| calmodulin dep kinase |
| ID: | 1420769135 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 167 (155) | ||
| Sequences: | 6388 (4210.7) | ||
| Seq/Len: | 41.213 | ||
| Nf(neff/√len): | 338.2 |
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: 41.213).
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 |
| 98_C | 140_K | 4.659 | 1.00 |
| 29_L | 49_P | 3.370 | 1.00 |
| 96_S | 103_E | 2.955 | 1.00 |
| 92_D | 97_G | 2.791 | 1.00 |
| 14_R | 18_G | 2.775 | 1.00 |
| 85_R | 143_F | 2.637 | 1.00 |
| 56_D | 61_G | 2.576 | 1.00 |
| 134_D | 145_E | 2.202 | 1.00 |
| 89_Q | 95_R | 2.152 | 1.00 |
| 14_R | 65_M | 2.017 | 1.00 |
| 143_F | 147_K | 2.011 | 1.00 |
| 6_T | 9_E | 1.998 | 1.00 |
| 101_K | 127_D | 1.992 | 1.00 |
| 134_D | 139_G | 1.979 | 1.00 |
| 94_D | 103_E | 1.971 | 1.00 |
| 142_T | 145_E | 1.951 | 1.00 |
| 105_A | 122_E | 1.949 | 1.00 |
| 93_A | 106_S | 1.922 | 1.00 |
| 134_D | 138_D | 1.906 | 1.00 |
| 134_D | 137_S | 1.895 | 1.00 |
| 25_E | 31_E | 1.862 | 1.00 |
| 60_D | 67_E | 1.837 | 1.00 |
| 92_D | 103_E | 1.828 | 1.00 |
| 21_C | 26_N | 1.810 | 1.00 |
| 138_D | 145_E | 1.775 | 1.00 |
| 96_S | 100_S | 1.717 | 1.00 |
| 17_F | 21_C | 1.691 | 1.00 |
| 22_A | 34_Q | 1.684 | 1.00 |
| 29_L | 52_F | 1.674 | 1.00 |
| 21_C | 24_G | 1.640 | 1.00 |
| 18_G | 24_G | 1.586 | 1.00 |
| 56_D | 59_R | 1.549 | 1.00 |
| 23_D | 31_E | 1.518 | 1.00 |
| 136_D | 142_T | 1.491 | 1.00 |
| 21_C | 31_E | 1.475 | 1.00 |
| 33_E | 45_I | 1.451 | 1.00 |
| 85_R | 89_Q | 1.432 | 1.00 |
| 93_A | 103_E | 1.421 | 1.00 |
| 64_D | 67_E | 1.417 | 1.00 |
| 138_D | 142_T | 1.389 | 0.99 |
| 56_D | 60_D | 1.385 | 0.99 |
| 135_A | 148_A | 1.380 | 0.99 |
| 100_S | 103_E | 1.353 | 0.99 |
| 105_A | 126_L | 1.344 | 0.99 |
| 58_N | 67_E | 1.319 | 0.99 |
| 32_F | 52_F | 1.298 | 0.99 |
| 17_F | 68_I | 1.292 | 0.99 |
| 56_D | 67_E | 1.289 | 0.99 |
| 92_D | 96_S | 1.288 | 0.99 |
| 44_L | 47_L | 1.287 | 0.99 |
| 65_M | 69_L | 1.285 | 0.99 |
| 10_L | 69_L | 1.279 | 0.99 |
| 100_S | 140_K | 1.262 | 0.99 |
| 5_L | 9_E | 1.255 | 0.99 |
| 5_L | 10_L | 1.221 | 0.98 |
| 7_S | 11_D | 1.208 | 0.98 |
| 127_D | 131_D | 1.185 | 0.98 |
| 81_D | 147_K | 1.177 | 0.98 |
| 94_D | 100_S | 1.175 | 0.98 |
| 91_Y | 107_M | 1.171 | 0.98 |
| 101_K | 105_A | 1.151 | 0.97 |
| 89_Q | 143_F | 1.142 | 0.97 |
| 81_D | 85_R | 1.137 | 0.97 |
| 65_M | 68_I | 1.125 | 0.97 |
| 28_T | 31_E | 1.119 | 0.96 |
| 99_I | 104_L | 1.105 | 0.96 |
| 101_K | 130_F | 1.103 | 0.96 |
| 49_P | 53_D | 1.088 | 0.96 |
| 20_I | 35_V | 1.082 | 0.96 |
| 33_E | 37_R | 1.077 | 0.95 |
| 55_F | 63_V | 1.072 | 0.95 |
| 21_C | 25_E | 1.070 | 0.95 |
| 16_H | 19_R | 1.069 | 0.95 |
| 51_V | 71_G | 1.059 | 0.95 |
| 101_K | 126_L | 1.053 | 0.95 |
| 27_A | 35_V | 1.045 | 0.94 |
| 11_D | 15_L | 1.027 | 0.94 |
| 98_C | 142_T | 1.008 | 0.93 |
| 102_E | 105_A | 1.007 | 0.93 |
| 105_A | 127_D | 1.006 | 0.93 |
| 27_A | 32_F | 1.006 | 0.93 |
| 28_T | 62_T | 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 | |
| 4mvfA | 1 | 0.8683 | 99.9 | 0.248 | Contact Map |
| 2obhA | 2 | 0.8443 | 99.9 | 0.271 | Contact Map |
| 4qbdB | 2 | 0.8982 | 99.9 | 0.284 | Contact Map |
| 1exrA | 1 | 0.8623 | 99.9 | 0.287 | Contact Map |
| 3u0kA | 1 | 0.8383 | 99.9 | 0.295 | Contact Map |
| 3qrxA | 1 | 0.8563 | 99.9 | 0.295 | Contact Map |
| 3q5iA | 1 | 0.8743 | 99.9 | 0.296 | Contact Map |
| 3pm8A | 2 | 0.8683 | 99.9 | 0.298 | Contact Map |
| 4ds7A | 4 | 0.8503 | 99.9 | 0.298 | Contact Map |
| 4i2yA | 2 | 0.8623 | 99.9 | 0.301 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)