| eldelumab HC |
| ID: | 1454347349 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 110 (108) | ||
| Sequences: | 7152 (3840.2) | ||
| Seq/Len: | 66.222 | ||
| Nf(neff/√len): | 369.5 |
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: 66.222).
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 |
| 13_L | 79_L | 3.096 | 1.00 |
| 38_Q | 85_A | 2.180 | 1.00 |
| 55_R | 59_I | 2.127 | 1.00 |
| 37_Y | 47_L | 2.104 | 1.00 |
| 57_T | 60_P | 1.987 | 1.00 |
| 39_Q | 45_P | 1.972 | 1.00 |
| 49_I | 65_G | 1.962 | 1.00 |
| 14_S | 17_E | 1.955 | 1.00 |
| 101_G | 104_T | 1.934 | 1.00 |
| 13_L | 19_A | 1.847 | 1.00 |
| 103_G | 106_V | 1.806 | 1.00 |
| 100_F | 103_G | 1.798 | 1.00 |
| 63_F | 76_I | 1.701 | 1.00 |
| 38_Q | 46_R | 1.698 | 1.00 |
| 13_L | 17_E | 1.640 | 1.00 |
| 55_R | 61_D | 1.605 | 1.00 |
| 25_A | 34_L | 1.594 | 1.00 |
| 20_T | 75_T | 1.554 | 1.00 |
| 99_T | 102_P | 1.514 | 1.00 |
| 34_L | 72_F | 1.504 | 1.00 |
| 98_F | 102_P | 1.502 | 1.00 |
| 40_K | 43_Q | 1.488 | 1.00 |
| 35_A | 50_Y | 1.443 | 1.00 |
| 24_R | 71_D | 1.406 | 0.99 |
| 98_F | 105_K | 1.395 | 0.99 |
| 48_L | 63_F | 1.373 | 0.99 |
| 23_C | 36_W | 1.373 | 0.99 |
| 18_R | 75_T | 1.370 | 0.99 |
| 96_P | 105_K | 1.336 | 0.99 |
| 20_T | 73_T | 1.324 | 0.99 |
| 101_G | 106_V | 1.312 | 0.99 |
| 100_F | 106_V | 1.306 | 0.99 |
| 43_Q | 46_R | 1.269 | 0.99 |
| 99_T | 107_D | 1.164 | 0.97 |
| 15_P | 81_P | 1.150 | 0.97 |
| 103_G | 108_I | 1.144 | 0.97 |
| 62_R | 83_D | 1.141 | 0.97 |
| 33_Y | 50_Y | 1.102 | 0.96 |
| 99_T | 105_K | 1.095 | 0.96 |
| 98_F | 101_G | 1.087 | 0.96 |
| 102_P | 105_K | 1.087 | 0.96 |
| 97_I | 106_V | 1.086 | 0.96 |
| 102_P | 106_V | 1.085 | 0.96 |
| 98_F | 107_D | 1.080 | 0.95 |
| 48_L | 59_I | 1.075 | 0.95 |
| 37_Y | 90_Q | 1.057 | 0.95 |
| 83_D | 87_Y | 1.057 | 0.95 |
| 56_A | 59_I | 1.053 | 0.95 |
| 55_R | 60_P | 1.049 | 0.94 |
| 35_A | 90_Q | 1.048 | 0.94 |
| 96_P | 99_T | 1.046 | 0.94 |
| 18_R | 79_L | 1.046 | 0.94 |
| 4_L | 25_A | 1.033 | 0.94 |
| 19_A | 106_V | 1.027 | 0.94 |
| 100_F | 105_K | 1.020 | 0.93 |
| 33_Y | 52_A | 1.010 | 0.93 |
| 104_T | 108_I | 1.009 | 0.93 |
| 47_L | 56_A | 1.007 | 0.93 |
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 | |
| 1dqtA | 4 | 0.9818 | 99.8 | 0.189 | Contact Map |
| 4ut7H | 1 | 0.9818 | 99.8 | 0.206 | Contact Map |
| 4pfeA | 2 | 0 | 99.8 | 0.206 | Contact Map |
| 4aj0A | 4 | 0.9727 | 99.8 | 0.229 | Contact Map |
| 4n8pA | 1 | 0.9545 | 99.8 | 0.234 | Contact Map |
| 1yjdC | 1 | 0.9545 | 99.8 | 0.242 | Contact Map |
| 3k3qA | 1 | 0.9909 | 99.8 | 0.242 | Contact Map |
| 1zvyA | 1 | 0.9727 | 99.8 | 0.245 | Contact Map |
| 4qgyA | 2 | 0.9909 | 99.8 | 0.246 | Contact Map |
| 4i13B | 1 | 0.9909 | 99.8 | 0.252 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)