| C51HH |
| ID: | 1465584957 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 190 (184) | ||
| Sequences: | 2169 (1225.7) | ||
| Seq/Len: | 11.788 | ||
| Nf(neff/√len): | 90.4 |
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: 11.788).
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_L | 163_A | 3.729 | 1.00 |
| 122_G | 178_G | 2.479 | 1.00 |
| 54_C | 64_C | 2.454 | 1.00 |
| 25_C | 84_T | 2.342 | 1.00 |
| 22_I | 26_G | 2.167 | 1.00 |
| 32_V | 161_G | 2.043 | 1.00 |
| 19_G | 23_L | 2.012 | 1.00 |
| 134_V | 138_W | 1.997 | 1.00 |
| 82_A | 86_S | 1.941 | 1.00 |
| 24_A | 167_G | 1.788 | 1.00 |
| 126_L | 178_G | 1.783 | 1.00 |
| 28_P | 52_M | 1.737 | 1.00 |
| 98_T | 121_G | 1.672 | 1.00 |
| 18_W | 91_A | 1.658 | 1.00 |
| 160_L | 168_W | 1.623 | 1.00 |
| 20_G | 170_A | 1.593 | 1.00 |
| 49_G | 54_C | 1.586 | 1.00 |
| 14_C | 125_Y | 1.583 | 1.00 |
| 29_M | 47_W | 1.534 | 1.00 |
| 75_T | 79_A | 1.511 | 1.00 |
| 85_V | 89_L | 1.460 | 1.00 |
| 15_L | 99_L | 1.441 | 1.00 |
| 137_C | 140_A | 1.426 | 1.00 |
| 146_E | 149_D | 1.426 | 1.00 |
| 165_Y | 168_W | 1.408 | 1.00 |
| 135_P | 139_F | 1.393 | 0.99 |
| 122_G | 129_G | 1.390 | 0.99 |
| 136_L | 167_G | 1.381 | 0.99 |
| 87_A | 128_C | 1.380 | 0.99 |
| 129_G | 178_G | 1.354 | 0.99 |
| 164_L | 168_W | 1.349 | 0.99 |
| 165_Y | 169_A | 1.341 | 0.99 |
| 20_G | 166_I | 1.332 | 0.99 |
| 48_K | 53_S | 1.328 | 0.99 |
| 132_A | 170_A | 1.324 | 0.99 |
| 84_T | 88_V | 1.299 | 0.99 |
| 133_L | 137_C | 1.294 | 0.99 |
| 76_E | 80_A | 1.285 | 0.99 |
| 122_G | 126_L | 1.274 | 0.99 |
| 23_L | 27_L | 1.261 | 0.99 |
| 87_A | 132_A | 1.259 | 0.99 |
| 123_V | 126_L | 1.253 | 0.99 |
| 123_V | 127_F | 1.247 | 0.99 |
| 2_G | 7_E | 1.240 | 0.98 |
| 27_L | 162_A | 1.240 | 0.98 |
| 12_V | 16_V | 1.233 | 0.98 |
| 140_A | 168_W | 1.233 | 0.98 |
| 28_P | 49_G | 1.233 | 0.98 |
| 78_Q | 82_A | 1.227 | 0.98 |
| 132_A | 171_T | 1.213 | 0.98 |
| 65_K | 68_D | 1.213 | 0.98 |
| 171_T | 175_M | 1.213 | 0.98 |
| 76_E | 139_F | 1.200 | 0.98 |
| 50_L | 54_C | 1.192 | 0.98 |
| 137_C | 141_N | 1.191 | 0.98 |
| 84_T | 102_A | 1.177 | 0.98 |
| 78_Q | 81_R | 1.172 | 0.98 |
| 10_G | 177_G | 1.171 | 0.98 |
| 17_G | 174_L | 1.171 | 0.98 |
| 170_A | 176_V | 1.166 | 0.97 |
| 17_G | 177_G | 1.156 | 0.97 |
| 90_L | 124_L | 1.149 | 0.97 |
| 89_L | 96_F | 1.108 | 0.96 |
| 84_T | 132_A | 1.104 | 0.96 |
| 21_L | 132_A | 1.096 | 0.96 |
| 24_A | 170_A | 1.095 | 0.96 |
| 13_L | 16_V | 1.085 | 0.96 |
| 79_A | 83_L | 1.083 | 0.96 |
| 17_G | 178_G | 1.077 | 0.95 |
| 31_Q | 139_F | 1.074 | 0.95 |
| 86_S | 106_T | 1.065 | 0.95 |
| 84_T | 135_P | 1.048 | 0.94 |
| 104_C | 131_L | 1.046 | 0.94 |
| 143_V | 158_Y | 1.045 | 0.94 |
| 126_L | 130_L | 1.044 | 0.94 |
| 93_V | 113_A | 1.042 | 0.94 |
| 129_G | 175_M | 1.040 | 0.94 |
| 158_Y | 163_A | 1.039 | 0.94 |
| 20_G | 23_L | 1.038 | 0.94 |
| 31_Q | 48_K | 1.038 | 0.94 |
| 4_A | 184_G | 1.037 | 0.94 |
| 130_L | 137_C | 1.037 | 0.94 |
| 80_A | 135_P | 1.035 | 0.94 |
| 137_C | 168_W | 1.035 | 0.94 |
| 3_S | 11_L | 1.026 | 0.94 |
| 89_L | 184_G | 1.016 | 0.93 |
| 86_S | 111_G | 1.011 | 0.93 |
| 140_A | 144_V | 1.002 | 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 | |
| 3x29A | 2 | 0.8789 | 100 | 0.175 | Contact Map |
| 4p79A | 1 | 0.9368 | 100 | 0.22 | Contact Map |
| 1nkzA | 3 | 0.2211 | 4.7 | 0.942 | Contact Map |
| 1xrdA | 1 | 0.2211 | 4.7 | 0.942 | Contact Map |
| 4jc95 | 14 | 0.1789 | 4.3 | 0.943 | Contact Map |
| 2mc7A | 1 | 0.1579 | 3.9 | 0.944 | Contact Map |
| 2lk9A | 1 | 0.1263 | 3 | 0.947 | Contact Map |
| 4k5yA | 3 | 0.5053 | 1.7 | 0.954 | Contact Map |
| 3wmmA | 16 | 0.2368 | 1.7 | 0.954 | Contact Map |
| 1ijdA | 3 | 0.1842 | 1.6 | 0.955 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)