| T0764 40-341 |
| ID: | 1399313744 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 302 (297) | ||
| Sequences: | 298 (224.8) | ||
| Seq/Len: | 1.003 | ||
| Nf(neff/√len): | 13.0 |
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: 1.003).
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 |
| 153_T | 161_G | 3.335 | 1.00 |
| 44_T | 48_R | 3.245 | 1.00 |
| 38_S | 64_L | 2.633 | 1.00 |
| 37_F | 124_T | 2.365 | 0.99 |
| 55_F | 289_A | 2.363 | 0.99 |
| 108_Q | 283_L | 2.298 | 0.98 |
| 28_L | 152_I | 2.292 | 0.98 |
| 38_S | 72_N | 2.261 | 0.98 |
| 266_H | 269_E | 2.180 | 0.98 |
| 182_A | 201_K | 2.056 | 0.96 |
| 174_I | 219_V | 2.028 | 0.96 |
| 70_R | 156_Q | 2.008 | 0.96 |
| 8_F | 84_P | 1.936 | 0.94 |
| 30_F | 152_I | 1.923 | 0.94 |
| 276_T | 282_D | 1.873 | 0.93 |
| 261_D | 299_K | 1.786 | 0.91 |
| 143_F | 149_G | 1.786 | 0.91 |
| 65_V | 139_Y | 1.770 | 0.90 |
| 175_A | 296_L | 1.765 | 0.90 |
| 275_N | 284_N | 1.738 | 0.89 |
| 67_Q | 70_R | 1.706 | 0.88 |
| 140_A | 168_T | 1.699 | 0.87 |
| 252_A | 262_V | 1.657 | 0.86 |
| 153_T | 162_W | 1.655 | 0.85 |
| 177_Y | 292_L | 1.650 | 0.85 |
| 143_F | 148_P | 1.631 | 0.84 |
| 31_A | 157_G | 1.619 | 0.84 |
| 34_V | 126_T | 1.595 | 0.83 |
| 162_W | 176_S | 1.591 | 0.82 |
| 26_Y | 60_F | 1.573 | 0.81 |
| 60_F | 293_S | 1.521 | 0.78 |
| 224_Y | 265_I | 1.519 | 0.78 |
| 34_V | 156_Q | 1.509 | 0.77 |
| 110_K | 115_T | 1.491 | 0.76 |
| 201_K | 204_E | 1.467 | 0.75 |
| 158_G | 179_P | 1.446 | 0.73 |
| 54_I | 289_A | 1.443 | 0.73 |
| 14_Y | 72_N | 1.440 | 0.73 |
| 126_T | 156_Q | 1.430 | 0.72 |
| 49_E | 57_R | 1.427 | 0.72 |
| 25_K | 62_V | 1.408 | 0.70 |
| 106_G | 228_N | 1.388 | 0.69 |
| 272_L | 288_V | 1.348 | 0.65 |
| 279_P | 292_L | 1.344 | 0.65 |
| 165_L | 216_Y | 1.341 | 0.65 |
| 161_G | 176_S | 1.340 | 0.65 |
| 44_T | 285_N | 1.322 | 0.63 |
| 150_V | 173_A | 1.294 | 0.61 |
| 145_K | 172_K | 1.291 | 0.60 |
| 173_A | 296_L | 1.290 | 0.60 |
| 143_F | 170_N | 1.287 | 0.60 |
| 255_L | 262_V | 1.284 | 0.60 |
| 41_W | 123_M | 1.284 | 0.60 |
| 32_H | 41_W | 1.283 | 0.60 |
| 37_F | 72_N | 1.278 | 0.59 |
| 252_A | 264_V | 1.271 | 0.59 |
| 29_V | 149_G | 1.270 | 0.58 |
| 119_Y | 154_H | 1.266 | 0.58 |
| 107_V | 276_T | 1.266 | 0.58 |
| 140_A | 157_G | 1.263 | 0.58 |
| 175_A | 256_N | 1.262 | 0.58 |
| 173_A | 218_K | 1.259 | 0.57 |
| 14_Y | 42_E | 1.250 | 0.57 |
| 117_D | 148_P | 1.249 | 0.57 |
| 29_V | 65_V | 1.249 | 0.57 |
| 37_F | 40_T | 1.246 | 0.56 |
| 194_A | 203_M | 1.225 | 0.54 |
| 17_Y | 61_C | 1.224 | 0.54 |
| 177_Y | 279_P | 1.207 | 0.53 |
| 60_F | 164_T | 1.191 | 0.51 |
| 110_K | 295_W | 1.188 | 0.51 |
| 223_I | 252_A | 1.183 | 0.50 |
| 36_Q | 70_R | 1.177 | 0.50 |
| 87_D | 91_W | 1.169 | 0.49 |
| 162_W | 174_I | 1.169 | 0.49 |
| 46_D | 50_G | 1.150 | 0.47 |
| 245_L | 249_K | 1.148 | 0.47 |
| 218_K | 253_K | 1.146 | 0.47 |
| 68_P | 162_W | 1.145 | 0.47 |
| 158_G | 161_G | 1.144 | 0.47 |
| 18_Q | 52_Q | 1.141 | 0.47 |
| 120_F | 123_M | 1.140 | 0.47 |
| 184_P | 202_K | 1.139 | 0.46 |
| 16_F | 42_E | 1.138 | 0.46 |
| 31_A | 139_Y | 1.136 | 0.46 |
| 138_A | 156_Q | 1.132 | 0.46 |
| 12_H | 121_R | 1.132 | 0.46 |
| 240_E | 244_R | 1.131 | 0.46 |
| 156_Q | 160_V | 1.121 | 0.45 |
| 116_L | 236_P | 1.115 | 0.44 |
| 41_W | 172_K | 1.113 | 0.44 |
| 27_P | 33_G | 1.113 | 0.44 |
| 36_Q | 67_Q | 1.103 | 0.43 |
| 8_F | 149_G | 1.100 | 0.43 |
| 216_Y | 258_Q | 1.099 | 0.43 |
| 107_V | 112_D | 1.098 | 0.43 |
| 152_I | 169_R | 1.093 | 0.42 |
| 91_W | 95_F | 1.091 | 0.42 |
| 267_L | 272_L | 1.090 | 0.42 |
| 41_W | 288_V | 1.089 | 0.42 |
| 27_P | 142_L | 1.083 | 0.41 |
| 173_A | 206_I | 1.080 | 0.41 |
| 144_D | 294_E | 1.077 | 0.41 |
| 56_L | 260_G | 1.073 | 0.40 |
| 65_V | 157_G | 1.072 | 0.40 |
| 70_R | 74_G | 1.072 | 0.40 |
| 219_V | 285_N | 1.072 | 0.40 |
| 279_P | 288_V | 1.068 | 0.40 |
| 141_A | 158_G | 1.067 | 0.40 |
| 158_G | 162_W | 1.064 | 0.40 |
| 189_Q | 258_Q | 1.061 | 0.39 |
| 30_F | 55_F | 1.061 | 0.39 |
| 51_F | 73_A | 1.057 | 0.39 |
| 187_E | 207_E | 1.052 | 0.39 |
| 54_I | 58_R | 1.050 | 0.38 |
| 42_E | 104_F | 1.048 | 0.38 |
| 37_F | 127_I | 1.046 | 0.38 |
| 212_V | 215_E | 1.046 | 0.38 |
| 19_K | 61_C | 1.042 | 0.38 |
| 16_F | 52_Q | 1.040 | 0.37 |
| 22_G | 171_I | 1.032 | 0.37 |
| 110_K | 113_K | 1.029 | 0.37 |
| 236_P | 240_E | 1.027 | 0.36 |
| 36_Q | 156_Q | 1.026 | 0.36 |
| 272_L | 275_N | 1.020 | 0.36 |
| 42_E | 98_G | 1.020 | 0.36 |
| 42_E | 52_Q | 1.019 | 0.36 |
| 54_I | 286_I | 1.019 | 0.36 |
| 109_F | 116_L | 1.016 | 0.35 |
| 48_R | 268_P | 1.013 | 0.35 |
| 239_Y | 242_T | 1.013 | 0.35 |
| 213_F | 257_D | 1.013 | 0.35 |
| 30_F | 209_P | 1.012 | 0.35 |
| 157_G | 160_V | 1.011 | 0.35 |
| 232_T | 246_R | 1.011 | 0.35 |
| 155_S | 158_G | 1.010 | 0.35 |
| 30_F | 148_P | 1.009 | 0.35 |
| 184_P | 201_K | 1.008 | 0.35 |
| 95_F | 125_P | 1.006 | 0.35 |
| 67_Q | 161_G | 1.006 | 0.35 |
| 264_V | 280_M | 1.000 | 0.34 |
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 | |
| 1qlwA | 2 | 0.8808 | 100 | 0.579 | Contact Map |
| 2rauA | 1 | 0.7583 | 99.8 | 0.824 | Contact Map |
| 2z3zA | 1 | 0.7384 | 99.8 | 0.826 | Contact Map |
| 3azoA | 2 | 0.7715 | 99.8 | 0.827 | Contact Map |
| 2ecfA | 1 | 0.7715 | 99.8 | 0.828 | Contact Map |
| 1k8qA | 2 | 0.7848 | 99.8 | 0.83 | Contact Map |
| 3vvmA | 2 | 0.8113 | 99.8 | 0.83 | Contact Map |
| 4fblA | 4 | 0.7219 | 99.8 | 0.83 | Contact Map |
| 3dqzA | 4 | 0.6623 | 99.8 | 0.83 | Contact Map |
| 1z68A | 2 | 0.7682 | 99.8 | 0.831 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)