GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Lectin_C - Lectin C-type domain
Pfam: PF00059 (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: CL0056
Length: 105
Sequences: 6450
Seq/Len: 61.43
HH_delta: 0.101 (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
79_C95_C2.208934.812
9_Q18_H1.510363.290
45_L80_A1.461483.184
11_Y101_F1.378383.003
25_E29_D1.071532.334
3_M7_E1.004282.188
45_L55_W0.99912.177
28_N90_W0.99872.176
81_Y91_N0.971582.117
5_W56_I0.906411.975
27_E104_E0.88631.931
81_Y99_Y0.870231.896
11_Y15_M0.862061.878
46_D50_N0.837851.825
4_T7_E0.828231.804
77_E91_N0.792591.727
22_I31_I0.743861.621
8_A101_F0.718911.566
22_I28_N0.711051.549
93_V99_Y0.699491.524
13_Q18_H0.691231.506
53_W80_A0.679651.481
3_M101_F0.679221.480
9_Q13_Q0.677781.477
81_Y93_V0.653611.424
77_E92_D0.641671.398
12_C103_C0.622011.355
20_A43_I0.612341.334
3_M11_Y0.611561.332
24_S27_E0.606251.321
23_N27_E0.602721.313
28_N32_Q0.57651.256
21_S104_E0.573981.250
42_W93_V0.546661.191
19_L101_F0.515771.124
53_W92_D0.505131.100
55_W90_W0.500031.089
21_S57_D0.498141.085
8_A19_L0.495921.080
94_P97_E0.493951.076
10_Q14_S0.487451.062
20_A104_E0.48741.062
46_D78_N0.479781.045
21_S56_I0.476191.037
31_I102_I0.47481.034
46_D52_T0.456930.995
20_A31_I0.456710.995
69_N89_K0.448270.977
23_N104_E0.444250.968
67_Y70_W0.44420.968
11_Y14_S0.440190.959
30_F34_Q0.439240.957
72_P77_E0.436960.952
18_H21_S0.42920.935
46_D51_G0.423320.922
45_L61_N0.421310.918
93_V97_E0.420480.916
58_G61_N0.416730.908
43_I90_W0.413730.901
41_Y100_P0.411340.896
7_E10_Q0.411230.896
44_G55_W0.410660.895
4_T98_K0.409050.891
3_M8_A0.401850.875
5_W42_W0.396350.863
17_A104_E0.395010.861
95_C103_C0.382170.833
23_N62_S0.379410.827
50_N78_N0.375210.817
9_Q56_I0.37410.815
29_D32_Q0.373530.814
70_W80_A0.373290.813
43_I82_I0.372290.811
48_D54_K0.361780.788
22_I27_E0.35770.779
28_N69_N0.35580.775
10_Q13_Q0.355410.774
29_D33_S0.347230.756
7_E98_K0.340360.741
20_A102_I0.339570.740
67_Y90_W0.339450.739
26_E29_D0.33870.738
71_N74_N0.338680.738
28_N88_G0.334810.729
12_C79_C0.332370.724
6_E47_S0.331270.722
35_L88_G0.327490.713
6_E9_Q0.326150.711
27_E30_F0.321720.701
61_N68_T0.319880.697
55_W59_S0.31840.694
40_S81_Y0.318260.693
32_Q88_G0.307360.670
6_E10_Q0.306520.668
59_S62_S0.305210.665
72_P75_D0.30310.660
8_A12_C0.302680.659
32_Q87_S0.300450.655
46_D49_N0.29730.648
2_P39_E0.29610.645
71_N77_E0.294940.643
22_I55_W0.293480.639
41_Y102_I0.287110.625
35_L102_I0.286940.625
37_S87_S0.286840.625
71_N92_D0.286610.624
21_S61_N0.285650.622
20_A44_G0.283830.618
47_S50_N0.280570.611
23_N59_S0.279470.609
32_Q69_N0.277920.605
45_L62_S0.276260.602
74_N77_E0.275370.600
77_E94_P0.275010.599
2_P98_K0.274950.599
49_N52_T0.274530.598
69_N90_W0.27380.596
80_A92_D0.273330.595
58_G62_S0.273230.595
35_L82_I0.272440.594
42_W81_Y0.269240.587
72_P76_S0.261070.569
40_S99_Y0.260160.567
5_W9_Q0.259410.565
41_Y82_I0.255080.556
2_P100_P0.254710.555
38_N100_P0.254240.554
39_E85_S0.253970.553
28_N67_Y0.253940.553
23_N57_D0.249190.543
12_C17_A0.24830.541
21_S27_E0.247550.539
25_E69_N0.246760.538
70_W92_D0.244950.534
48_D52_T0.244850.533
45_L53_W0.243570.531
79_C82_I0.241150.525
6_E13_Q0.239270.521
44_G57_D0.237970.518
8_A21_S0.233740.509
40_S93_V0.232340.506
7_E11_Y0.231360.504
22_I90_W0.230210.502
79_C103_C0.228510.498
44_G56_I0.227480.496
46_D53_W0.224830.490
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
3kqgA0.990599.60.101
3ff7C0.904899.60.106
2py2A0.961999.60.107
3hupA0.904899.60.11
3g8lA0.942999.60.112
1htnA0.961999.60.114
2ls8A0.98199.60.114
4ak8A0.990599.60.116
2zibA0.942999.60.116
1fm5A0.904899.60.12

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