GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Gelsolin - Gelsolin repeat
Pfam: PF00626 (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: CL0092
Length: 76
Sequences: 1604
Seq/Len: 21.11
HH_delta: 0.007 (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
17_S68_E0.572273.030
66_V72_P0.528212.797
32_W71_E0.397052.102
24_D57_R0.368231.950
12_Q15_L0.357211.891
19_D41_E0.340111.801
15_L32_W0.339761.799
32_W68_E0.291821.545
28_E64_I0.290561.538
33_V65_R0.290011.535
49_A63_V0.275411.458
39_P43_A0.266961.413
47_Q51_E0.26561.406
67_E70_K0.263981.398
18_D36_K0.25951.374
36_K39_P0.255051.350
35_K68_E0.240961.276
20_C33_V0.240291.272
18_D41_E0.233931.238
8_V14_S0.229841.217
16_N19_D0.226341.198
10_L24_D0.226291.198
31_V49_A0.222581.178
51_E58_P0.220161.166
40_E47_Q0.219671.163
20_C37_S0.215981.143
46_A50_Q0.212221.124
46_A52_L0.205441.088
43_A47_Q0.202931.074
17_S35_K0.195381.034
28_E62_E0.192721.020
22_I31_V0.192391.019
16_N56_E0.19151.014
69_G72_P0.189431.003
47_Q50_Q0.183540.972
55_E62_E0.17850.945
29_I53_L0.177220.938
52_L61_P0.175170.927
25_C30_F0.174530.924
24_D29_I0.174070.922
33_V67_E0.173140.917
52_L57_R0.172350.912
13_S64_I0.171680.909
44_F47_Q0.168930.894
38_S41_E0.168420.892
30_F64_I0.167080.885
60_L63_V0.166640.882
31_V46_A0.165830.878
70_K73_A0.165560.877
34_G38_S0.162510.860
24_D28_E0.162030.858
43_A51_E0.161870.857
55_E58_P0.158770.841
22_I70_K0.15870.840
24_D52_L0.158290.838
25_C28_E0.157350.833
68_E73_A0.157310.833
29_I41_E0.155770.825
5_P52_L0.15570.824
39_P45_A0.153880.815
52_L59_P0.153590.813
16_N44_F0.152520.807
11_S43_A0.151120.800
64_I70_K0.150710.798
31_V67_E0.150210.795
10_L14_S0.149540.792
68_E71_E0.149490.791
28_E61_P0.149280.790
30_F72_P0.148530.786
47_Q59_P0.147270.780
17_S36_K0.143480.760
14_S24_D0.143170.758
13_S25_C0.141710.750
12_Q25_C0.141360.748
56_E59_P0.140690.745
10_L35_K0.140650.745
35_K70_K0.140480.744
44_F52_L0.139540.739
6_E18_D0.139490.739
37_S42_K0.139460.738
13_S27_Y0.139450.738
50_Q65_R0.138630.734
14_S67_E0.13680.724
7_Q14_S0.136520.723
28_E35_K0.136420.722
48_L51_E0.13560.718
21_Y27_Y0.135320.716
15_L71_E0.134430.712
46_A70_K0.133620.707
33_V42_K0.133550.707
18_D24_D0.133350.706
20_C45_A0.133270.706
10_L23_L0.13240.701
43_A53_L0.131890.698
14_S52_L0.131450.696
69_G73_A0.131310.695
14_S74_E0.130360.690
11_S63_V0.130010.688
65_R70_K0.12990.688
25_C35_K0.129250.684
6_E55_E0.129230.684
52_L55_E0.128610.681
19_D42_K0.128450.680
5_P27_Y0.127030.673
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
1kcqA199.60.007
1d0nA199.60.018
1svqA0.986899.50.033
1j72A199.50.037
1j72A199.50.08
3fg7A199.50.083
3fg6A199.40.089
3fg7A0.921199.40.094
2fh1A199.40.105
1d0nA199.40.122

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