| 1oee |
| ID: | 1453971362 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 193 (192) | ||
| Sequences: | 271 (182.7) | ||
| Seq/Len: | 1.411 | ||
| Nf(neff/√len): | 13.2 |
HHblits Results: (2015_06)
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: 1.411).
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_V | 112_I | 3.096 | 1.00 |
| 29_N | 107_Y | 2.708 | 1.00 |
| 50_K | 183_S | 2.597 | 1.00 |
| 90_G | 104_K | 2.585 | 1.00 |
| 92_V | 139_I | 2.182 | 0.99 |
| 177_Y | 189_E | 2.066 | 0.98 |
| 145_I | 149_R | 1.997 | 0.98 |
| 139_I | 156_I | 1.983 | 0.98 |
| 55_F | 71_K | 1.787 | 0.95 |
| 86_G | 95_H | 1.718 | 0.93 |
| 103_C | 128_C | 1.671 | 0.92 |
| 16_K | 19_N | 1.651 | 0.91 |
| 84_M | 95_H | 1.542 | 0.87 |
| 36_D | 88_E | 1.540 | 0.87 |
| 45_L | 183_S | 1.536 | 0.87 |
| 125_L | 163_Q | 1.520 | 0.86 |
| 181_L | 189_E | 1.505 | 0.85 |
| 103_C | 135_A | 1.501 | 0.85 |
| 106_D | 129_K | 1.499 | 0.85 |
| 12_E | 15_Q | 1.497 | 0.85 |
| 128_C | 135_A | 1.486 | 0.84 |
| 57_K | 60_D | 1.468 | 0.83 |
| 38_V | 84_M | 1.456 | 0.83 |
| 71_K | 75_H | 1.444 | 0.82 |
| 117_S | 120_K | 1.444 | 0.82 |
| 55_F | 67_F | 1.394 | 0.79 |
| 116_K | 185_E | 1.393 | 0.78 |
| 35_W | 157_F | 1.368 | 0.77 |
| 157_F | 170_M | 1.358 | 0.76 |
| 18_A | 76_K | 1.327 | 0.74 |
| 92_V | 156_I | 1.304 | 0.72 |
| 128_C | 131_P | 1.299 | 0.71 |
| 157_F | 166_L | 1.289 | 0.70 |
| 83_E | 97_N | 1.280 | 0.70 |
| 93_E | 100_T | 1.272 | 0.69 |
| 108_D | 127_E | 1.269 | 0.69 |
| 21_V | 117_S | 1.262 | 0.68 |
| 84_M | 179_Y | 1.259 | 0.68 |
| 135_A | 160_N | 1.249 | 0.67 |
| 157_F | 172_N | 1.248 | 0.67 |
| 12_E | 16_K | 1.242 | 0.66 |
| 166_L | 170_M | 1.241 | 0.66 |
| 56_Q | 60_D | 1.227 | 0.65 |
| 38_V | 95_H | 1.220 | 0.64 |
| 75_H | 79_A | 1.203 | 0.63 |
| 153_H | 174_P | 1.199 | 0.62 |
| 155_H | 174_P | 1.199 | 0.62 |
| 115_Y | 140_Q | 1.195 | 0.62 |
| 139_I | 158_M | 1.192 | 0.62 |
| 125_L | 170_M | 1.181 | 0.61 |
| 45_L | 48_S | 1.150 | 0.58 |
| 21_V | 119_K | 1.149 | 0.57 |
| 15_Q | 110_Y | 1.133 | 0.56 |
| 182_S | 185_E | 1.120 | 0.55 |
| 25_A | 45_L | 1.118 | 0.54 |
| 48_S | 183_S | 1.117 | 0.54 |
| 124_Y | 168_N | 1.116 | 0.54 |
| 116_K | 150_K | 1.109 | 0.53 |
| 13_V | 17_A | 1.104 | 0.53 |
| 35_W | 145_I | 1.100 | 0.53 |
| 57_K | 61_A | 1.099 | 0.52 |
| 89_D | 156_I | 1.093 | 0.52 |
| 7_G | 10_L | 1.088 | 0.51 |
| 17_A | 57_K | 1.088 | 0.51 |
| 111_K | 157_F | 1.085 | 0.51 |
| 18_A | 157_F | 1.081 | 0.51 |
| 25_A | 31_T | 1.079 | 0.50 |
| 21_V | 24_D | 1.071 | 0.50 |
| 177_Y | 190_M | 1.063 | 0.49 |
| 90_G | 106_D | 1.059 | 0.48 |
| 52_D | 71_K | 1.058 | 0.48 |
| 71_K | 100_T | 1.054 | 0.48 |
| 68_A | 184_E | 1.053 | 0.48 |
| 165_S | 168_N | 1.047 | 0.47 |
| 103_C | 160_N | 1.046 | 0.47 |
| 25_A | 104_K | 1.045 | 0.47 |
| 50_K | 60_D | 1.035 | 0.46 |
| 45_L | 186_V | 1.034 | 0.46 |
| 111_K | 125_L | 1.032 | 0.46 |
| 66_T | 181_L | 1.032 | 0.46 |
| 127_E | 163_Q | 1.031 | 0.46 |
| 157_F | 171_E | 1.030 | 0.45 |
| 13_V | 16_K | 1.029 | 0.45 |
| 60_D | 187_V | 1.028 | 0.45 |
| 95_H | 179_Y | 1.027 | 0.45 |
| 12_E | 168_N | 1.026 | 0.45 |
| 30_R | 49_G | 1.023 | 0.45 |
| 54_V | 115_Y | 1.022 | 0.45 |
| 124_Y | 181_L | 1.019 | 0.44 |
| 67_F | 70_I | 1.016 | 0.44 |
| 53_P | 135_A | 1.014 | 0.44 |
| 36_D | 50_K | 1.013 | 0.44 |
| 42_V | 177_Y | 1.012 | 0.44 |
| 27_V | 65_K | 1.012 | 0.44 |
| 64_T | 70_I | 1.005 | 0.43 |
| 185_E | 188_E | 1.005 | 0.43 |
| 160_N | 184_E | 1.003 | 0.43 |
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 | |
| 1txlA | 1 | 0.9741 | 100 | 0.008 | Contact Map |
| 1z1sA | 1 | 0.6788 | 28 | 0.959 | Contact Map |
| 3oiqB | 1 | 0.1554 | 20 | 0.961 | Contact Map |
| 2ab9A | 1 | 0.1192 | 13.6 | 0.964 | Contact Map |
| 4a60A | 1 | 0.6373 | 12.7 | 0.965 | Contact Map |
| 3ptmA | 2 | 0.487 | 8.1 | 0.968 | Contact Map |
| 2lwxA | 1 | 0.3679 | 8 | 0.968 | Contact Map |
| 1n9rA | 7 | 0.3472 | 6.4 | 0.969 | Contact Map |
| 2ls01 | 1 | 0.6114 | 6.2 | 0.969 | Contact Map |
| 2f73A | 8 | 0.6114 | 5.8 | 0.97 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)