GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FCD - FCD domain
Pfam: PF07729 (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: CL0388
Length: 125
Sequences: 10646
Seq/Len: 85.17
HH_delta: 0.087 (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
30_E108_R2.868673.617
15_R116_R2.454513.095
111_D114_A2.290542.888
37_E101_R2.082.623
8_L12_A1.915472.415
1_E66_P1.637612.065
28_E58_A1.48691.875
106_A114_A1.453761.833
7_E124_E1.429231.802
26_I108_R1.414121.783
19_Q112_P1.398061.763
25_D64_G1.380491.741
4_E16_L1.379681.740
22_T25_D1.369141.726
58_A61_E1.266221.597
114_A118_A1.256651.584
44_D47_E1.245761.571
61_E69_I1.237831.561
5_V71_I1.180141.488
11_P120_R1.175151.482
11_P116_R1.161821.465
116_R120_R1.154461.456
33_L104_I1.12571.419
57_R73_E1.103181.391
56_H100_H1.095461.381
12_A15_R1.083491.366
15_R112_P1.081081.363
105_D109_A1.066281.344
60_A72_L1.057971.334
25_D62_A1.052081.327
1_E67_Y1.049411.323
117_E121_Q1.045781.319
15_R113_E1.017911.283
70_Q74_R1.014931.280
101_R105_D1.014881.280
99_E122_H1.012431.277
14_A115_A0.978711.234
14_A119_L0.977111.232
102_E118_A0.975251.230
13_A60_A0.973791.228
32_L51_A0.969411.222
7_E120_R0.968531.221
112_P116_R0.966171.218
67_Y78_R0.9531.202
30_E104_I0.945041.192
21_I26_I0.941921.188
109_A114_A0.940161.185
6_R10_E0.926781.169
4_E65_N0.920351.160
35_Q51_A0.913751.152
14_A18_A0.906871.143
21_I62_A0.897111.131
7_E11_P0.894751.128
59_L107_I0.894031.127
54_E58_A0.890161.122
31_E35_Q0.887861.119
52_D56_H0.885141.116
21_I110_G0.882731.113
1_E65_N0.87251.100
58_A62_A0.868281.095
114_A117_E0.867961.094
35_Q54_E0.86591.092
103_I119_L0.850551.072
30_E34_E0.844061.064
11_P15_R0.843691.064
21_I25_D0.819691.034
71_I74_R0.818881.032
57_R61_E0.807051.018
104_I108_R0.802531.012
37_E97_L0.794261.001
55_F104_I0.791130.997
38_E42_D0.783940.988
33_L36_M0.769940.971
69_I73_E0.768160.969
63_S69_I0.768120.968
5_V67_Y0.762350.961
32_L58_A0.761020.960
26_I110_G0.758680.957
33_L101_R0.757040.955
106_A111_D0.755690.953
18_A112_P0.75120.947
21_I107_I0.748440.944
32_L54_E0.746920.942
33_L37_E0.740690.934
28_E61_E0.740.933
102_E114_A0.73690.929
34_E38_E0.733430.925
51_A54_E0.730690.921
26_I104_I0.72870.919
113_E117_E0.716520.903
18_A107_I0.713530.900
120_R124_E0.707070.892
50_E54_E0.672820.848
98_E102_E0.672220.848
103_I118_A0.666930.841
102_E121_Q0.664810.838
28_E31_E0.663490.837
23_D27_A0.662520.835
4_E20_R0.659410.831
105_D108_R0.65350.824
97_L101_R0.651290.821
34_E37_E0.64950.819
47_E51_A0.647540.816
25_D28_E0.645240.814
27_A31_E0.643780.812
18_A115_A0.629520.794
16_L20_R0.629070.793
106_A118_A0.625650.789
29_L58_A0.624750.788
67_Y70_Q0.624160.787
47_E50_E0.616050.777
78_R81_R0.614770.775
12_A16_L0.614660.775
16_L65_N0.611090.770
12_A116_R0.610550.770
18_A110_G0.601660.759
28_E32_L0.597490.753
39_A47_E0.596040.752
118_A121_Q0.59450.750
23_D110_G0.593520.748
30_E101_R0.588880.742
34_E101_R0.588280.742
36_M48_F0.587220.740
17_A62_A0.584630.737
56_H122_H0.581320.733
113_E116_R0.581280.733
102_E105_D0.580280.732
100_H122_H0.578390.729
6_R123_I0.576890.727
67_Y71_I0.575610.726
10_E56_H0.573110.723
102_E106_A0.572430.722
14_A112_P0.568470.717
26_I30_E0.565950.714
52_D100_H0.565050.712
20_R64_G0.559480.705
31_E34_E0.554310.699
103_I115_A0.551390.695
57_R76_R0.547210.690
17_A59_L0.545290.688
32_L35_Q0.54480.687
81_R84_Y0.537920.678
57_R69_I0.536540.676
35_Q38_E0.536310.676
35_Q47_E0.536080.676
25_D61_E0.530370.669
22_T64_G0.522420.659
5_V13_A0.522370.659
5_V9_L0.519730.655
27_A108_R0.519260.655
53_I76_R0.519250.655
117_E120_R0.516990.652
15_R19_Q0.513790.648
83_R86_S0.51130.645
4_E8_L0.499990.630
82_F86_S0.488160.615
13_A63_S0.487560.615
35_Q39_A0.486440.613
2_I75_L0.486150.613
53_I80_Q0.485930.613
5_V68_L0.485360.612
8_L68_L0.484060.610
48_F96_S0.477150.602
30_E105_D0.47690.601
103_I122_H0.475140.599
94_E98_E0.472740.596
16_L63_S0.46990.592
92_D96_S0.46860.591
93_L96_S0.468420.591
26_I107_I0.467290.589
9_L72_L0.466980.589
27_A30_E0.466880.589
119_L122_H0.465630.587
12_A68_L0.462610.583
17_A21_I0.459230.579
53_I57_R0.45840.578
81_R85_L0.455230.574
29_L104_I0.453540.572
7_E123_I0.450220.568
8_L11_P0.450060.567
65_N68_L0.447190.564
70_Q78_R0.446550.563
2_I67_Y0.441150.556
73_E76_R0.43980.555
39_A43_E0.439430.554
78_R82_F0.436720.551
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
3sxmA0.93699.60.087
2hs5A0.98499.60.119
3sxyA0.94499.60.122
2di3A0.96899.60.134
3c7jA0.97699.60.135
3ihuA0.97699.60.136
1hw1A0.95299.30.259
2ek5A0.39270.10.806
4jkvA0.74423.20.855
2k85A0.5218.80.861

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