| cus-210 |
| ID: | 1419259973 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 210 (197) | ||
| Sequences: | 1441 (1096.7) | ||
| Seq/Len: | 7.315 | ||
| Nf(neff/√len): | 78.1 |
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: 7.315).
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 |
| 92_D | 96_K | 3.820 | 1.00 |
| 48_I | 176_H | 2.431 | 1.00 |
| 90_L | 167_L | 2.410 | 1.00 |
| 89_S | 168_Y | 2.372 | 1.00 |
| 47_D | 176_H | 2.343 | 1.00 |
| 16_L | 20_I | 2.300 | 1.00 |
| 39_V | 43_F | 2.184 | 1.00 |
| 171_L | 176_H | 2.120 | 1.00 |
| 48_I | 149_R | 2.072 | 1.00 |
| 152_N | 168_Y | 2.005 | 1.00 |
| 42_H | 176_H | 1.901 | 1.00 |
| 39_V | 183_L | 1.836 | 1.00 |
| 20_I | 206_V | 1.820 | 1.00 |
| 13_A | 207_H | 1.745 | 1.00 |
| 138_H | 141_G | 1.744 | 1.00 |
| 92_D | 95_G | 1.712 | 1.00 |
| 20_I | 202_V | 1.597 | 1.00 |
| 154_P | 166_T | 1.573 | 1.00 |
| 205_A | 209_G | 1.535 | 1.00 |
| 181_N | 185_N | 1.522 | 0.99 |
| 88_I | 169_I | 1.506 | 0.99 |
| 23_A | 205_A | 1.467 | 0.99 |
| 55_S | 153_L | 1.457 | 0.99 |
| 91_A | 97_T | 1.448 | 0.99 |
| 23_A | 27_A | 1.433 | 0.99 |
| 91_A | 168_Y | 1.416 | 0.99 |
| 22_L | 199_V | 1.396 | 0.99 |
| 42_H | 45_E | 1.357 | 0.99 |
| 117_D | 120_A | 1.354 | 0.98 |
| 202_V | 206_V | 1.353 | 0.98 |
| 39_V | 42_H | 1.345 | 0.98 |
| 142_H | 145_H | 1.344 | 0.98 |
| 27_A | 203_L | 1.330 | 0.98 |
| 203_L | 207_H | 1.329 | 0.98 |
| 89_S | 203_L | 1.319 | 0.98 |
| 35_M | 43_F | 1.310 | 0.98 |
| 47_D | 171_L | 1.293 | 0.98 |
| 43_F | 180_I | 1.275 | 0.98 |
| 36_I | 184_M | 1.266 | 0.97 |
| 101_S | 152_N | 1.260 | 0.97 |
| 189_M | 192_S | 1.253 | 0.97 |
| 35_M | 183_L | 1.247 | 0.97 |
| 52_K | 151_I | 1.239 | 0.97 |
| 190_T | 202_V | 1.234 | 0.97 |
| 203_L | 210_H | 1.232 | 0.97 |
| 20_I | 201_I | 1.215 | 0.96 |
| 176_H | 179_Y | 1.203 | 0.96 |
| 88_I | 191_A | 1.203 | 0.96 |
| 55_S | 151_I | 1.179 | 0.96 |
| 10_F | 14_T | 1.160 | 0.95 |
| 48_I | 170_A | 1.160 | 0.95 |
| 204_L | 207_H | 1.155 | 0.95 |
| 35_M | 39_V | 1.152 | 0.95 |
| 53_E | 85_N | 1.148 | 0.95 |
| 95_G | 98_V | 1.148 | 0.95 |
| 45_E | 178_H | 1.148 | 0.95 |
| 19_F | 205_A | 1.142 | 0.94 |
| 100_H | 104_A | 1.141 | 0.94 |
| 50_D | 171_L | 1.133 | 0.94 |
| 46_Q | 187_L | 1.132 | 0.94 |
| 16_L | 206_V | 1.131 | 0.94 |
| 40_K | 44_A | 1.130 | 0.94 |
| 150_M | 168_Y | 1.127 | 0.94 |
| 28_F | 31_F | 1.120 | 0.94 |
| 148_W | 151_I | 1.118 | 0.94 |
| 13_A | 17_T | 1.111 | 0.93 |
| 28_F | 32_A | 1.106 | 0.93 |
| 88_I | 171_L | 1.104 | 0.93 |
| 192_S | 196_I | 1.100 | 0.93 |
| 42_H | 46_Q | 1.098 | 0.93 |
| 112_R | 197_L | 1.091 | 0.93 |
| 171_L | 175_F | 1.090 | 0.92 |
| 174_D | 189_M | 1.086 | 0.92 |
| 61_V | 205_A | 1.077 | 0.92 |
| 166_T | 182_D | 1.069 | 0.92 |
| 176_H | 206_V | 1.069 | 0.92 |
| 84_S | 172_S | 1.058 | 0.91 |
| 49_N | 178_H | 1.054 | 0.91 |
| 33_W | 37_H | 1.053 | 0.91 |
| 171_L | 191_A | 1.045 | 0.90 |
| 87_L | 172_S | 1.045 | 0.90 |
| 24_T | 92_D | 1.044 | 0.90 |
| 43_F | 47_D | 1.042 | 0.90 |
| 31_F | 194_I | 1.042 | 0.90 |
| 35_M | 187_L | 1.039 | 0.90 |
| 84_S | 209_G | 1.039 | 0.90 |
| 35_M | 46_Q | 1.038 | 0.90 |
| 43_F | 176_H | 1.037 | 0.90 |
| 25_I | 106_D | 1.037 | 0.90 |
| 94_Q | 204_L | 1.033 | 0.90 |
| 76_L | 79_I | 1.026 | 0.89 |
| 50_D | 54_I | 1.025 | 0.89 |
| 12_L | 181_N | 1.015 | 0.88 |
| 55_S | 169_I | 1.013 | 0.88 |
| 59_E | 62_L | 1.011 | 0.88 |
| 203_L | 209_G | 1.011 | 0.88 |
| 58_L | 88_I | 1.007 | 0.88 |
| 37_H | 40_K | 1.007 | 0.88 |
| 50_D | 53_E | 1.004 | 0.88 |
| 15_R | 18_F | 1.003 | 0.88 |
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 | |
| 2kseA | 1 | 0.3667 | 99.6 | 0.471 | Contact Map |
| 4cq4A | 4 | 0.1619 | 67.3 | 0.873 | Contact Map |
| 3cwfA | 2 | 0.519 | 10.9 | 0.918 | Contact Map |
| 3e4oA | 2 | 0.6857 | 8.4 | 0.922 | Contact Map |
| 4onxA | 6 | 0.5952 | 5.1 | 0.929 | Contact Map |
| 3arcE | 2 | 0.181 | 3.5 | 0.935 | Contact Map |
| 2f95B | 1 | 0.2524 | 3.1 | 0.936 | Contact Map |
| 2l6wA | 2 | 0.1857 | 2.4 | 0.94 | Contact Map |
| 4u65A | 4 | 0.6095 | 2.4 | 0.94 | Contact Map |
| 2l5bA | 1 | 0.1476 | 2.1 | 0.942 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)