Y | 3.552 | 1.00 |
| 26_L | 78_F | 3.388 | 1.00 |
| 5_S | 98_S | 3.183 | 1.00 |
| 18_A | 194_I | 3.050 | 1.00 |
| 29_S | 199_K | 2.957 | 1.00 |
| 181_S | 184_E | 2.899 | 1.00 |
| 34_A | 76_Y | 2.838 | 1.00 |
| 31_Y | 78_F | 2.819 | 1.00 |
| 139_R | 168_Q | 2.755 | 1.00 |
| 6_F | 22_I | 2.703 | 1.00 |
| 106_T | 139_R | 2.560 | 1.00 |
| 28_R | 195_E | 2.360 | 1.00 |
| 19_V | 35_V | 2.348 | 1.00 |
| 32_N | 77_D | 2.273 | 1.00 |
| 35_V | 44_L | 2.246 | 1.00 |
| 18_A | 136_L | 2.182 | 1.00 |
| 2_K | 100_L | 2.161 | 1.00 |
| 164_T | 200_E | 2.023 | 1.00 |
| 25_A | 198_T | 1.958 | 1.00 |
| 20_I | 44_L | 1.942 | 1.00 |
| 6_F | 102_I | 1.864 | 1.00 |
| 108_S | 111_D | 1.824 | 1.00 |
| 22_I | 198_T | 1.822 | 1.00 |
| 151_K | 155_K | 1.787 | 1.00 |
| 141_I | 168_Q | 1.771 | 1.00 |
| 5_S | 83_G | 1.760 | 1.00 |
| 26_L | 80_I | 1.753 | 1.00 |
| 23_A | 35_V | 1.704 | 1.00 |
| 136_L | 197_L | 1.704 | 1.00 |
| 25_A | 183_F | 1.693 | 1.00 |
| 171_V | 174_K | 1.685 | 1.00 |
| 6_F | 19_V | 1.680 | 1.00 |
| 18_A | 138_T | 1.674 | 1.00 |
| 23_A | 80_I | 1.668 | 1.00 |
| 163_R | 200_E | 1.654 | 1.00 |
| 3_V | 81_V | 1.648 | 1.00 |
| 46_N | 113_S | 1.640 | 1.00 |
| 164_T | 197_L | 1.619 | 1.00 |
| 188_G | 191_K | 1.600 | 1.00 |
| 151_K | 165_A | 1.587 | 1.00 |
| 31_Y | 77_D | 1.563 | 1.00 |
| 29_S | 195_E | 1.556 | 1.00 |
| 14_G | 138_T | 1.529 | 1.00 |
| 43_S | 110_L | 1.431 | 1.00 |
| 47_W | 110_L | 1.429 | 1.00 |
| 144_A | 147_L | 1.372 | 0.99 |
| 104_P | 138_T | 1.358 | 0.99 |
| 100_L | 134_R | 1.341 | 0.99 |
| 107_P | 137_I | 1.340 | 0.99 |
| 38_T | 81_V | 1.310 | 0.99 |
| 151_K | 154_I | 1.309 | 0.99 |
| 26_L | 198_T | 1.300 | 0.99 |
| 34_A | 79_A | 1.294 | 0.99 |
| 20_I | 47_W | 1.285 | 0.99 |
| 137_I | 151_K | 1.259 | 0.99 |
| 172_Y | 190_A | 1.257 | 0.99 |
| 169_R | 190_A | 1.249 | 0.99 |
| 38_T | 94_A | 1.235 | 0.98 |
| 68_G | 71_K | 1.221 | 0.98 |
| 152_E | 156_D | 1.220 | 0.98 |
| 140_K | 165_A | 1.203 | 0.98 |
| 101_V | 122_L | 1.186 | 0.98 |
| 106_T | 111_D | 1.180 | 0.98 |
| 32_N | 75_D | 1.179 | 0.98 |
| 23_A | 44_L | 1.178 | 0.98 |
| 192_G | 195_E | 1.173 | 0.98 |
| 36_V | 79_A | 1.165 | 0.97 |
| 174_K | 178_D | 1.156 | 0.97 |
| 102_I | 136_L | 1.148 | 0.97 |
| 3_V | 79_A | 1.147 | 0.97 |
| 21_N | 24_T | 1.126 | 0.97 |
| 18_A | 22_I | 1.120 | 0.96 |
| 186_S | 191_K | 1.119 | 0.96 |
| 196_I | 199_K | 1.114 | 0.96 |
| 189_A | 192_G | 1.107 | 0.96 |
| 110_L | 176_I | 1.095 | 0.96 |
| 137_I | 140_K | 1.088 | 0.96 |
| 27_S | 54_A | 1.087 | 0.96 |
| 22_I | 201_I | 1.086 | 0.96 |
| 120_T | 123_E | 1.080 | 0.95 |
| 10_K | 15_K | 1.077 | 0.95 |
| 76_Y | 79_A | 1.077 | 0.95 |
| 108_S | 173_V | 1.074 | 0.95 |
| 6_F | 18_A | 1.070 | 0.95 |
| 2_K | 99_D | 1.056 | 0.95 |
| 6_F | 80_I | 1.052 | 0.95 |
| 153_S | 156_D | 1.051 | 0.94 |
| 21_N | 183_F | 1.050 | 0.94 |
| 170_Q | 174_K | 1.034 | 0.94 |
| 197_L | 201_I | 1.030 | 0.94 |
| 66_V | 70_R | 1.026 | 0.94 |
| 27_S | 55_F | 1.025 | 0.93 |
| 4_I | 78_F | 1.021 | 0.93 |
| 138_T | 194_I | 1.010 | 0.93 |
| 149_V | 152_E | 1.008 | 0.93 |
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
- Text file of contact predictions (all 3L/2 predictions)
- Generate restraints for ROSETTA Structure Modeling
- Import to GREMLIN BETA - features includes ability to upload PDB and latest P(contact) calculation based on eLife 2015 fitting to PDB data.
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
| PDB | M | Cov | P(%) | HHΔ | |
| 4dzzA | 2 | 1 | 100 | 0.177 | Contact Map |
| 4pfsA | 2 | 0.9223 | 100 | 0.221 | Contact Map |
| 1wcv1 | 1 | 1 | 100 | 0.243 | Contact Map |
| 3kjhA | 1 | 0.9515 | 100 | 0.244 | Contact Map |
| 3q9lA | 2 | 0.9951 | 100 | 0.249 | Contact Map |
| 3cwqA | 2 | 0.9466 | 100 | 0.252 | Contact Map |
| 1g3qA | 1 | 0.966 | 100 | 0.254 | Contact Map |
| 3ez2A | 2 | 0.9951 | 100 | 0.26 | Contact Map |
| 3ez9A | 2 | 0.8301 | 100 | 0.262 | Contact Map |
| 3ea0A | 2 | 0.9612 | 100 | 0.27 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)