GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MaoC_dehydratas - MaoC like domain
Pfam: PF01575 (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: CL0050
Length: 122
Sequences: 4171
Seq/Len: 34.19
HH_delta: 0.122 (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_G90_F1.102943.115
9_G100_E1.083733.061
17_T94_T1.042042.943
9_G98_E0.89532.529
15_S96_T0.80592.276
40_P51_P0.75162.123
41_E44_R0.744732.103
16_R22_D0.725132.048
23_I91_P0.695351.964
15_S94_T0.686771.940
90_F93_D0.659751.863
58_T89_V0.655881.852
37_H55_G0.628531.775
40_P50_G0.623541.761
59_L83_V0.619261.749
40_P44_R0.609951.723
20_E51_P0.57611.627
65_L97_A0.576021.627
6_I104_K0.575951.627
6_I103_E0.547361.546
27_A54_H0.544461.538
19_T22_D0.541331.529
49_G90_F0.539511.524
20_E40_P0.536991.517
62_A97_A0.49741.405
78_L81_F0.494611.397
89_V95_L0.494231.396
42_Y45_A0.486641.374
22_D25_Q0.479881.355
28_A33_F0.472731.335
24_R28_A0.472091.333
11_R98_E0.47111.331
23_I53_V0.46851.323
21_A24_R0.450441.272
20_E24_R0.440521.244
16_R61_L0.426411.204
27_A38_V0.42121.190
18_I61_L0.400551.131
9_G12_H0.396561.120
80_R83_V0.394831.115
25_Q28_A0.389281.099
12_H98_E0.38561.089
30_S54_H0.383411.083
57_L61_L0.382661.081
36_I52_I0.369121.043
69_W99_V0.36881.042
27_A32_D0.362811.025
41_E45_A0.361341.021
42_Y46_T0.353470.998
56_M85_F0.35240.995
17_T92_G0.348770.985
37_H54_H0.348550.984
32_D37_H0.346820.980
32_D54_H0.344960.974
18_I57_L0.340890.963
24_R38_V0.340410.961
53_V57_L0.338040.955
33_F38_V0.328380.927
8_Q11_R0.324460.916
21_A25_Q0.321540.908
56_M80_R0.318330.899
64_G68_D0.315220.890
16_R97_A0.312930.884
48_F88_P0.310910.878
44_R49_G0.310310.876
35_P42_Y0.308930.873
35_P39_D0.307290.868
37_H52_I0.306110.865
68_D71_G0.296530.838
23_I27_A0.292490.826
105_R108_K0.292320.826
52_I90_F0.290550.821
70_L99_V0.286140.808
34_N42_Y0.284370.803
26_F56_M0.283120.800
14_R68_D0.282730.799
50_G91_P0.282230.797
54_H57_L0.28170.796
66_L99_V0.280210.791
36_I46_T0.278120.786
59_L85_F0.277490.784
65_L99_V0.277330.783
68_D72_P0.276120.780
82_N108_K0.27560.778
47_G52_I0.275070.777
8_Q102_T0.274990.777
56_M59_L0.274890.776
20_E50_G0.273950.774
51_P91_P0.273930.774
39_D42_Y0.271190.766
34_N37_H0.270320.763
71_G75_P0.267620.756
47_G50_G0.264990.748
35_P46_T0.261540.739
26_F57_L0.252470.713
50_G93_D0.25020.707
32_D85_F0.249380.704
22_D64_G0.248980.703
63_S81_F0.245360.693
58_T85_F0.244110.689
63_S97_A0.241690.683
26_F54_H0.241380.682
74_P77_R0.240860.680
18_I53_V0.23950.676
12_H70_L0.238170.673
55_G85_F0.237760.672
43_A50_G0.236450.668
39_D44_R0.235880.666
66_L71_G0.235040.664
18_I89_V0.234660.663
43_A48_F0.234060.661
18_I22_D0.232810.658
22_D61_L0.232650.657
63_S66_L0.232010.655
64_G67_G0.229080.647
67_G71_G0.226750.640
27_A33_F0.225950.638
53_V58_T0.2230.630
7_G10_I0.222150.627
32_D52_I0.221540.626
14_R94_T0.221450.625
48_F52_I0.220330.622
56_M60_A0.220170.622
21_A28_A0.218730.618
44_R92_G0.218710.618
53_V89_V0.21870.618
53_V59_L0.218190.616
55_G58_T0.216190.611
79_G82_N0.215370.608
18_I95_L0.215320.608
69_W72_P0.215030.607
63_S99_V0.214990.607
24_R51_P0.214910.607
76_A79_G0.214140.605
11_R69_W0.21390.604
48_F55_G0.21380.604
7_G101_V0.21250.600
63_S67_G0.212160.599
77_R81_F0.212060.599
16_R65_L0.211580.598
27_A53_V0.210510.595
28_A38_V0.209870.593
52_I88_P0.209220.591
20_E91_P0.208670.589
44_R47_G0.208050.588
23_I92_G0.20720.585
12_H101_V0.205440.580
67_G78_L0.205320.580
23_I32_D0.205250.580
67_G70_L0.204580.578
61_L95_L0.204580.578
19_T24_R0.204570.578
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
4e3eA0.975499.90.122
3k67A0.926299.90.125
4e3eA0.983699.90.134
4ffuA0.967299.90.137
2c2iA199.90.144
3ir3A0.942699.90.153
2bi0A0.975499.90.156
3exzA0.95999.90.161
2b3nA0.926299.80.184
1iq6A0.95999.80.185

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