GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Flavokinase - Riboflavin kinase
Pfam: PF01687 (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. )
Length: 125
Sequences: 2027
Seq/Len: 16.22
HH_delta: -0.033 (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
45_V58_T1.221573.605
14_H17_G1.089873.216
96_F99_P1.021783.015
18_R66_F0.878012.591
104_D108_E0.840672.481
47_V89_I0.774512.286
117_I121_R0.741572.188
59_N100_E0.737442.176
17_G20_R0.711792.101
57_V113_I0.694952.051
79_D121_R0.673451.987
45_V75_V0.668711.973
97_L119_Q0.648091.913
47_V77_I0.631691.864
57_V120_A0.630671.861
45_V56_G0.613211.810
57_V117_I0.578341.707
47_V56_G0.575671.699
46_W55_P0.575291.698
58_T75_V0.57461.696
46_W92_E0.565851.670
50_D87_K0.564441.666
44_A123_Y0.542231.600
27_A84_L0.541351.598
110_K114_K0.539871.593
16_F72_T0.503811.487
105_S108_E0.499081.473
9_S88_K0.498931.472
97_L120_A0.485721.433
114_K117_I0.469931.387
27_A89_I0.457061.349
118_E122_K0.455991.346
16_F63_R0.455771.345
115_K118_E0.453831.339
46_W94_L0.445071.313
7_S92_E0.43281.277
7_S90_K0.432671.277
9_S90_K0.429871.269
56_G75_V0.42231.246
111_E115_K0.421141.243
39_K96_F0.419531.238
40_E71_R0.417191.231
24_F114_K0.41691.230
94_L123_Y0.413571.221
78_L120_A0.413451.220
8_I93_F0.412061.216
63_R72_T0.411011.213
18_R21_K0.405591.197
95_K123_Y0.400051.181
115_K119_Q0.397031.172
4_R7_S0.394141.163
48_R90_K0.393721.162
49_V87_K0.392341.158
24_F117_I0.390511.152
46_W53_W0.389771.150
80_F84_L0.388511.147
10_G29_L0.387231.143
59_N64_P0.383611.132
78_L121_R0.382771.130
11_T88_K0.380381.123
54_Y77_I0.378151.116
77_I84_L0.369961.092
42_V59_N0.369251.090
60_I73_V0.367961.086
29_L75_V0.36491.077
118_E121_R0.364161.075
58_T93_F0.362471.070
112_Q116_D0.356931.053
40_E62_Y0.341111.007
55_P124_L0.340771.006
94_L124_L0.339971.003
107_E110_K0.333640.985
112_Q115_K0.33180.979
66_F106_L0.326970.965
44_A94_L0.326760.964
64_P100_E0.323930.956
103_F112_Q0.322150.951
75_V91_V0.320360.945
5_P94_L0.320170.945
59_N63_R0.318770.941
113_I117_I0.316920.935
5_P92_E0.316690.935
48_R53_W0.312770.923
78_L117_I0.306970.906
6_Y37_L0.302610.893
58_T73_V0.30170.890
76_H117_I0.29840.881
48_R92_E0.297130.877
12_V89_I0.292830.864
22_L106_L0.292020.862
55_P78_L0.290660.858
106_L110_K0.285920.844
98_R116_D0.284480.840
45_V93_F0.284420.839
65_T102_K0.284380.839
98_R112_Q0.27610.815
107_E111_E0.275770.814
56_G78_L0.275420.813
45_V91_V0.275190.812
29_L89_I0.272920.805
108_E111_E0.272390.804
111_E114_K0.272210.803
46_W124_L0.27020.797
114_K118_E0.269540.795
63_R68_G0.269330.795
119_Q123_Y0.264990.782
57_V78_L0.264260.780
16_F66_F0.259620.766
119_Q122_K0.257290.759
62_Y71_R0.255860.755
49_V54_Y0.255230.753
17_G21_K0.253960.749
40_E99_P0.249620.737
84_L87_K0.249180.735
37_L60_I0.248640.734
11_T86_G0.245430.724
38_P60_I0.24430.721
40_E100_E0.242990.717
101_K112_Q0.241610.713
57_V76_H0.24020.709
13_V30_D0.23680.699
59_N101_K0.23110.682
39_K93_F0.230580.680
44_A120_A0.229760.678
8_I73_V0.229330.677
95_K119_Q0.224260.662
18_R106_L0.223070.658
34_D38_P0.218190.644
83_D87_K0.217750.643
53_W92_E0.217340.641
27_A47_V0.213770.631
37_L73_V0.210050.620
54_Y80_F0.209940.620
61_G74_E0.207660.613
76_H113_I0.207440.612
109_L113_I0.206810.610
98_R103_F0.206170.608
62_Y100_E0.20480.604
108_E112_Q0.203340.600
13_V72_T0.202630.598
82_G87_K0.201250.594
44_A57_V0.20120.594
16_F67_D0.199210.588
58_T91_V0.198320.585
73_V91_V0.197290.582
30_D70_E0.196690.580
30_D72_T0.196610.580
60_I93_F0.194730.575
67_D102_K0.194130.573
101_K108_E0.190040.561
27_A77_I0.18970.560
74_E109_L0.186990.552
77_I80_F0.186880.552
77_I103_F0.184760.545
6_Y38_P0.184260.544
42_V100_E0.183070.540
10_G38_P0.182820.540
43_Y96_F0.182660.539
51_G55_P0.180980.534
63_R100_E0.180140.532
113_I116_D0.179990.531
12_V85_Y0.17990.531
52_K82_G0.178040.525
24_F59_N0.177470.524
67_D92_E0.176880.522
39_K43_Y0.176650.521
66_F110_K0.176420.521
34_D37_L0.176280.520
56_G77_I0.175890.519
39_K99_P0.174670.515
64_P93_F0.17240.509
9_S35_K0.169950.502
17_G47_V0.167740.495
11_T39_K0.164940.487
48_R69_K0.16360.483
120_A124_L0.161760.477
61_G109_L0.161540.477
50_D90_K0.161240.476
31_I60_I0.160630.474
54_Y89_I0.158960.469
57_V100_E0.158650.468
81_D104_D0.158610.468
29_L47_V0.158220.467
44_A112_Q0.158090.467
84_L89_I0.15680.463
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
3op1A0.992100-0.033
2x0kA1100-0.027
1mrzA1100-0.011
3bnwA11000.006
1n08A11000.019
1nb0A0.9921000.053
2oynA0.95276.40.908
3odmA0.87220.10.936
2eqkA0.66419.60.936
1mk0A0.53619.30.936

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