| 1EH7A |
| ID: | 1411762694 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 172 (163) | ||
| Sequences: | 2646 (2106.5) | ||
| Seq/Len: | 16.233 | ||
| Nf(neff/√len): | 165.0 |
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: 16.233).
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 |
| 146_C | 152_G | 4.068 | 1.00 |
| 163_W | 167_H | 3.906 | 1.00 |
| 64_A | 70_E | 3.819 | 1.00 |
| 93_Q | 119_N | 2.692 | 1.00 |
| 98_L | 101_V | 2.664 | 1.00 |
| 108_I | 116_L | 2.588 | 1.00 |
| 108_I | 113_L | 2.377 | 1.00 |
| 111_Q | 147_S | 2.362 | 1.00 |
| 108_I | 112_Q | 2.270 | 1.00 |
| 20_C | 23_G | 2.269 | 1.00 |
| 111_Q | 115_A | 2.221 | 1.00 |
| 17_L | 24_L | 2.213 | 1.00 |
| 102_V | 144_V | 2.125 | 1.00 |
| 88_E | 91_T | 2.123 | 1.00 |
| 162_E | 166_A | 2.029 | 1.00 |
| 87_Q | 96_W | 2.021 | 1.00 |
| 9_D | 14_K | 1.923 | 1.00 |
| 102_V | 108_I | 1.816 | 1.00 |
| 98_L | 113_L | 1.816 | 1.00 |
| 11_P | 66_F | 1.813 | 1.00 |
| 112_Q | 115_A | 1.812 | 1.00 |
| 90_F | 94_V | 1.785 | 1.00 |
| 57_Q | 61_W | 1.720 | 1.00 |
| 131_R | 152_G | 1.715 | 1.00 |
| 123_A | 127_G | 1.701 | 1.00 |
| 8_L | 63_N | 1.646 | 1.00 |
| 27_I | 138_L | 1.633 | 1.00 |
| 10_S | 13_G | 1.622 | 1.00 |
| 85_F | 139_I | 1.595 | 1.00 |
| 101_V | 116_L | 1.595 | 1.00 |
| 119_N | 122_A | 1.587 | 1.00 |
| 57_Q | 60_A | 1.570 | 1.00 |
| 61_W | 73_E | 1.562 | 1.00 |
| 61_W | 75_F | 1.504 | 1.00 |
| 151_V | 158_L | 1.500 | 1.00 |
| 96_W | 99_L | 1.462 | 1.00 |
| 24_L | 58_C | 1.462 | 1.00 |
| 98_L | 116_L | 1.406 | 0.99 |
| 87_Q | 91_T | 1.395 | 0.99 |
| 130_M | 145_V | 1.395 | 0.99 |
| 108_I | 144_V | 1.394 | 0.99 |
| 136_P | 156_G | 1.388 | 0.99 |
| 99_L | 130_M | 1.385 | 0.99 |
| 10_S | 15_L | 1.382 | 0.99 |
| 17_L | 58_C | 1.355 | 0.99 |
| 70_E | 73_E | 1.352 | 0.99 |
| 91_T | 132_G | 1.347 | 0.99 |
| 58_C | 138_L | 1.312 | 0.99 |
| 6_T | 59_T | 1.277 | 0.99 |
| 166_A | 169_G | 1.271 | 0.99 |
| 12_L | 15_L | 1.249 | 0.99 |
| 128_G | 131_R | 1.242 | 0.98 |
| 97_K | 100_K | 1.231 | 0.98 |
| 62_L | 66_F | 1.231 | 0.98 |
| 89_S | 92_R | 1.228 | 0.98 |
| 153_N | 158_L | 1.202 | 0.98 |
| 64_A | 69_P | 1.190 | 0.98 |
| 20_C | 25_H | 1.185 | 0.98 |
| 29_L | 160_V | 1.178 | 0.98 |
| 111_Q | 123_A | 1.176 | 0.98 |
| 19_G | 55_L | 1.170 | 0.97 |
| 7_T | 14_K | 1.148 | 0.97 |
| 87_Q | 94_V | 1.136 | 0.97 |
| 68_Q | 73_E | 1.132 | 0.97 |
| 128_G | 152_G | 1.121 | 0.97 |
| 65_Y | 104_F | 1.116 | 0.96 |
| 60_A | 64_A | 1.113 | 0.96 |
| 94_V | 113_L | 1.112 | 0.96 |
| 61_W | 70_E | 1.105 | 0.96 |
| 68_Q | 72_I | 1.093 | 0.96 |
| 133_N | 141_C | 1.089 | 0.96 |
| 111_Q | 127_G | 1.089 | 0.96 |
| 8_L | 59_T | 1.085 | 0.96 |
| 131_R | 155_S | 1.075 | 0.95 |
| 88_E | 94_V | 1.055 | 0.95 |
| 97_K | 101_V | 1.055 | 0.95 |
| 146_C | 153_N | 1.048 | 0.94 |
| 128_G | 132_G | 1.031 | 0.94 |
| 98_L | 117_A | 1.024 | 0.93 |
| 91_T | 94_V | 1.021 | 0.93 |
| 113_L | 126_V | 1.010 | 0.93 |
| 17_L | 55_L | 1.006 | 0.93 |
| 20_C | 78_P | 1.001 | 0.92 |
| 91_T | 96_W | 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
- 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 | |
| 3l00A | 1 | 0.8895 | 100 | 0.113 | Contact Map |
| 1eh6A | 1 | 0.9477 | 100 | 0.117 | Contact Map |
| 1sfeA | 1 | 0.9477 | 100 | 0.152 | Contact Map |
| 4bhbA | 1 | 0.9128 | 100 | 0.167 | Contact Map |
| 1wrjA | 1 | 0.8663 | 100 | 0.196 | Contact Map |
| 2g7hA | 1 | 0.8895 | 100 | 0.304 | Contact Map |
| 1mgtA | 1 | 0.9244 | 100 | 0.342 | Contact Map |
| 2kifA | 1 | 0.4942 | 100 | 0.415 | Contact Map |
| 3gvaA | 2 | 0.5 | 100 | 0.419 | Contact Map |
| 3f2gA | 2 | 0.5233 | 9.6 | 0.953 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)