| aquaporin |
| ID: | 1465504313 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 263 (225) | ||
| Sequences: | 5176 (2989.4) | ||
| Seq/Len: | 23.004 | ||
| Nf(neff/√len): | 199.3 |
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: 23.004).
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 |
| 76_L | 83_L | 4.352 | 1.00 |
| 72_T | 86_A | 3.977 | 1.00 |
| 17_F | 99_A | 3.688 | 1.00 |
| 21_L | 103_V | 3.518 | 1.00 |
| 76_L | 86_A | 3.487 | 1.00 |
| 135_I | 214_L | 3.291 | 1.00 |
| 135_I | 210_I | 3.130 | 1.00 |
| 131_T | 207_G | 2.988 | 1.00 |
| 137_L | 175_G | 2.986 | 1.00 |
| 13_I | 92_A | 2.984 | 1.00 |
| 13_I | 88_C | 2.798 | 1.00 |
| 21_L | 100_G | 2.567 | 1.00 |
| 144_C | 167_S | 2.528 | 1.00 |
| 12_A | 85_R | 2.509 | 1.00 |
| 182_G | 188_S | 2.377 | 1.00 |
| 17_F | 95_L | 2.354 | 1.00 |
| 49_G | 169_A | 2.344 | 1.00 |
| 27_G | 48_F | 2.274 | 1.00 |
| 201_H | 205_W | 2.216 | 1.00 |
| 139_L | 215_G | 2.121 | 1.00 |
| 59_V | 67_V | 2.088 | 1.00 |
| 73_F | 209_I | 2.071 | 1.00 |
| 102_A | 194_L | 2.061 | 1.00 |
| 189_F | 205_W | 2.018 | 1.00 |
| 90_M | 209_I | 2.012 | 1.00 |
| 172_H | 181_A | 1.965 | 1.00 |
| 94_L | 189_F | 1.930 | 1.00 |
| 92_A | 96_G | 1.874 | 1.00 |
| 19_A | 67_V | 1.869 | 1.00 |
| 9_F | 13_I | 1.832 | 1.00 |
| 131_T | 135_I | 1.820 | 1.00 |
| 121_L | 130_A | 1.815 | 1.00 |
| 73_F | 90_M | 1.795 | 1.00 |
| 171_G | 183_M | 1.768 | 1.00 |
| 77_V | 213_G | 1.720 | 1.00 |
| 101_A | 191_P | 1.653 | 1.00 |
| 86_A | 90_M | 1.592 | 1.00 |
| 128_A | 132_T | 1.585 | 1.00 |
| 172_H | 176_M | 1.560 | 1.00 |
| 79_S | 220_D | 1.532 | 1.00 |
| 66_H | 89_Y | 1.528 | 1.00 |
| 142_V | 212_G | 1.515 | 1.00 |
| 130_A | 179_T | 1.511 | 1.00 |
| 137_L | 183_M | 1.493 | 1.00 |
| 20_T | 97_A | 1.484 | 1.00 |
| 189_F | 193_I | 1.469 | 1.00 |
| 29_G | 104_L | 1.456 | 1.00 |
| 150_D | 219_Y | 1.441 | 1.00 |
| 139_L | 218_L | 1.381 | 0.99 |
| 211_G | 215_G | 1.371 | 0.99 |
| 55_L | 59_V | 1.358 | 0.99 |
| 28_L | 101_A | 1.357 | 0.99 |
| 22_F | 55_L | 1.345 | 0.99 |
| 52_L | 168_L | 1.329 | 0.99 |
| 53_A | 165_G | 1.327 | 0.99 |
| 189_F | 201_H | 1.321 | 0.99 |
| 72_T | 81_M | 1.320 | 0.99 |
| 202_W | 206_V | 1.318 | 0.99 |
| 148_T | 163_A | 1.311 | 0.99 |
| 81_M | 86_A | 1.307 | 0.99 |
| 69_P | 186_A | 1.300 | 0.99 |
| 168_L | 183_M | 1.298 | 0.99 |
| 76_L | 81_M | 1.298 | 0.99 |
| 207_G | 211_G | 1.295 | 0.99 |
| 101_A | 190_A | 1.290 | 0.99 |
| 99_A | 102_A | 1.289 | 0.99 |
| 98_V | 189_F | 1.284 | 0.99 |
| 74_A | 78_G | 1.282 | 0.99 |
| 138_T | 212_G | 1.264 | 0.99 |
| 209_I | 213_G | 1.262 | 0.99 |
| 87_F | 91_A | 1.234 | 0.98 |
| 30_S | 47_A | 1.232 | 0.98 |
| 198_F | 201_H | 1.226 | 0.98 |
| 98_V | 193_I | 1.226 | 0.98 |
| 45_A | 173_L | 1.224 | 0.98 |
| 71_V | 145_I | 1.224 | 0.98 |
| 139_L | 214_L | 1.218 | 0.98 |
| 23_Y | 52_L | 1.218 | 0.98 |
| 98_V | 190_A | 1.213 | 0.98 |
| 133_V | 179_T | 1.213 | 0.98 |
| 187_R | 191_P | 1.207 | 0.98 |
| 59_V | 65_A | 1.191 | 0.98 |
| 26_F | 51_A | 1.188 | 0.98 |
| 22_F | 140_Q | 1.179 | 0.98 |
| 74_A | 142_V | 1.172 | 0.98 |
| 133_V | 137_L | 1.170 | 0.97 |
| 10_W | 13_I | 1.157 | 0.97 |
| 21_L | 99_A | 1.156 | 0.97 |
| 70_A | 185_P | 1.150 | 0.97 |
| 74_A | 216_S | 1.140 | 0.97 |
| 83_L | 86_A | 1.139 | 0.97 |
| 103_V | 136_F | 1.137 | 0.97 |
| 133_V | 178_Y | 1.132 | 0.97 |
| 53_A | 162_L | 1.129 | 0.97 |
| 141_F | 168_L | 1.121 | 0.97 |
| 75_F | 81_M | 1.109 | 0.96 |
| 51_A | 55_L | 1.104 | 0.96 |
| 42_L | 46_M | 1.098 | 0.96 |
| 72_T | 90_M | 1.092 | 0.96 |
| 134_E | 179_T | 1.078 | 0.95 |
| 102_A | 106_S | 1.067 | 0.95 |
| 135_I | 211_G | 1.058 | 0.95 |
| 33_R | 178_Y | 1.054 | 0.95 |
| 146_F | 215_G | 1.040 | 0.94 |
| 96_G | 100_G | 1.040 | 0.94 |
| 188_S | 192_A | 1.039 | 0.94 |
| 188_S | 208_P | 1.030 | 0.94 |
| 66_H | 72_T | 1.029 | 0.94 |
| 25_F | 107_V | 1.023 | 0.93 |
| 56_V | 161_A | 1.020 | 0.93 |
| 131_T | 203_V | 1.013 | 0.93 |
| 83_L | 87_F | 1.011 | 0.93 |
| 145_I | 164_V | 1.006 | 0.93 |
| 70_A | 212_G | 1.005 | 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 | |
| 4oj2X | 1 | 0.9582 | 100 | 0.128 | Contact Map |
| 2b6oA | 1 | 0.8935 | 100 | 0.133 | Contact Map |
| 3d9sA | 4 | 0.9202 | 100 | 0.146 | Contact Map |
| 1j4nA | 1 | 0.9087 | 100 | 0.147 | Contact Map |
| 3iyzA | 1 | 0.8365 | 100 | 0.183 | Contact Map |
| 2zz9A | 1 | 0.8365 | 100 | 0.19 | Contact Map |
| 4nefA | 4 | 0.9125 | 100 | 0.192 | Contact Map |
| 3c02A | 1 | 0.8479 | 100 | 0.217 | Contact Map |
| 1ldfA | 1 | 0.8365 | 100 | 0.219 | Contact Map |
| 3cn5A | 1 | 0.8517 | 100 | 0.22 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)