| 2mzv |
| ID: | 1511347113 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 199 (191) | ||
| Sequences: | 360 (249.3) | ||
| Seq/Len: | 1.885 | ||
| Nf(neff/√len): | 18.0 |
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: 1.885).
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 |
| 39_R | 58_E | 2.502 | 1.00 |
| 68_Y | 176_Y | 2.225 | 1.00 |
| 109_S | 153_E | 2.014 | 0.99 |
| 153_E | 158_S | 1.944 | 0.98 |
| 155_V | 158_S | 1.889 | 0.98 |
| 109_S | 157_T | 1.775 | 0.97 |
| 46_Q | 50_G | 1.762 | 0.97 |
| 68_Y | 88_H | 1.758 | 0.97 |
| 20_A | 55_L | 1.729 | 0.96 |
| 5_G | 48_V | 1.729 | 0.96 |
| 84_Q | 88_H | 1.687 | 0.95 |
| 138_S | 144_L | 1.641 | 0.94 |
| 109_S | 155_V | 1.624 | 0.94 |
| 163_M | 167_V | 1.600 | 0.93 |
| 96_T | 99_D | 1.572 | 0.93 |
| 22_F | 127_H | 1.552 | 0.92 |
| 26_Q | 29_T | 1.545 | 0.92 |
| 176_Y | 189_F | 1.510 | 0.91 |
| 184_T | 195_D | 1.504 | 0.90 |
| 128_A | 165_L | 1.503 | 0.90 |
| 40_V | 168_K | 1.473 | 0.89 |
| 109_S | 158_S | 1.443 | 0.88 |
| 146_E | 166_K | 1.439 | 0.88 |
| 75_K | 80_F | 1.430 | 0.87 |
| 122_Q | 159_A | 1.411 | 0.86 |
| 32_N | 137_N | 1.402 | 0.86 |
| 37_L | 59_V | 1.395 | 0.85 |
| 43_A | 150_A | 1.393 | 0.85 |
| 41_V | 67_L | 1.362 | 0.83 |
| 164_L | 169_R | 1.340 | 0.82 |
| 28_N | 133_Q | 1.324 | 0.81 |
| 107_Q | 110_G | 1.290 | 0.79 |
| 23_A | 136_S | 1.279 | 0.78 |
| 102_A | 105_D | 1.279 | 0.78 |
| 97_S | 113_P | 1.272 | 0.77 |
| 176_Y | 188_G | 1.267 | 0.77 |
| 66_K | 174_E | 1.267 | 0.77 |
| 44_R | 54_H | 1.262 | 0.76 |
| 140_F | 147_V | 1.259 | 0.76 |
| 149_H | 164_L | 1.251 | 0.75 |
| 193_K | 197_D | 1.243 | 0.75 |
| 69_E | 75_K | 1.216 | 0.73 |
| 179_E | 182_K | 1.200 | 0.71 |
| 124_A | 160_K | 1.195 | 0.71 |
| 66_K | 93_P | 1.192 | 0.70 |
| 174_E | 178_V | 1.190 | 0.70 |
| 112_R | 115_P | 1.181 | 0.69 |
| 19_L | 72_I | 1.171 | 0.68 |
| 156_D | 184_T | 1.168 | 0.68 |
| 188_G | 196_L | 1.165 | 0.68 |
| 154_V | 157_T | 1.164 | 0.68 |
| 190_N | 193_K | 1.164 | 0.68 |
| 83_L | 86_F | 1.160 | 0.67 |
| 37_L | 68_Y | 1.158 | 0.67 |
| 53_H | 62_A | 1.147 | 0.66 |
| 49_A | 112_R | 1.141 | 0.66 |
| 189_F | 196_L | 1.139 | 0.65 |
| 133_Q | 182_K | 1.127 | 0.64 |
| 61_D | 146_E | 1.122 | 0.64 |
| 37_L | 129_I | 1.113 | 0.63 |
| 181_H | 190_N | 1.107 | 0.62 |
| 181_H | 189_F | 1.104 | 0.62 |
| 83_L | 88_H | 1.090 | 0.60 |
| 132_I | 178_V | 1.090 | 0.60 |
| 158_S | 176_Y | 1.083 | 0.60 |
| 45_E | 51_T | 1.083 | 0.60 |
| 23_A | 150_A | 1.076 | 0.59 |
| 68_Y | 170_G | 1.070 | 0.58 |
| 174_E | 181_H | 1.067 | 0.58 |
| 30_K | 138_S | 1.064 | 0.58 |
| 9_D | 44_R | 1.059 | 0.57 |
| 165_L | 178_V | 1.059 | 0.57 |
| 158_S | 188_G | 1.058 | 0.57 |
| 178_V | 182_K | 1.051 | 0.56 |
| 73_W | 80_F | 1.050 | 0.56 |
| 20_A | 57_L | 1.045 | 0.55 |
| 48_V | 63_G | 1.041 | 0.55 |
| 80_F | 88_H | 1.040 | 0.55 |
| 59_V | 68_Y | 1.039 | 0.55 |
| 147_V | 157_T | 1.035 | 0.54 |
| 109_S | 154_V | 1.034 | 0.54 |
| 177_K | 181_H | 1.033 | 0.54 |
| 4_L | 100_L | 1.031 | 0.54 |
| 192_K | 195_D | 1.027 | 0.54 |
| 167_V | 178_V | 1.026 | 0.53 |
| 52_L | 84_Q | 1.026 | 0.53 |
| 72_I | 118_D | 1.023 | 0.53 |
| 57_L | 125_A | 1.021 | 0.53 |
| 28_N | 110_G | 1.014 | 0.52 |
| 190_N | 196_L | 1.014 | 0.52 |
| 19_L | 141_P | 1.008 | 0.51 |
| 96_T | 100_L | 1.005 | 0.51 |
| 190_N | 194_V | 1.003 | 0.51 |
| 152_A | 159_A | 1.001 | 0.51 |
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 | |
| 4lziA | 1 | 0.8744 | 100 | 0.264 | Contact Map |
| 2l4vA | 1 | 0.4623 | 99.8 | 0.609 | Contact Map |
| 3ul5A | 4 | 0.4121 | 99.8 | 0.611 | Contact Map |
| 3imaB | 2 | 0.4271 | 99.8 | 0.615 | Contact Map |
| 4n6oB | 1 | 0.4271 | 99.8 | 0.619 | Contact Map |
| 3gaxA | 2 | 0.4221 | 99.8 | 0.623 | Contact Map |
| 1eqkA | 1 | 0.4623 | 99.8 | 0.626 | Contact Map |
| 2ch9A | 1 | 0.4874 | 99.8 | 0.627 | Contact Map |
| 1roaA | 1 | 0.4271 | 99.8 | 0.632 | Contact Map |
| 1yvbI | 1 | 0.4422 | 99.8 | 0.634 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)