| zip2 |
| ID: | 1491314409 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 309 (289) | ||
| Sequences: | 5627 (3354.7) | ||
| Seq/Len: | 19.471 | ||
| Nf(neff/√len): | 197.3 |
HHblits Results: (2016_02)
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: 19.471).
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 |
| 181_L | 242_G | 3.050 | 1.00 |
| 177_V | 238_G | 2.674 | 1.00 |
| 115_F | 264_V | 2.639 | 1.00 |
| 47_L | 294_C | 2.593 | 1.00 |
| 51_I | 301_F | 2.349 | 1.00 |
| 68_A | 263_G | 2.349 | 1.00 |
| 61_F | 270_L | 2.222 | 1.00 |
| 109_I | 270_L | 2.145 | 1.00 |
| 113_F | 274_F | 1.996 | 1.00 |
| 108_I | 260_V | 1.891 | 1.00 |
| 173_S | 234_M | 1.882 | 1.00 |
| 65_T | 109_I | 1.831 | 1.00 |
| 12_L | 239_L | 1.830 | 1.00 |
| 20_L | 229_L | 1.827 | 1.00 |
| 226_F | 230_L | 1.803 | 1.00 |
| 58_G | 62_M | 1.799 | 1.00 |
| 63_H | 302_M | 1.789 | 1.00 |
| 203_K | 207_V | 1.746 | 1.00 |
| 59_A | 63_H | 1.727 | 1.00 |
| 117_F | 121_S | 1.680 | 1.00 |
| 113_F | 296_A | 1.645 | 1.00 |
| 9_L | 13_F | 1.633 | 1.00 |
| 68_A | 105_G | 1.586 | 1.00 |
| 172_L | 179_E | 1.583 | 1.00 |
| 222_R | 226_F | 1.543 | 1.00 |
| 206_V | 210_V | 1.531 | 1.00 |
| 69_L | 106_E | 1.523 | 1.00 |
| 256_L | 260_V | 1.501 | 1.00 |
| 210_V | 231_L | 1.492 | 1.00 |
| 296_A | 300_A | 1.483 | 1.00 |
| 175_H | 179_E | 1.480 | 1.00 |
| 56_F | 269_F | 1.477 | 1.00 |
| 274_F | 278_L | 1.463 | 1.00 |
| 193_V | 197_L | 1.452 | 1.00 |
| 298_G | 302_M | 1.440 | 1.00 |
| 186_Q | 195_L | 1.421 | 1.00 |
| 253_G | 257_A | 1.380 | 0.99 |
| 57_L | 295_V | 1.368 | 0.99 |
| 207_V | 228_I | 1.368 | 0.99 |
| 207_V | 210_V | 1.367 | 0.99 |
| 108_I | 263_G | 1.359 | 0.99 |
| 57_L | 273_T | 1.336 | 0.99 |
| 203_K | 206_V | 1.334 | 0.99 |
| 108_I | 112_G | 1.324 | 0.99 |
| 220_S | 223_W | 1.315 | 0.99 |
| 69_L | 105_G | 1.303 | 0.99 |
| 242_G | 245_V | 1.286 | 0.99 |
| 102_Y | 107_L | 1.285 | 0.99 |
| 278_L | 282_L | 1.277 | 0.99 |
| 169_L | 227_S | 1.272 | 0.99 |
| 119_L | 174_F | 1.271 | 0.99 |
| 304_F | 308_W | 1.269 | 0.99 |
| 112_G | 264_V | 1.269 | 0.99 |
| 281_E | 291_K | 1.266 | 0.99 |
| 211_G | 228_I | 1.265 | 0.99 |
| 102_Y | 303_A | 1.263 | 0.99 |
| 23_G | 228_I | 1.262 | 0.99 |
| 179_E | 203_K | 1.257 | 0.99 |
| 172_L | 207_V | 1.257 | 0.99 |
| 120_E | 271_Y | 1.248 | 0.99 |
| 229_L | 232_A | 1.241 | 0.98 |
| 107_L | 260_V | 1.240 | 0.98 |
| 265_A | 268_T | 1.232 | 0.98 |
| 233_L | 236_P | 1.229 | 0.98 |
| 104_Y | 260_V | 1.212 | 0.98 |
| 6_G | 10_G | 1.200 | 0.98 |
| 60_G | 270_L | 1.193 | 0.98 |
| 207_V | 269_F | 1.192 | 0.98 |
| 10_G | 14_A | 1.189 | 0.98 |
| 231_L | 235_S | 1.186 | 0.98 |
| 151_S | 154_H | 1.182 | 0.98 |
| 300_A | 304_F | 1.182 | 0.98 |
| 223_W | 226_F | 1.182 | 0.98 |
| 137_Q | 140_E | 1.177 | 0.98 |
| 169_L | 210_V | 1.177 | 0.98 |
| 210_V | 269_F | 1.174 | 0.98 |
| 67_E | 70_E | 1.172 | 0.98 |
| 3_Q | 8_K | 1.171 | 0.98 |
| 196_C | 200_L | 1.161 | 0.97 |
| 302_M | 306_A | 1.158 | 0.97 |
| 203_K | 210_V | 1.157 | 0.97 |
| 172_L | 175_H | 1.154 | 0.97 |
| 150_H | 154_H | 1.153 | 0.97 |
| 185_L | 188_T | 1.153 | 0.97 |
| 53_A | 277_I | 1.152 | 0.97 |
| 60_G | 63_H | 1.147 | 0.97 |
| 172_L | 206_V | 1.144 | 0.97 |
| 3_Q | 6_G | 1.143 | 0.97 |
| 240_A | 244_A | 1.143 | 0.97 |
| 206_V | 209_G | 1.142 | 0.97 |
| 133_G | 137_Q | 1.138 | 0.97 |
| 107_L | 111_L | 1.134 | 0.97 |
| 176_S | 231_L | 1.126 | 0.97 |
| 203_K | 235_S | 1.120 | 0.96 |
| 50_C | 281_E | 1.117 | 0.96 |
| 60_G | 231_L | 1.107 | 0.96 |
| 183_V | 199_V | 1.103 | 0.96 |
| 230_L | 233_L | 1.087 | 0.96 |
| 150_H | 153_G | 1.086 | 0.96 |
| 18_L | 204_G | 1.084 | 0.96 |
| 57_L | 61_F | 1.084 | 0.96 |
| 49_G | 281_E | 1.083 | 0.96 |
| 203_K | 231_L | 1.081 | 0.95 |
| 60_G | 68_A | 1.080 | 0.95 |
| 203_K | 269_F | 1.079 | 0.95 |
| 108_I | 111_L | 1.078 | 0.95 |
| 120_E | 273_T | 1.078 | 0.95 |
| 210_V | 214_L | 1.074 | 0.95 |
| 54_G | 61_F | 1.065 | 0.95 |
| 110_S | 114_F | 1.060 | 0.95 |
| 68_A | 259_A | 1.054 | 0.95 |
| 195_L | 206_V | 1.054 | 0.95 |
| 215_V | 221_S | 1.052 | 0.95 |
| 117_F | 271_Y | 1.050 | 0.94 |
| 248_G | 254_R | 1.049 | 0.94 |
| 146_I | 150_H | 1.048 | 0.94 |
| 20_L | 232_A | 1.046 | 0.94 |
| 169_L | 214_L | 1.046 | 0.94 |
| 105_G | 263_G | 1.043 | 0.94 |
| 61_F | 66_A | 1.043 | 0.94 |
| 182_A | 195_L | 1.033 | 0.94 |
| 106_E | 300_A | 1.032 | 0.94 |
| 181_L | 261_L | 1.031 | 0.94 |
| 178_F | 182_A | 1.031 | 0.94 |
| 23_G | 26_P | 1.030 | 0.94 |
| 172_L | 210_V | 1.027 | 0.94 |
| 18_L | 200_L | 1.027 | 0.94 |
| 61_F | 65_T | 1.027 | 0.94 |
| 5_L | 9_L | 1.027 | 0.94 |
| 268_T | 277_I | 1.025 | 0.93 |
| 15_L | 18_L | 1.021 | 0.93 |
| 14_A | 200_L | 1.019 | 0.93 |
| 149_L | 152_H | 1.019 | 0.93 |
| 300_A | 303_A | 1.018 | 0.93 |
| 12_L | 15_L | 1.017 | 0.93 |
| 278_L | 295_V | 1.016 | 0.93 |
| 209_G | 213_R | 1.014 | 0.93 |
| 242_G | 261_L | 1.014 | 0.93 |
| 137_Q | 141_W | 1.013 | 0.93 |
| 181_L | 238_G | 1.012 | 0.93 |
| 206_V | 231_L | 1.009 | 0.93 |
| 172_L | 176_S | 1.009 | 0.93 |
| 165_A | 217_L | 1.006 | 0.93 |
| 183_V | 235_S | 1.006 | 0.93 |
| 149_L | 155_L | 1.005 | 0.93 |
| 72_I | 259_A | 1.005 | 0.93 |
| 10_G | 196_C | 1.004 | 0.93 |
| 139_E | 143_G | 1.004 | 0.93 |
| 165_A | 168_L | 1.004 | 0.93 |
| 114_F | 295_V | 1.003 | 0.93 |
| 176_S | 203_K | 1.001 | 0.92 |
| 274_F | 282_L | 1.001 | 0.92 |
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 | |
| 4zw9A | 1 | 0 | 47.4 | 0.939 | Contact Map |
| 4oo9A | 1 | 0.2071 | 22.9 | 0.949 | Contact Map |
| 2zy9A | 2 | 0.2071 | 20.4 | 0.95 | Contact Map |
| 4g1uA | 2 | 0.4078 | 18.7 | 0.951 | Contact Map |
| 4dx5A | 3 | 0.2589 | 18.4 | 0.951 | Contact Map |
| 4tkrA | 2 | 0.3948 | 16.3 | 0.952 | Contact Map |
| 4j05A | 2 | 0.4531 | 15 | 0.953 | Contact Map |
| 2k1eA | 4 | 0.2848 | 9.3 | 0.957 | Contact Map |
| 2i68A | 2 | 0.0162 | 9.1 | 0.957 | Contact Map |
| 4k0jA | 6 | 0.2201 | 9 | 0.957 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)