| CLDA |
| ID: | 1508255592 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 200 (191) | ||
| Sequences: | 3359 (1584) | ||
| Seq/Len: | 17.586 | ||
| Nf(neff/√len): | 114.6 |
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: 17.586).
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 |
| 27_L | 163_A | 2.966 | 1.00 |
| 98_T | 121_G | 2.609 | 1.00 |
| 122_G | 178_G | 2.567 | 1.00 |
| 25_C | 84_T | 2.411 | 1.00 |
| 22_I | 26_G | 2.256 | 1.00 |
| 19_G | 23_L | 2.149 | 1.00 |
| 54_C | 64_C | 2.071 | 1.00 |
| 140_A | 168_W | 1.947 | 1.00 |
| 20_G | 170_A | 1.901 | 1.00 |
| 28_P | 52_M | 1.890 | 1.00 |
| 75_T | 79_A | 1.844 | 1.00 |
| 134_V | 138_W | 1.819 | 1.00 |
| 132_A | 170_A | 1.807 | 1.00 |
| 82_A | 86_S | 1.735 | 1.00 |
| 23_L | 27_L | 1.716 | 1.00 |
| 48_K | 53_S | 1.699 | 1.00 |
| 126_L | 178_G | 1.688 | 1.00 |
| 18_W | 91_A | 1.685 | 1.00 |
| 132_A | 171_T | 1.664 | 1.00 |
| 146_E | 149_D | 1.632 | 1.00 |
| 85_V | 89_L | 1.619 | 1.00 |
| 165_Y | 168_W | 1.591 | 1.00 |
| 136_L | 167_G | 1.590 | 1.00 |
| 65_K | 68_D | 1.576 | 1.00 |
| 22_I | 88_V | 1.549 | 1.00 |
| 12_V | 16_V | 1.526 | 1.00 |
| 94_A | 124_L | 1.511 | 1.00 |
| 164_L | 168_W | 1.474 | 1.00 |
| 129_G | 175_M | 1.453 | 1.00 |
| 78_Q | 81_R | 1.444 | 1.00 |
| 69_S | 72_A | 1.438 | 1.00 |
| 14_C | 125_Y | 1.434 | 1.00 |
| 17_G | 174_L | 1.421 | 1.00 |
| 24_A | 167_G | 1.407 | 0.99 |
| 129_G | 178_G | 1.383 | 0.99 |
| 84_T | 102_A | 1.382 | 0.99 |
| 176_V | 180_L | 1.369 | 0.99 |
| 24_A | 170_A | 1.365 | 0.99 |
| 84_T | 132_A | 1.364 | 0.99 |
| 24_A | 84_T | 1.351 | 0.99 |
| 49_G | 54_C | 1.344 | 0.99 |
| 87_A | 132_A | 1.328 | 0.99 |
| 2_G | 6_L | 1.319 | 0.99 |
| 130_L | 134_V | 1.310 | 0.99 |
| 21_L | 132_A | 1.307 | 0.99 |
| 112_P | 116_R | 1.305 | 0.99 |
| 160_L | 168_W | 1.270 | 0.99 |
| 133_L | 171_T | 1.267 | 0.99 |
| 181_L | 185_A | 1.264 | 0.99 |
| 93_V | 96_F | 1.261 | 0.99 |
| 24_A | 136_L | 1.255 | 0.99 |
| 78_Q | 82_A | 1.228 | 0.98 |
| 76_E | 80_A | 1.226 | 0.98 |
| 179_C | 183_C | 1.224 | 0.98 |
| 95_L | 135_P | 1.217 | 0.98 |
| 31_Q | 48_K | 1.213 | 0.98 |
| 181_L | 184_G | 1.208 | 0.98 |
| 97_V | 120_T | 1.201 | 0.98 |
| 40_I | 43_A | 1.196 | 0.98 |
| 121_G | 181_L | 1.181 | 0.98 |
| 15_L | 99_L | 1.173 | 0.98 |
| 133_L | 137_C | 1.170 | 0.97 |
| 4_A | 12_V | 1.170 | 0.97 |
| 56_V | 62_M | 1.169 | 0.97 |
| 29_M | 47_W | 1.165 | 0.97 |
| 10_G | 177_G | 1.143 | 0.97 |
| 15_L | 95_L | 1.142 | 0.97 |
| 110_P | 113_A | 1.132 | 0.97 |
| 91_A | 128_C | 1.129 | 0.97 |
| 44_Q | 55_V | 1.126 | 0.97 |
| 94_A | 190_G | 1.120 | 0.96 |
| 50_L | 54_C | 1.116 | 0.96 |
| 95_L | 125_Y | 1.113 | 0.96 |
| 46_T | 55_V | 1.111 | 0.96 |
| 87_A | 128_C | 1.107 | 0.96 |
| 108_V | 117_V | 1.107 | 0.96 |
| 122_G | 126_L | 1.102 | 0.96 |
| 20_G | 166_I | 1.098 | 0.96 |
| 165_Y | 169_A | 1.093 | 0.96 |
| 21_L | 174_L | 1.090 | 0.96 |
| 66_V | 70_V | 1.087 | 0.96 |
| 182_C | 185_A | 1.078 | 0.95 |
| 137_C | 168_W | 1.077 | 0.95 |
| 27_L | 162_A | 1.071 | 0.95 |
| 137_C | 141_N | 1.051 | 0.94 |
| 39_N | 42_T | 1.048 | 0.94 |
| 61_H | 68_D | 1.043 | 0.94 |
| 57_Q | 63_Q | 1.039 | 0.94 |
| 176_V | 190_G | 1.039 | 0.94 |
| 31_Q | 139_F | 1.033 | 0.94 |
| 80_A | 135_P | 1.029 | 0.94 |
| 183_C | 189_T | 1.019 | 0.93 |
| 140_A | 160_L | 1.019 | 0.93 |
| 32_V | 161_G | 1.018 | 0.93 |
| 158_Y | 161_G | 1.008 | 0.93 |
| 98_T | 103_Q | 1.007 | 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 | |
| 3x29A | 2 | 0.835 | 100 | 0.215 | Contact Map |
| 4p79A | 1 | 0.885 | 100 | 0.235 | Contact Map |
| 1fftB | 2 | 0.26 | 6.6 | 0.942 | Contact Map |
| 2kluA | 1 | 0.23 | 5.4 | 0.945 | Contact Map |
| 2lk9A | 1 | 0.12 | 5.2 | 0.945 | Contact Map |
| 4tphA | 2 | 0.74 | 3.7 | 0.949 | Contact Map |
| 2z73A | 2 | 0.705 | 3.4 | 0.95 | Contact Map |
| 4jc95 | 14 | 0.17 | 3.3 | 0.95 | Contact Map |
| 1nkzA | 3 | 0.21 | 3.2 | 0.951 | Contact Map |
| 1xrdA | 1 | 0.21 | 2.9 | 0.952 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)