GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
S1-like - S1-like
Pfam: PF14444 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Clan: CL0021
Length: 58
Sequences: 3545
Seq/Len: 61.12
HH_delta: 0.283 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

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] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
5_T41_L1.128692.554
7_V39_R1.040762.355
9_T21_D0.991352.243
5_T39_R0.977952.213
46_Y51_P0.947092.143
13_D35_K0.86241.952
26_T33_V0.76321.727
47_N50_M0.761781.724
6_G18_I0.706521.599
22_V44_A0.620221.404
4_F43_E0.593291.343
18_I40_V0.588561.332
8_V40_V0.558531.264
44_A51_P0.543561.230
35_K38_D0.541941.226
10_K21_D0.533721.208
29_V32_N0.498831.129
17_F23_F0.495991.122
18_I42_V0.491611.113
13_D32_N0.488511.105
26_T29_V0.481391.089
13_D34_P0.475381.076
6_G42_V0.452491.024
26_T34_P0.451431.022
26_T30_K0.434320.983
24_F28_V0.426270.965
34_P38_D0.424840.961
4_F42_V0.422770.957
20_E48_P0.398370.902
11_L26_T0.395410.895
17_F25_Q0.39490.894
27_D43_E0.391230.885
24_F29_V0.391020.885
4_F7_V0.385470.872
10_K24_F0.378810.857
11_L24_F0.374680.848
8_V11_L0.374680.848
47_N51_P0.374550.848
29_V40_V0.365650.827
22_V42_V0.36470.825
4_F44_A0.35890.812
22_V28_V0.349640.791
32_N35_K0.342820.776
4_F30_K0.338570.766
26_T32_N0.329880.747
8_V24_F0.327030.740
16_G24_F0.319880.724
20_E51_P0.318920.722
24_F38_D0.31650.716
9_T28_V0.30930.700
20_E46_Y0.306850.694
45_I49_N0.305580.692
10_K36_V0.302130.684
35_K45_I0.296260.670
15_Y23_F0.294670.667
28_V45_I0.29030.657
4_F19_D0.288030.652
28_V42_V0.286940.649
19_D42_V0.286210.648
18_I24_F0.286060.647
41_L45_I0.283090.641
8_V18_I0.282810.640
17_F50_M0.282720.640
7_V43_E0.28010.634
26_T38_D0.278110.629
13_D26_T0.275410.623
14_D39_R0.272310.616
22_V45_I0.270830.613
29_V33_V0.265170.600
12_C15_Y0.262270.594
4_F41_L0.25970.588
15_Y25_Q0.25640.580
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
1wfqA0.9655990.283
1x65A1990.284
2ytyA0.9655990.285
3uljA0.9483990.291
1h95A0.9483990.294
3camA0.9138990.295
1c9oA0.9138990.298
3aqqA1990.298
2lssA0.948398.90.305
3a0jA0.913898.90.307

Page generated in 0.0325 seconds.