| CWPv |
| ID: | 1441377891 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 296 (286) | ||
| Sequences: | 913 (792.6) | ||
| Seq/Len: | 3.192 | ||
| Nf(neff/√len): | 46.9 |
HHblits Results: (2015_06)
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: 3.192).
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 |
| 65_E | 68_R | 4.103 | 1.00 |
| 8_Y | 30_D | 3.659 | 1.00 |
| 39_A | 77_I | 3.260 | 1.00 |
| 15_S | 68_R | 3.115 | 1.00 |
| 25_V | 71_A | 3.099 | 1.00 |
| 13_K | 16_Q | 3.062 | 1.00 |
| 11_A | 242_A | 3.029 | 1.00 |
| 99_E | 116_K | 3.003 | 1.00 |
| 15_S | 65_E | 2.911 | 1.00 |
| 76_L | 83_L | 2.896 | 1.00 |
| 112_E | 115_K | 2.880 | 1.00 |
| 140_S | 208_N | 2.720 | 1.00 |
| 243_V | 280_V | 2.550 | 1.00 |
| 26_V | 43_A | 2.522 | 1.00 |
| 24_E | 75_Y | 2.504 | 1.00 |
| 23_D | 72_K | 2.488 | 1.00 |
| 230_G | 234_Q | 2.350 | 1.00 |
| 25_V | 66_I | 2.307 | 1.00 |
| 33_I | 135_L | 2.219 | 1.00 |
| 203_D | 206_D | 2.183 | 1.00 |
| 208_N | 212_I | 2.173 | 1.00 |
| 76_L | 88_E | 2.087 | 1.00 |
| 85_T | 89_K | 2.049 | 1.00 |
| 38_S | 110_S | 2.028 | 1.00 |
| 210_K | 213_K | 1.997 | 1.00 |
| 204_R | 207_T | 1.951 | 1.00 |
| 197_T | 214_E | 1.911 | 1.00 |
| 85_T | 88_E | 1.902 | 0.99 |
| 53_T | 58_L | 1.894 | 0.99 |
| 135_L | 238_I | 1.884 | 0.99 |
| 73_K | 99_E | 1.834 | 0.99 |
| 74_V | 96_I | 1.806 | 0.99 |
| 155_A | 160_G | 1.783 | 0.99 |
| 108_Q | 112_E | 1.765 | 0.99 |
| 178_V | 190_K | 1.764 | 0.99 |
| 66_I | 71_A | 1.763 | 0.99 |
| 80_T | 85_T | 1.754 | 0.99 |
| 51_L | 62_T | 1.753 | 0.99 |
| 18_G | 246_L | 1.751 | 0.99 |
| 182_E | 187_E | 1.744 | 0.99 |
| 81_S | 183_S | 1.729 | 0.99 |
| 187_E | 190_K | 1.714 | 0.99 |
| 206_D | 210_K | 1.693 | 0.99 |
| 12_V | 62_T | 1.672 | 0.98 |
| 47_N | 249_K | 1.672 | 0.98 |
| 29_N | 82_V | 1.667 | 0.98 |
| 35_D | 106_R | 1.637 | 0.98 |
| 40_T | 244_G | 1.621 | 0.98 |
| 82_V | 184_S | 1.617 | 0.98 |
| 178_V | 185_I | 1.586 | 0.97 |
| 110_S | 114_A | 1.573 | 0.97 |
| 106_R | 204_R | 1.568 | 0.97 |
| 27_I | 91_I | 1.543 | 0.97 |
| 58_L | 63_K | 1.539 | 0.97 |
| 177_Y | 215_F | 1.521 | 0.97 |
| 102_S | 112_E | 1.520 | 0.97 |
| 74_V | 91_I | 1.501 | 0.96 |
| 88_E | 92_K | 1.498 | 0.96 |
| 7_R | 106_R | 1.480 | 0.96 |
| 73_K | 97_S | 1.468 | 0.96 |
| 107_Y | 132_E | 1.459 | 0.95 |
| 209_A | 268_L | 1.456 | 0.95 |
| 16_Q | 65_E | 1.435 | 0.95 |
| 33_I | 238_I | 1.432 | 0.95 |
| 6_E | 9_E | 1.430 | 0.95 |
| 7_R | 204_R | 1.427 | 0.95 |
| 126_I | 129_V | 1.411 | 0.94 |
| 12_V | 15_S | 1.385 | 0.93 |
| 135_L | 237_L | 1.362 | 0.93 |
| 10_T | 109_T | 1.362 | 0.93 |
| 88_E | 100_R | 1.358 | 0.92 |
| 53_T | 83_L | 1.342 | 0.92 |
| 42_F | 113_L | 1.330 | 0.91 |
| 8_Y | 59_N | 1.320 | 0.91 |
| 175_Q | 197_T | 1.305 | 0.90 |
| 54_S | 59_N | 1.267 | 0.88 |
| 136_A | 204_R | 1.266 | 0.88 |
| 176_S | 194_P | 1.263 | 0.88 |
| 9_E | 13_K | 1.249 | 0.88 |
| 111_L | 167_F | 1.246 | 0.87 |
| 8_Y | 12_V | 1.246 | 0.87 |
| 185_I | 198_R | 1.238 | 0.87 |
| 34_A | 238_I | 1.237 | 0.87 |
| 225_Y | 246_L | 1.221 | 0.86 |
| 155_A | 185_I | 1.221 | 0.86 |
| 77_I | 113_L | 1.220 | 0.86 |
| 126_I | 131_G | 1.219 | 0.86 |
| 161_T | 164_A | 1.216 | 0.86 |
| 24_E | 73_K | 1.214 | 0.85 |
| 65_E | 69_L | 1.209 | 0.85 |
| 78_G | 100_R | 1.196 | 0.84 |
| 89_K | 92_K | 1.179 | 0.83 |
| 33_I | 237_L | 1.174 | 0.83 |
| 176_S | 196_S | 1.170 | 0.82 |
| 71_A | 74_V | 1.169 | 0.82 |
| 10_T | 207_T | 1.165 | 0.82 |
| 79_G | 106_R | 1.157 | 0.81 |
| 46_K | 75_Y | 1.156 | 0.81 |
| 34_A | 106_R | 1.149 | 0.81 |
| 8_Y | 31_S | 1.144 | 0.80 |
| 60_D | 64_A | 1.144 | 0.80 |
| 181_G | 207_T | 1.135 | 0.80 |
| 11_A | 62_T | 1.134 | 0.80 |
| 63_K | 90_E | 1.120 | 0.78 |
| 41_P | 44_K | 1.114 | 0.78 |
| 44_K | 245_V | 1.113 | 0.78 |
| 12_V | 16_Q | 1.102 | 0.77 |
| 105_E | 203_D | 1.099 | 0.77 |
| 199_L | 210_K | 1.099 | 0.77 |
| 28_V | 37_L | 1.099 | 0.77 |
| 11_A | 211_V | 1.096 | 0.76 |
| 146_A | 247_G | 1.085 | 0.75 |
| 66_I | 96_I | 1.076 | 0.74 |
| 6_E | 105_E | 1.065 | 0.73 |
| 35_D | 109_T | 1.064 | 0.73 |
| 8_Y | 29_N | 1.063 | 0.73 |
| 35_D | 79_G | 1.058 | 0.73 |
| 2_L | 176_S | 1.057 | 0.73 |
| 34_A | 135_L | 1.050 | 0.72 |
| 9_E | 61_K | 1.031 | 0.70 |
| 205_N | 234_Q | 1.028 | 0.70 |
| 103_G | 106_R | 1.023 | 0.69 |
| 229_D | 232_N | 1.022 | 0.69 |
| 144_P | 215_F | 1.019 | 0.69 |
| 29_N | 237_L | 1.019 | 0.69 |
| 53_T | 62_T | 1.015 | 0.68 |
| 35_D | 103_G | 1.014 | 0.68 |
| 224_A | 227_T | 1.014 | 0.68 |
| 125_K | 175_Q | 1.012 | 0.68 |
| 38_S | 113_L | 1.008 | 0.67 |
| 26_V | 75_Y | 1.008 | 0.67 |
| 111_L | 161_T | 1.007 | 0.67 |
| 19_W | 246_L | 1.007 | 0.67 |
| 27_I | 51_L | 1.007 | 0.67 |
| 179_V | 199_L | 1.006 | 0.67 |
| 6_E | 203_D | 1.003 | 0.67 |
| 105_E | 108_Q | 1.002 | 0.67 |
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 | |
| 4cu2A | 1 | 0.2703 | 99.8 | 0.742 | Contact Map |
| 4cu5A | 6 | 0.2838 | 98.3 | 0.878 | Contact Map |
| 4gicA | 2 | 0.8074 | 76.4 | 0.944 | Contact Map |
| 1kaeA | 2 | 0.8581 | 72.7 | 0.946 | Contact Map |
| 4g09A | 1 | 0.8649 | 71.7 | 0.946 | Contact Map |
| 4ru1A | 12 | 0.7061 | 56.5 | 0.951 | Contact Map |
| 1reqA | 2 | 0.3986 | 48.7 | 0.954 | Contact Map |
| 1reqB | 2 | 0.3818 | 48.5 | 0.954 | Contact Map |
| 3sc6A | 6 | 0.7095 | 45 | 0.955 | Contact Map |
| 2pzmA | 2 | 0.7534 | 42 | 0.955 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)