GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
IMS - impBmucBsamB family
Pfam: PF00817 (v26) Consensus Sequence
Length: 148
Sequences: 2968
Seq/Len: 20.05
HH_delta: -0.054 (11Mar13)
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
85_R123_A1.086453.465
24_A62_L0.941343.003
123_A127_E0.889432.837
14_R71_R0.883412.818
92_E140_P0.816312.604
85_R127_E0.805992.571
3_M132_V0.804142.565
52_L64_V0.72762.321
68_D71_R0.727462.320
20_G40_A0.69052.202
3_M130_L0.679412.167
12_R38_N0.678092.163
75_A78_R0.657122.096
122_R126_E0.650512.075
124_I132_V0.646672.063
119_R123_A0.599861.913
21_R63_V0.565971.805
94_Y100_F0.563121.796
3_M79_L0.5391.719
14_R68_D0.537271.714
80_A99_L0.534661.705
84_Y91_V0.532431.698
86_F123_A0.529711.690
13_R75_A0.523471.670
54_E58_L0.51551.644
15_R18_L0.485581.549
24_A64_V0.47671.521
82_W127_E0.462211.474
88_S101_L0.457641.460
117_A134_I0.455221.452
8_A23_V0.45261.444
116_L120_I0.438971.400
8_A12_R0.435871.390
137_A142_L0.420431.341
10_V71_R0.417331.331
24_A34_V0.414141.321
35_L67_P0.409461.306
74_R78_R0.405791.294
51_P54_E0.392641.252
5_S9_S0.390531.246
54_E57_A0.387181.235
50_M58_L0.386581.233
117_A136_I0.383791.224
81_E84_Y0.381991.218
26_V52_L0.376011.199
106_S110_F0.37591.199
24_A46_V0.371761.186
103_L116_L0.370421.182
86_F119_R0.367941.174
71_R74_R0.366981.171
106_S111_G0.366881.170
83_L101_L0.366341.168
118_R122_R0.364771.163
40_A43_K0.361761.154
1_I132_V0.360321.149
1_I83_L0.356181.136
37_A48_P0.354431.131
118_R121_R0.352761.125
106_S116_L0.351221.120
11_E72_Y0.350561.118
83_L99_L0.349441.115
44_Y61_D0.348381.111
69_P73_R0.343491.096
18_L23_V0.341841.090
26_V32_G0.338641.080
10_V75_A0.337971.078
34_V37_A0.336851.074
6_F10_V0.335861.071
12_R19_R0.334621.067
71_R75_A0.329511.051
138_P142_L0.326341.041
34_V46_V0.325051.037
23_V65_V0.324181.034
114_E118_R0.322291.028
106_S109_L0.321621.026
13_R71_R0.318531.016
53_A57_A0.318431.016
82_W86_F0.31521.005
15_R65_V0.308390.984
11_E68_D0.302520.965
24_A59_C0.301750.962
12_R23_V0.299220.954
80_A84_Y0.297580.949
135_G146_A0.296290.945
1_I101_L0.295270.942
44_Y59_C0.294840.940
79_L128_T0.293610.937
82_W128_T0.290420.926
12_R40_A0.288890.921
39_Y42_R0.28860.921
5_S12_R0.285220.910
100_F140_P0.285120.909
70_E74_R0.281860.899
13_R129_G0.279960.893
46_V62_L0.279680.892
112_G115_A0.27470.876
115_A119_R0.274040.874
139_N142_L0.272540.869
76_S80_A0.270190.862
103_L117_A0.267590.854
91_V99_L0.267380.853
82_W123_A0.266070.849
59_C62_L0.26540.847
52_L59_C0.264610.844
83_L120_I0.264430.843
41_A62_L0.260450.831
36_A42_R0.260170.830
80_A93_P0.260010.829
47_R50_M0.259560.828
115_A118_R0.25930.827
56_L64_V0.259210.827
27_E66_P0.256390.818
78_R128_T0.256290.817
33_R48_P0.254910.813
34_V55_A0.252540.806
89_P105_G0.252340.805
82_W124_I0.2520.804
77_E81_E0.249050.794
50_M55_A0.248620.793
89_P107_L0.248010.791
123_A126_E0.246280.786
11_E15_R0.245880.784
121_R134_I0.244950.781
56_L62_L0.244150.779
4_D133_S0.244130.779
86_F120_I0.243640.777
88_S91_V0.242310.773
27_E33_R0.241330.770
7_Y67_P0.241320.770
35_L48_P0.239030.762
103_L106_S0.238890.762
74_R77_E0.234820.749
26_V33_R0.231480.738
19_R125_A0.230720.736
125_A129_G0.230580.735
9_S36_A0.230560.735
3_M6_F0.230090.734
37_A46_V0.228820.730
93_P96_P0.228360.728
10_V14_R0.22780.727
98_E144_K0.227010.724
25_V65_V0.22670.723
92_E100_F0.226160.721
14_R75_A0.223990.714
12_R20_G0.219440.700
7_Y95_S0.219070.699
36_A48_P0.217520.694
7_Y69_P0.217220.693
78_R81_E0.217090.692
105_G111_G0.216930.692
20_G38_N0.215260.687
22_P59_C0.214450.684
22_P61_D0.213380.681
55_A59_C0.211710.675
137_A143_A0.21140.674
95_S98_E0.211020.673
83_L93_P0.210820.672
36_A121_R0.210710.672
27_E32_G0.209790.669
122_R125_A0.209590.669
8_A36_A0.209240.667
18_L63_V0.205620.656
44_Y58_L0.205590.656
53_A56_L0.204660.653
73_R96_P0.20370.650
97_D144_K0.201610.643
21_R61_D0.20160.643
133_S147_S0.201050.641
124_I128_T0.2010.641
29_N52_L0.20080.640
108_R111_G0.1990.635
11_E14_R0.198960.635
119_R122_R0.198420.633
122_R127_E0.196460.627
75_A130_L0.19570.624
90_R102_D0.194020.619
98_E135_G0.193770.618
78_R127_E0.193430.617
80_A83_L0.192870.615
52_L56_L0.19270.615
83_L91_V0.192470.614
80_A91_V0.192140.613
50_M54_E0.191210.610
12_R21_R0.19110.610
116_L119_R0.190830.609
7_Y96_P0.190060.606
104_T139_N0.189470.604
4_D39_Y0.188310.601
5_S39_Y0.188090.600
34_V62_L0.186570.595
39_Y43_K0.186230.594
35_L42_R0.184420.588
141_L145_L0.183590.586
110_F119_R0.182220.581
113_E117_A0.181250.578
4_D147_S0.181240.578
89_P142_L0.180550.576
8_A38_N0.179790.573
125_A128_T0.17880.570
56_L60_P0.17850.569
27_E48_P0.177510.566
47_R58_L0.176180.562
5_S42_R0.175660.560
16_P19_R0.175530.560
109_L112_G0.175480.560
4_D48_P0.175080.558
40_A44_Y0.175020.558
138_P145_L0.174940.558
69_P96_P0.172940.552
25_V36_A0.17280.551
137_A147_S0.17210.549
36_A39_Y0.171490.547
34_V64_V0.171350.547
26_V67_P0.170950.545
49_G73_R0.170910.545
2_D7_Y0.170290.543
83_L88_S0.169480.541
88_S106_S0.169190.540
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
4f4yA0.9932100-0.054
1jx4A0.9932100-0.053
3bq0A0.9932100-0.052
3pzpA0.973100-0.049
3gqcA0.9932100-0.047
1im4A0.9932100-0.035
1t94A0.973100-0.034
3osnA0.973100-0.029
4dezA0.9797100-0.015
4ecqA0.9865100-0.011

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