GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
HSP20 - Hsp20alpha crystallin family
Pfam: PF00011 (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: CL0190
Length: 102
Sequences: 5161
Seq/Len: 50.6
HH_delta: 0.034 (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
68_D71_K1.642994.010
8_E84_T1.283533.133
13_V34_I1.078782.633
24_K98_R0.988672.413
4_E87_K0.943272.302
35_S58_E0.899062.194
5_D8_E0.882192.153
71_K86_P0.870742.125
37_K56_S0.865332.112
36_G57_F0.834642.037
19_D22_D0.83442.037
68_D88_K0.764931.867
27_V63_L0.740911.808
14_D52_R0.740791.808
10_I82_T0.740051.806
14_D80_V0.717191.751
15_L76_Y0.701491.712
5_D10_I0.693771.693
33_V60_S0.682941.667
31_K60_S0.66161.615
24_K35_S0.649481.585
47_Y50_S0.644021.572
19_D78_N0.639061.560
67_V85_I0.636271.553
51_E59_R0.624451.524
35_S56_S0.602571.471
10_I84_T0.601981.469
12_K82_T0.58231.421
31_K62_R0.580551.417
23_I76_Y0.574981.403
22_D38_R0.549761.342
15_L23_I0.532211.299
26_K98_R0.495231.209
18_F36_G0.49271.203
66_D87_K0.48641.187
15_L36_G0.474021.157
32_L72_I0.466391.138
73_K84_T0.451711.103
38_R55_G0.449961.098
9_Y65_E0.448051.094
3_K45_D0.446451.090
3_K10_I0.444821.086
2_I9_Y0.436351.065
33_V58_E0.429061.047
66_D88_K0.422411.031
26_K96_P0.417571.019
28_D33_V0.417351.019
70_D97_K0.41631.016
15_L57_F0.413621.010
12_K80_V0.411821.005
28_D31_K0.409991.001
11_I85_I0.402670.983
74_A83_I0.394880.964
3_K12_K0.392870.959
11_I61_I0.39040.953
72_I85_I0.39020.952
2_I11_I0.385240.940
27_V72_I0.380070.928
97_K101_I0.366140.894
26_K33_V0.361620.883
22_D39_K0.359670.878
18_F38_R0.357910.874
20_K78_N0.357310.872
23_I52_R0.356840.871
64_P67_V0.350060.854
75_S82_T0.345090.842
63_L67_V0.344920.842
9_Y67_V0.342150.835
41_E45_D0.337470.824
30_N62_R0.33640.821
48_Y64_P0.335030.818
14_D38_R0.32440.792
42_E45_D0.324250.791
55_G59_R0.323970.791
25_I74_A0.322190.786
32_L83_I0.318780.778
52_R55_G0.318210.777
70_D86_P0.31640.772
75_S84_T0.316180.772
63_L85_I0.309650.756
18_F55_G0.30920.755
30_N65_E0.307170.750
97_K100_P0.30710.750
20_K100_P0.305560.746
76_Y81_L0.301050.735
4_E8_E0.300280.733
42_E46_R0.29970.732
74_A81_L0.298180.728
28_D96_P0.297710.727
25_I83_I0.289380.706
68_D86_P0.285640.697
77_E82_T0.283230.691
50_S53_R0.281990.688
21_E45_D0.281550.687
38_R54_Y0.279130.681
16_P74_A0.27890.681
18_F23_I0.269740.658
38_R56_S0.268440.655
49_R52_R0.267940.654
40_E50_S0.267650.653
19_D76_Y0.263770.644
61_I65_E0.262960.642
51_E55_G0.2570.627
44_D47_Y0.254390.621
88_K91_E0.25370.619
26_K35_S0.252590.617
69_P88_K0.249370.609
13_V25_I0.244510.597
13_V59_R0.243190.594
39_K54_Y0.243180.594
9_Y87_K0.24010.586
36_G55_G0.239950.586
52_R80_V0.238540.582
91_E96_P0.236030.576
36_G76_Y0.22690.554
65_E91_E0.226880.554
8_E86_P0.226510.553
65_E87_K0.224140.547
4_E48_Y0.222820.544
9_Y66_D0.222810.544
2_I61_I0.222090.542
41_E47_Y0.221840.541
19_D77_E0.221830.541
37_K54_Y0.221340.540
9_Y63_L0.21680.529
16_P83_I0.21580.527
17_G79_G0.215530.526
46_R49_R0.214760.524
14_D79_G0.213690.522
15_L18_F0.210870.515
45_D54_Y0.20910.510
18_F22_D0.208870.510
9_Y72_I0.206070.503
23_I74_A0.205790.502
50_S54_Y0.20390.498
66_D91_E0.203550.497
3_K47_Y0.202940.495
28_D32_L0.202550.494
9_Y48_Y0.200650.490
43_E48_Y0.200620.490
23_I36_G0.20.488
48_Y51_E0.198910.486
40_E45_D0.196850.480
24_K27_V0.196730.480
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
4eldA0.970699.80.034
1gmeA0.990299.80.047
3w1zA0.980499.80.062
3l1eA0.95199.80.07
2klrA0.931499.80.074
2wj5A0.921699.70.095
4feiA0.911899.70.101
3glaA0.892299.70.102
3aabA0.921699.70.104
2bolA0.90299.70.106

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