GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
GST_N_3 - Glutathione S-transferase N-terminal domain
Pfam: PF13417 (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: CL0172
Length: 75
Sequences: 16868
Seq/Len: 224.91
HH_delta: -0.07 (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
51_V56_V2.357542.949
3_G26_L2.097712.624
3_G10_S2.043672.557
17_L24_Y1.941792.429
18_E24_Y1.77672.223
39_L45_G1.62032.027
20_K68_E1.572281.967
16_A64_I1.438651.800
2_Y51_V1.390171.739
52_D66_Y1.365321.708
14_R26_L1.282821.605
36_P40_K1.282431.604
3_G14_R1.221151.528
9_Y12_K1.206691.510
7_S10_S1.206111.509
37_E40_K1.19271.492
14_R18_E1.192321.492
13_V64_I1.176391.472
5_P28_P1.161961.454
60_S64_I1.156631.447
52_D55_E1.140171.426
38_F41_L1.139841.426
41_L51_V1.087751.361
16_A20_K1.077731.348
65_E69_E1.042321.304
51_V54_G1.041741.303
12_K60_S1.021641.278
2_Y29_V0.992931.242
15_L19_E0.980871.227
36_P39_L0.968051.211
13_V60_S0.961191.202
46_K59_D0.926941.160
44_K58_T0.926841.160
41_L49_V0.923581.155
49_V56_V0.919391.150
62_A65_E0.916741.147
37_E41_L0.821881.028
11_Q15_L0.817031.022
42_N49_V0.812961.017
16_A68_E0.811811.016
35_R39_L0.81131.015
38_F49_V0.781210.977
30_D33_E0.765110.957
12_K61_A0.763160.955
12_K64_I0.745230.932
13_V63_I0.733670.918
4_F47_V0.729820.913
49_V58_T0.686630.859
2_Y27_V0.67540.845
9_Y46_K0.670030.838
41_L56_V0.667920.836
57_L66_Y0.666650.834
50_L63_I0.640820.802
38_F42_N0.640490.801
10_S47_V0.633910.793
13_V50_L0.632370.791
34_K45_G0.626190.783
9_Y60_S0.611490.765
64_I68_E0.605110.757
15_L18_E0.583990.731
29_V47_V0.583910.731
20_K67_L0.580360.726
34_K39_L0.558380.699
3_G28_P0.549980.688
65_E68_E0.53920.675
11_Q14_R0.531110.664
55_E66_Y0.527530.660
2_Y41_L0.510170.638
16_A67_L0.497950.623
16_A60_S0.496640.621
14_R28_P0.4940.618
6_G11_Q0.491730.615
10_S14_R0.481620.603
17_L22_I0.481590.602
34_K37_E0.477620.598
35_R45_G0.475820.595
29_V32_E0.474660.594
61_A64_I0.464240.581
59_D62_A0.458290.573
44_K62_A0.45420.568
31_P34_K0.442560.554
61_A65_E0.434250.543
8_P11_Q0.433690.543
6_G28_P0.425120.532
7_S11_Q0.423270.530
9_Y59_D0.421850.528
52_D57_L0.41950.525
11_Q19_E0.417610.522
44_K49_V0.403140.504
12_K15_L0.398560.499
14_R24_Y0.393670.493
9_Y13_V0.391450.490
50_L67_L0.384820.481
60_S63_I0.384360.481
29_V38_F0.379240.474
35_R38_F0.369360.462
12_K59_D0.36880.461
28_P32_E0.366820.459
17_L67_L0.366430.458
18_E21_G0.364640.456
10_S26_L0.36460.456
21_G25_E0.363420.455
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
4gltA199.4-0.07
4hojA199.4-0.065
4jbbA199.3-0.019
4jedA199.3-0.011
4hi7A199.3-0.002
3vk9A199.30.004
3lykA199.20.01
3lypA199.20.017
4f03A199.20.018
4dejA199.20.019

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