GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SIS - SIS domain
Pfam: PF01380 (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: CL0067
Length: 131
Sequences: 10075
Seq/Len: 76.91
HH_delta: 0.086 (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
65_E93_P1.757793.187
6_K54_D1.717663.114
85_L98_A1.652532.996
74_R97_L1.624972.946
77_K99_D1.453812.636
59_I73_L1.326322.405
75_F78_E1.26922.301
10_I20_A1.242732.253
11_Y57_V1.163782.110
20_A60_I1.05161.907
82_P100_I1.038091.882
56_L84_I1.012311.835
85_L101_V1.000441.814
6_K52_D0.998181.810
57_V76_A0.982181.781
67_R71_E0.959861.740
23_A125_L0.953081.728
82_P99_D0.946461.716
10_I58_I0.927191.681
71_E74_R0.905111.641
87_T101_V0.890691.615
85_L94_L0.857951.555
73_L83_V0.857521.555
114_S117_S0.850541.542
75_F79_R0.840271.523
6_K55_D0.83491.514
23_A27_L0.830031.505
51_L81_A0.829721.504
73_L94_L0.828791.503
61_S94_L0.814371.476
95_A103_Y0.813691.475
17_Y21_Q0.810291.469
76_A81_A0.79231.436
10_I23_A0.754261.368
57_V81_A0.745071.351
7_R55_D0.732141.327
90_S103_Y0.730421.324
104_I121_Q0.723521.312
104_I124_L0.71331.293
5_A56_L0.705541.279
52_D55_D0.702391.273
7_R33_I0.691791.254
95_A101_V0.667161.210
22_Y26_K0.658111.193
18_G21_Q0.643481.167
92_S95_A0.64191.164
102_L124_L0.641231.163
53_P80_G0.632721.147
11_Y72_L0.630951.144
60_I125_L0.620791.126
84_I100_I0.61591.117
59_I83_V0.607421.101
56_L82_P0.594051.077
93_P96_R0.593421.076
60_I86_I0.581611.054
11_Y59_I0.575661.044
24_A36_I0.566031.026
70_I93_P0.56461.024
100_I103_Y0.564521.023
5_A54_D0.563261.021
9_Y55_D0.562431.020
51_L55_D0.557971.012
83_V98_A0.553841.004
59_I69_L0.551040.999
24_A28_Q0.545330.989
87_T95_A0.543760.986
74_R78_E0.541190.981
13_S68_E0.533140.967
77_K97_L0.527780.957
26_K126_D0.526920.955
8_I58_I0.52460.951
19_V125_L0.512560.929
93_P97_L0.509090.923
23_A58_I0.505720.917
60_I121_Q0.502650.911
70_I74_R0.48850.886
19_V60_I0.486920.883
48_L79_R0.47430.860
13_S40_A0.469950.852
44_F71_E0.469430.851
7_R36_I0.468930.850
31_G34_V0.465360.844
8_I56_L0.462990.839
70_I97_L0.459620.833
61_S64_G0.45740.829
16_S60_I0.457350.829
61_S66_T0.452790.821
12_G17_Y0.452740.821
13_S66_T0.442630.803
4_K54_D0.435560.790
5_A55_D0.433360.786
89_N92_S0.431150.782
16_S64_G0.428040.776
44_F75_F0.427050.774
28_Q46_G0.426520.773
76_A83_V0.425760.772
114_S119_S0.42430.769
8_I32_R0.421840.765
10_I60_I0.421560.764
91_E96_R0.42010.762
74_R77_K0.411090.745
8_I27_L0.409910.743
84_I102_L0.409330.742
122_L126_D0.407570.739
7_R35_V0.406350.737
65_E92_S0.399090.724
77_K83_V0.398580.723
10_I27_L0.396910.720
62_Y88_S0.393610.714
21_Q36_I0.389470.706
24_A34_V0.388490.704
51_L76_A0.384390.697
19_V22_Y0.383320.695
11_Y69_L0.382160.693
123_S126_D0.3820.693
32_R50_N0.381120.691
74_R93_P0.379830.689
58_I86_I0.377920.685
98_A101_V0.375390.681
63_S66_T0.37240.675
94_L98_A0.370810.672
55_D81_A0.369890.671
87_T103_Y0.36810.667
29_K48_L0.367480.666
15_S114_S0.366980.665
41_G67_R0.364450.661
73_L77_K0.360940.654
87_T92_S0.35790.649
7_R52_D0.355480.644
12_G16_S0.351680.638
5_A82_P0.350990.636
9_Y48_L0.350580.636
49_E75_F0.349770.634
103_Y106_T0.348710.632
70_I94_L0.347550.630
86_I124_L0.34550.626
13_S39_E0.345310.626
39_E42_E0.345150.626
118_F122_L0.344770.625
34_V37_S0.344230.624
71_E75_F0.342690.621
82_P85_L0.341350.619
89_N103_Y0.340540.617
59_I72_L0.338840.614
46_G50_N0.337740.612
22_Y118_F0.337690.612
7_R34_V0.336510.610
16_S63_S0.33650.610
118_F121_Q0.336110.609
59_I76_A0.335520.608
19_V122_L0.33350.605
41_G68_E0.332830.603
9_Y43_F0.332680.603
62_Y104_I0.331290.601
107_G116_S0.330950.600
88_S106_T0.327770.594
73_L97_L0.32650.592
115_T118_F0.325910.591
38_Y41_G0.325420.590
10_I24_A0.322380.584
120_A123_S0.32020.581
21_Q24_A0.320.580
26_K29_K0.31910.579
105_P120_A0.31830.577
9_Y57_V0.317920.576
58_I84_I0.317530.576
104_I120_A0.317240.575
16_S116_S0.316950.575
56_L100_I0.310050.562
42_E45_H0.307030.557
4_K53_P0.305640.554
24_A35_V0.305570.554
115_T119_S0.302570.549
38_Y42_E0.302320.548
17_Y39_E0.30050.545
90_S105_P0.300060.544
32_R35_V0.299930.544
26_K30_L0.299880.544
4_K82_P0.297490.539
104_I116_S0.297020.539
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
3shoA0.969599.80.086
3fxaA0.992499.80.115
3etnA0.992499.80.115
2xhzA0.992499.80.119
3tbfA0.992499.80.124
3knzA0.984799.80.132
1moqA0.992499.80.133
1j5xA0.977199.80.141
2bplA0.992499.70.153
3g68A0.984799.70.157

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