| P05100 |
| ID: | 1509368630 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 187 (185) | ||
| Sequences: | 3811 (2472.8) | ||
| Seq/Len: | 20.600 | ||
| Nf(neff/√len): | 181.8 |
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: 20.600).
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 |
| 61_H | 71_M | 4.148 | 1.00 |
| 15_A | 19_N | 3.497 | 1.00 |
| 143_D | 159_T | 3.262 | 1.00 |
| 26_T | 113_V | 2.964 | 1.00 |
| 97_G | 155_K | 2.884 | 1.00 |
| 75_D | 78_R | 2.824 | 1.00 |
| 138_S | 143_D | 2.706 | 1.00 |
| 115_F | 148_A | 2.540 | 1.00 |
| 55_N | 84_G | 2.347 | 1.00 |
| 47_I | 51_K | 2.310 | 1.00 |
| 166_M | 171_L | 2.273 | 1.00 |
| 40_Q | 56_Y | 2.271 | 1.00 |
| 49_V | 86_I | 2.221 | 1.00 |
| 89_R | 93_Q | 2.175 | 1.00 |
| 148_A | 152_R | 2.076 | 1.00 |
| 36_C | 95_I | 2.025 | 1.00 |
| 52_K | 86_I | 1.977 | 1.00 |
| 23_V | 181_C | 1.969 | 1.00 |
| 66_V | 103_L | 1.958 | 1.00 |
| 76_V | 96_I | 1.957 | 1.00 |
| 76_V | 93_Q | 1.912 | 1.00 |
| 72_Q | 75_D | 1.895 | 1.00 |
| 20_E | 53_R | 1.892 | 1.00 |
| 97_G | 101_A | 1.841 | 1.00 |
| 13_Y | 47_I | 1.822 | 1.00 |
| 65_P | 103_L | 1.770 | 1.00 |
| 33_E | 57_R | 1.761 | 1.00 |
| 101_A | 104_Q | 1.744 | 1.00 |
| 138_S | 159_T | 1.720 | 1.00 |
| 34_M | 169_C | 1.712 | 1.00 |
| 10_D | 47_I | 1.709 | 1.00 |
| 102_Y | 112_F | 1.666 | 1.00 |
| 145_L | 162_C | 1.660 | 1.00 |
| 58_A | 84_G | 1.646 | 1.00 |
| 120_V | 124_P | 1.618 | 1.00 |
| 119_F | 148_A | 1.616 | 1.00 |
| 25_E | 30_K | 1.606 | 1.00 |
| 60_F | 95_I | 1.590 | 1.00 |
| 40_Q | 95_I | 1.559 | 1.00 |
| 108_N | 152_R | 1.549 | 1.00 |
| 115_F | 119_F | 1.548 | 1.00 |
| 131_T | 134_E | 1.493 | 1.00 |
| 66_V | 106_E | 1.487 | 1.00 |
| 55_N | 59_C | 1.484 | 1.00 |
| 104_Q | 107_Q | 1.477 | 1.00 |
| 28_S | 111_P | 1.420 | 1.00 |
| 167_Q | 174_D | 1.408 | 1.00 |
| 90_G | 93_Q | 1.380 | 0.99 |
| 141_A | 145_L | 1.357 | 0.99 |
| 65_P | 102_Y | 1.356 | 0.99 |
| 141_A | 144_A | 1.351 | 0.99 |
| 7_V | 13_Y | 1.347 | 0.99 |
| 177_V | 182_Y | 1.341 | 0.99 |
| 181_C | 184_G | 1.332 | 0.99 |
| 80_V | 92_I | 1.320 | 0.99 |
| 30_K | 34_M | 1.315 | 0.99 |
| 10_D | 51_K | 1.314 | 0.99 |
| 148_A | 151_K | 1.310 | 0.99 |
| 58_A | 82_D | 1.301 | 0.99 |
| 140_S | 143_D | 1.299 | 0.99 |
| 85_I | 92_I | 1.291 | 0.99 |
| 94_A | 155_K | 1.291 | 0.99 |
| 139_T | 172_V | 1.284 | 0.99 |
| 130_T | 134_E | 1.244 | 0.98 |
| 11_P | 14_I | 1.237 | 0.98 |
| 11_P | 15_A | 1.237 | 0.98 |
| 55_N | 58_A | 1.233 | 0.98 |
| 29_K | 64_D | 1.231 | 0.98 |
| 5_G | 176_V | 1.229 | 0.98 |
| 73_E | 93_Q | 1.228 | 0.98 |
| 165_F | 169_C | 1.222 | 0.98 |
| 61_H | 67_K | 1.213 | 0.98 |
| 59_C | 79_L | 1.212 | 0.98 |
| 79_L | 85_I | 1.206 | 0.98 |
| 125_Q | 141_A | 1.199 | 0.98 |
| 4_C | 17_H | 1.189 | 0.98 |
| 73_E | 77_E | 1.184 | 0.98 |
| 31_L | 169_C | 1.182 | 0.98 |
| 33_E | 53_R | 1.180 | 0.98 |
| 54_E | 57_R | 1.176 | 0.98 |
| 39_G | 157_V | 1.176 | 0.98 |
| 61_H | 75_D | 1.166 | 0.97 |
| 3_R | 14_I | 1.161 | 0.97 |
| 101_A | 154_F | 1.156 | 0.97 |
| 28_S | 106_E | 1.145 | 0.97 |
| 5_G | 132_L | 1.139 | 0.97 |
| 34_M | 38_E | 1.139 | 0.97 |
| 31_L | 165_F | 1.124 | 0.97 |
| 115_F | 152_R | 1.114 | 0.96 |
| 8_S | 14_I | 1.111 | 0.96 |
| 59_C | 84_G | 1.082 | 0.96 |
| 3_R | 18_D | 1.047 | 0.94 |
| 109_G | 152_R | 1.037 | 0.94 |
| 12_L | 51_K | 1.031 | 0.94 |
| 112_F | 116_V | 1.028 | 0.94 |
| 105_M | 109_G | 1.025 | 0.93 |
| 59_C | 82_D | 1.023 | 0.93 |
| 32_F | 95_I | 1.019 | 0.93 |
| 20_E | 33_E | 1.007 | 0.93 |
| 71_M | 75_D | 1.007 | 0.93 |
| 77_E | 81_Q | 1.000 | 0.92 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 2jg6A | 1 | 0.9947 | 100 | -0.012 | Contact Map |
| 2ofkA | 2 | 0.9786 | 100 | 0.006 | Contact Map |
| 3n0uA | 3 | 0.754 | 95.4 | 0.919 | Contact Map |
| 1kg2A | 1 | 0.7701 | 92.9 | 0.928 | Contact Map |
| 1ornA | 1 | 0.7861 | 90.8 | 0.932 | Contact Map |
| 1keaA | 1 | 0.7861 | 90.5 | 0.932 | Contact Map |
| 3s6iA | 2 | 0.8235 | 89.9 | 0.933 | Contact Map |
| 2yg9A | 2 | 0.8235 | 88.8 | 0.935 | Contact Map |
| 3fspA | 1 | 0.7754 | 88.7 | 0.935 | Contact Map |
| 4uobA | 1 | 0 | 88.4 | 0.935 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)