GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
OST-HTH - OST-HTHLOTUS domain
Pfam: PF12872 (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: CL0123
Length: 74
Sequences: 747
Seq/Len: 10.09
HH_delta: 0.148 (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
47_F56_S0.551422.872
30_G50_L0.526812.744
30_G40_F0.356311.856
7_K11_R0.33481.744
49_S52_E0.296371.544
12_E36_K0.284521.482
7_K59_D0.281311.465
7_K61_V0.276381.440
14_L24_V0.262651.368
14_L29_L0.251191.308
26_L50_L0.250881.307
23_W61_V0.248181.293
40_F50_L0.246561.284
24_V29_L0.245781.280
15_E48_S0.241121.256
27_S30_G0.237881.239
26_L51_S0.232411.211
64_E67_Q0.229721.197
28_Q31_Q0.229671.196
26_L54_L0.22341.164
11_R61_V0.22291.161
9_L37_Y0.217521.133
35_K38_P0.211831.103
15_E59_D0.207451.081
19_G66_R0.20711.079
9_L13_L0.207071.079
11_R60_V0.205881.072
7_K62_E0.201721.051
52_E55_E0.189330.986
27_S31_Q0.189010.985
50_L53_L0.184990.964
39_D43_R0.183780.957
6_L24_V0.179630.936
6_L14_L0.178950.932
34_K37_Y0.17890.932
55_E66_R0.178070.928
31_Q35_K0.174890.911
47_F60_V0.174150.907
23_W62_E0.173830.906
17_Q24_V0.172940.901
11_R63_I0.17210.896
6_L53_L0.171090.891
11_R15_E0.168610.878
23_W38_P0.168540.878
54_L63_I0.168390.877
13_L32_E0.167920.875
11_R56_S0.166450.867
25_S28_Q0.165870.864
18_K49_S0.164880.859
27_S43_R0.163980.854
14_L17_Q0.161650.842
36_K44_D0.161190.840
33_Y53_L0.160360.835
5_E67_Q0.156140.813
30_G42_P0.155570.810
13_L37_Y0.155460.810
60_V63_I0.154610.805
16_S55_E0.154020.802
30_G43_R0.153680.801
17_Q35_K0.153580.800
13_L36_K0.153550.800
7_K13_L0.153460.799
13_L33_Y0.152760.796
34_K39_D0.152070.792
10_L62_E0.151790.791
26_L66_R0.149080.777
19_G24_V0.148990.776
38_P48_S0.148660.774
32_E54_L0.148240.772
45_Y53_L0.143730.749
16_S36_K0.143410.747
8_K11_R0.142360.742
33_Y48_S0.141850.739
8_K59_D0.14050.732
17_Q34_K0.138470.721
5_E8_K0.138010.719
47_F52_E0.13720.715
25_S29_L0.13530.705
53_L61_V0.135250.705
40_F43_R0.134710.702
39_D49_S0.134480.701
46_G56_S0.132730.691
62_E67_Q0.131830.687
41_D49_S0.13120.683
18_K26_L0.131050.683
23_W29_L0.129890.677
28_Q67_Q0.129540.675
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
2kzvA0.986599.30.148
2kpmA199.30.16
3s93A0.945998.50.396
3rcoA0.945998.40.42
2a07F0.97365.90.784
1vtnC0.97348.50.805
2c6yA0.97347.20.806
2i2xA0.567645.60.808
1kq8A0.97345.60.808
3g73A0.97344.20.81

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