GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
GST_N_2 - Glutathione S-transferase N-terminal domain
Pfam: PF13409 (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: 70
Sequences: 16605
Seq/Len: 237.21
HH_delta: -0.06 (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
50_V56_V2.191242.741
12_L19_Y2.004162.507
13_E19_Y1.738132.174
38_L44_G1.654022.069
11_A64_L1.648242.062
15_K68_E1.600692.002
51_D66_Y1.500011.876
9_R21_I1.463971.831
51_D55_T1.43081.790
37_F40_L1.385111.733
2_S5_A1.363431.706
9_R13_E1.325051.657
35_P39_A1.21911.525
4_F7_R1.189751.488
11_A15_K1.148661.437
36_E39_A1.143591.431
8_V64_L1.122281.404
43_R58_N1.085781.358
10_I14_E1.076311.346
7_R60_S1.065931.333
40_L50_V1.038871.300
50_V54_G1.03481.294
60_S64_L1.028011.286
48_V56_V0.994551.244
65_E69_E0.943811.181
31_E34_P0.939281.175
35_P38_L0.927251.160
41_N48_V0.918131.148
11_A68_E0.915011.145
6_H10_I0.90891.137
33_K44_G0.878971.099
8_V60_S0.870461.089
7_R64_L0.866421.084
30_G33_K0.857051.072
57_I66_Y0.856461.071
8_V63_I0.848091.061
62_A65_E0.844451.056
45_K59_E0.831261.040
36_E40_L0.824781.032
5_A21_I0.799941.001
40_L48_V0.761740.953
40_L56_V0.751630.940
37_F48_V0.750590.939
4_F45_K0.727790.910
37_F41_N0.718110.898
7_R61_L0.714890.894
15_K67_L0.70920.887
6_H9_R0.698280.873
5_A46_V0.689740.863
49_L63_I0.665170.832
9_R23_V0.66320.830
4_F60_S0.653240.817
11_A67_L0.649450.812
10_I13_E0.645340.807
25_P31_E0.641250.802
48_V58_N0.638520.799
59_E62_A0.638160.798
26_L30_G0.637490.797
6_H14_E0.625850.783
34_P38_L0.625570.783
3_P6_H0.581280.727
65_E68_E0.571290.715
64_L68_E0.559820.700
24_V46_V0.545050.682
7_R10_I0.533840.668
30_G34_P0.522690.654
5_A9_R0.519240.650
23_V26_L0.511090.639
19_Y23_V0.508870.637
8_V49_L0.502920.629
25_P32_Q0.496690.621
9_R19_Y0.494020.618
61_L64_L0.49380.618
33_K36_E0.491360.615
57_I63_I0.477140.597
12_L17_L0.477020.597
16_G20_E0.477010.597
33_K38_L0.476810.596
26_L33_K0.475290.595
59_E65_E0.460780.576
60_S63_I0.447940.560
58_N61_L0.440450.551
55_T66_Y0.439940.550
19_Y22_K0.435730.545
49_L67_L0.4250.532
42_P62_A0.403390.505
24_V31_E0.39920.499
50_V55_T0.396860.496
43_R62_A0.392360.491
41_N44_G0.391530.490
20_E23_V0.389080.487
2_S46_V0.387240.484
24_V30_G0.387130.484
26_L32_Q0.383220.479
45_K58_N0.381410.477
61_L65_E0.380760.476
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
4jbbA0.971499.2-0.06
4gltA0.942999.1-0.049
4hojA0.928699.1-0.014
4f03A199-0.001
4hi7A0.9714990
3fy7A0.9286990.008
3vk9A0.9714990.017
4jedA0.9429990.017
4igjA0.9857990.029
2aheA0.928698.90.037

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