GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FlgD_ig - FlgD Ig-like domain
Pfam: PF13860 (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: CL0159
Length: 81
Sequences: 1324
Seq/Len: 16.35
HH_delta: 0.055 (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
33_D37_Q1.314344.740
60_D64_N0.983213.546
32_Y38_V0.794942.867
32_Y74_R0.679542.451
30_T38_V0.656052.366
59_K65_P0.548431.978
40_R61_D0.547191.973
60_D66_V0.518721.871
29_V75_V0.483211.743
18_Y47_Q0.483021.742
30_T74_R0.47611.717
30_T76_T0.475931.716
24_A27_V0.445931.608
18_Y52_H0.405681.463
34_S72_T0.370581.336
40_R57_D0.368911.330
32_Y72_T0.365381.318
56_W66_V0.365221.317
28_T76_T0.356991.287
47_Q52_H0.351881.269
16_I31_I0.332761.200
15_S53_S0.318561.149
17_E53_S0.315091.136
31_I73_F0.309181.115
20_L24_A0.307891.110
18_Y75_V0.305921.103
48_S52_H0.304571.098
20_L27_V0.292591.055
17_E51_E0.290941.049
35_N38_V0.288151.039
56_W63_G0.28631.032
41_T61_D0.285421.029
57_D63_G0.273470.986
27_V77_A0.25880.933
40_R59_K0.253610.915
31_I56_W0.25060.904
42_I54_F0.247380.892
23_D49_A0.245220.884
24_A77_A0.241820.872
31_I57_D0.241590.871
16_I73_F0.236340.852
30_T41_T0.23390.843
68_D72_T0.226640.817
70_T73_F0.226110.815
70_T74_R0.225040.812
38_V41_T0.220580.795
19_T51_E0.219490.792
49_A52_H0.213190.769
39_V66_V0.212980.768
31_I71_Y0.208410.752
39_V67_P0.20540.741
66_V71_Y0.205080.740
15_S55_T0.204990.739
28_T41_T0.204290.737
63_G66_V0.203240.733
26_N48_S0.202490.730
34_S68_D0.201190.726
18_Y27_V0.199610.720
14_G73_F0.194540.702
58_G63_G0.194340.701
44_L47_Q0.192090.693
22_E26_N0.191820.692
26_N78_T0.190250.686
14_G68_D0.187110.675
23_D46_S0.186430.672
31_I54_F0.180880.652
22_E49_A0.178950.645
31_I40_R0.178020.642
43_S47_Q0.176780.638
39_V60_D0.175730.634
29_V73_F0.175330.632
58_G66_V0.172860.623
33_D39_V0.170.613
26_N46_S0.168950.609
16_I54_F0.168770.609
38_V74_R0.168440.607
56_W73_F0.164010.591
33_D67_P0.163070.588
52_H75_V0.162190.585
25_D77_A0.161570.583
66_V69_G0.161520.582
20_L50_G0.161230.581
17_E26_N0.160210.578
18_Y44_L0.159690.576
59_K66_V0.159170.574
73_F77_A0.157070.566
20_L77_A0.157070.566
32_Y36_G0.156610.565
34_S55_T0.155130.559
20_L45_G0.153590.554
34_S37_Q0.152880.551
42_I78_T0.152860.551
43_S64_N0.150870.544
59_K78_T0.150680.543
62_D65_P0.149820.540
20_L49_A0.148720.536
27_V36_G0.148090.534
29_V44_L0.147860.533
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
3osvA0.975399.50.055
3c12A0.96399.40.119
1xf1A1990.265
3isyA0.913693.30.702
2hr0A0.888991.60.716
3d33A0.851991.20.719
2b39A0.888991.20.719
3cu7A0.876590.80.722
2xwxA0.901290.60.723
1lyqA0.8765900.727

Page generated in 0.0478 seconds.