| wr73 |
| ID: | 1405072167 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 183 (168) | ||
| Sequences: | 308 (198.8) | ||
| Seq/Len: | 1.833 | ||
| Nf(neff/√len): | 15.3 |
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: 1.833).
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 |
| 112_D | 174_E | 3.199 | 1.00 |
| 100_I | 117_K | 2.408 | 1.00 |
| 78_E | 137_A | 2.157 | 0.99 |
| 67_G | 72_L | 1.943 | 0.98 |
| 124_V | 128_L | 1.854 | 0.98 |
| 84_D | 87_M | 1.838 | 0.97 |
| 32_G | 68_I | 1.826 | 0.97 |
| 5_K | 179_E | 1.826 | 0.97 |
| 37_R | 72_L | 1.824 | 0.97 |
| 27_V | 123_W | 1.813 | 0.97 |
| 86_S | 89_K | 1.786 | 0.97 |
| 102_H | 105_K | 1.784 | 0.97 |
| 135_N | 157_E | 1.739 | 0.96 |
| 114_D | 118_K | 1.663 | 0.95 |
| 98_N | 148_A | 1.566 | 0.92 |
| 78_E | 139_F | 1.565 | 0.92 |
| 95_F | 175_A | 1.565 | 0.92 |
| 32_G | 139_F | 1.549 | 0.92 |
| 107_N | 110_K | 1.534 | 0.91 |
| 42_I | 92_I | 1.526 | 0.91 |
| 88_F | 155_I | 1.519 | 0.91 |
| 13_L | 154_A | 1.490 | 0.89 |
| 38_K | 62_E | 1.488 | 0.89 |
| 92_I | 124_V | 1.488 | 0.89 |
| 103_M | 127_L | 1.430 | 0.87 |
| 110_K | 114_D | 1.423 | 0.86 |
| 47_S | 50_S | 1.404 | 0.85 |
| 79_M | 82_Y | 1.398 | 0.85 |
| 52_E | 76_L | 1.369 | 0.83 |
| 98_N | 102_H | 1.316 | 0.80 |
| 132_R | 136_L | 1.308 | 0.79 |
| 107_N | 112_D | 1.306 | 0.79 |
| 13_L | 35_V | 1.298 | 0.78 |
| 162_D | 166_V | 1.293 | 0.78 |
| 3_I | 181_C | 1.281 | 0.77 |
| 96_M | 133_F | 1.249 | 0.75 |
| 151_G | 154_A | 1.248 | 0.74 |
| 4_Y | 7_I | 1.246 | 0.74 |
| 37_R | 73_N | 1.245 | 0.74 |
| 154_A | 171_L | 1.242 | 0.74 |
| 110_K | 113_V | 1.221 | 0.72 |
| 75_K | 178_E | 1.219 | 0.72 |
| 21_K | 24_D | 1.218 | 0.72 |
| 103_M | 110_K | 1.215 | 0.72 |
| 71_V | 153_V | 1.215 | 0.72 |
| 48_N | 51_A | 1.214 | 0.72 |
| 136_L | 170_M | 1.195 | 0.70 |
| 89_K | 128_L | 1.194 | 0.70 |
| 33_K | 69_D | 1.192 | 0.70 |
| 49_P | 65_E | 1.190 | 0.69 |
| 99_V | 102_H | 1.178 | 0.68 |
| 66_R | 72_L | 1.176 | 0.68 |
| 37_R | 67_G | 1.175 | 0.68 |
| 13_L | 171_L | 1.161 | 0.67 |
| 40_G | 154_A | 1.157 | 0.66 |
| 15_S | 116_F | 1.144 | 0.65 |
| 46_G | 52_E | 1.143 | 0.65 |
| 159_R | 163_G | 1.141 | 0.65 |
| 163_G | 168_T | 1.141 | 0.65 |
| 152_Q | 163_G | 1.135 | 0.64 |
| 44_L | 69_D | 1.135 | 0.64 |
| 51_A | 134_K | 1.130 | 0.64 |
| 7_I | 140_I | 1.127 | 0.63 |
| 18_F | 96_M | 1.127 | 0.63 |
| 4_Y | 165_E | 1.122 | 0.63 |
| 67_G | 74_H | 1.116 | 0.62 |
| 1_M | 6_D | 1.112 | 0.62 |
| 30_F | 171_L | 1.110 | 0.62 |
| 36_V | 64_V | 1.105 | 0.61 |
| 101_D | 105_K | 1.104 | 0.61 |
| 53_E | 57_D | 1.102 | 0.61 |
| 7_I | 102_H | 1.100 | 0.60 |
| 60_S | 69_D | 1.092 | 0.60 |
| 37_R | 74_H | 1.091 | 0.60 |
| 88_F | 127_L | 1.091 | 0.60 |
| 129_A | 132_R | 1.086 | 0.59 |
| 118_K | 122_G | 1.081 | 0.58 |
| 13_L | 151_G | 1.080 | 0.58 |
| 69_D | 73_N | 1.079 | 0.58 |
| 59_G | 139_F | 1.078 | 0.58 |
| 84_D | 133_F | 1.070 | 0.57 |
| 58_D | 135_N | 1.067 | 0.57 |
| 64_V | 99_V | 1.065 | 0.57 |
| 151_G | 159_R | 1.062 | 0.56 |
| 6_D | 12_E | 1.051 | 0.55 |
| 48_N | 52_E | 1.046 | 0.55 |
| 67_G | 169_L | 1.045 | 0.55 |
| 76_L | 141_G | 1.038 | 0.54 |
| 57_D | 150_N | 1.030 | 0.53 |
| 46_G | 50_S | 1.028 | 0.53 |
| 113_V | 174_E | 1.028 | 0.53 |
| 156_I | 163_G | 1.027 | 0.53 |
| 101_D | 104_E | 1.024 | 0.52 |
| 92_I | 104_E | 1.023 | 0.52 |
| 10_D | 143_R | 1.007 | 0.50 |
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 | |
| 2kwbA | 1 | 1 | 100 | -0.008 | Contact Map |
| 1h6qA | 1 | 0.9126 | 100 | 0.05 | Contact Map |
| 1yz1A | 4 | 0.7869 | 100 | 0.052 | Contact Map |
| 1txjA | 1 | 0.8251 | 100 | 0.075 | Contact Map |
| 2i2xA | 8 | 0.5902 | 20.7 | 0.958 | Contact Map |
| 3a54A | 2 | 0.388 | 7.6 | 0.965 | Contact Map |
| 1g6uA | 2 | 0.2623 | 7 | 0.966 | Contact Map |
| 2ou1A | 12 | 0.3388 | 6.4 | 0.966 | Contact Map |
| 2l7yA | 1 | 0.3115 | 5.9 | 0.967 | Contact Map |
| 4kxqB | 1 | 0.0874 | 4.6 | 0.969 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)