GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Glyco_trans_4_2 - Glycosyl transferase 4-like
Pfam: PF13477 (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: CL0113
Length: 139
Sequences: 11615
Seq/Len: 83.56
HH_delta: 0.263 (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
79_H105_T1.742863.590
28_H73_E1.718333.540
28_H48_I1.716343.536
28_H75_P1.627983.354
104_Y132_A1.472923.034
80_C102_V1.15482.379
28_H46_K1.139062.346
19_E22_K1.06562.195
14_Y18_K1.045752.154
81_H107_H0.951061.959
17_A45_I0.863081.778
80_C104_Y0.856931.765
67_R96_L0.846081.743
69_I73_E0.824461.698
19_E23_R0.810011.669
17_A29_I0.806511.661
101_K133_D0.804771.658
107_H138_Q0.77741.601
17_A21_K0.770681.588
97_L100_K0.742431.529
103_I136_I0.735221.515
21_K24_G0.734031.512
94_K102_V0.733561.511
12_F107_H0.731271.506
18_K43_E0.712641.468
13_I81_H0.697321.436
70_I75_P0.69131.424
77_V103_I0.684721.410
15_N19_E0.67651.394
92_L96_L0.653041.345
21_K44_G0.64171.322
81_H105_T0.637251.313
127_F131_R0.633041.304
12_F105_T0.63141.301
25_Y76_D0.62751.293
21_K45_I0.618781.275
123_F126_K0.614891.267
30_I69_I0.61261.262
67_R71_K0.608881.254
26_D46_K0.601531.239
28_H69_I0.596331.228
68_K72_K0.590361.216
15_N18_K0.579051.193
21_K27_V0.57391.182
17_A27_V0.573631.182
94_K133_D0.569631.173
12_F81_H0.56511.164
12_F16_L0.564441.163
103_I134_K0.558561.151
102_V132_A0.55711.148
105_T138_Q0.555941.145
126_K130_K0.553091.139
132_A135_I0.55031.134
80_C90_A0.548991.131
67_R97_L0.546951.127
95_K131_R0.546861.126
31_T47_V0.538761.110
123_F127_F0.537341.107
64_F68_K0.531131.094
77_V101_K0.523181.078
78_I94_K0.517561.066
82_T85_P0.51221.055
71_K97_L0.51141.053
46_K73_E0.499321.029
16_L19_E0.497241.024
12_F138_Q0.495631.021
80_C87_G0.490841.011
82_T108_G0.488911.007
127_F130_K0.488321.006
11_T15_N0.485641.000
83_P108_G0.479170.987
75_P78_I0.473040.974
48_I69_I0.467940.964
134_K137_V0.467730.963
18_K22_K0.467060.962
92_L127_F0.465010.958
64_F96_L0.454970.937
12_F82_T0.450990.929
30_I66_L0.448490.924
83_P106_V0.443140.913
93_A97_L0.435660.897
122_K126_K0.433620.893
102_V133_D0.431970.890
69_I72_K0.429890.886
31_T49_R0.426870.879
18_K21_K0.424650.875
12_F108_G0.418810.863
87_G108_G0.417340.860
105_T108_G0.415420.856
91_M102_V0.408680.842
24_G27_V0.406970.838
109_S113_N0.406270.837
46_K49_R0.405350.835
84_S108_G0.401050.826
63_Y67_R0.396550.817
26_D76_D0.390430.804
75_P100_K0.390.803
25_Y28_H0.387220.798
91_M131_R0.386760.797
13_I29_I0.383620.790
81_H138_Q0.382820.789
129_F135_I0.382160.787
105_T136_I0.381020.785
106_V129_F0.376550.776
90_A94_K0.376540.776
16_L20_L0.376510.776
29_I47_V0.37580.774
30_I75_P0.373530.769
119_K123_F0.36880.760
95_K98_K0.3680.758
16_L105_T0.367210.756
18_K42_I0.366250.754
124_I127_F0.36330.748
16_L81_H0.363060.748
83_P125_I0.362110.746
63_Y92_L0.351430.724
65_R69_I0.346530.714
13_I16_L0.343960.709
60_Y84_S0.343450.707
64_F72_K0.341210.703
39_Y42_I0.340180.701
70_I97_L0.339860.700
13_I17_A0.339650.700
81_H108_G0.33920.699
67_R93_A0.336720.694
20_L25_Y0.336220.693
20_L27_V0.334590.689
81_H137_V0.334480.689
102_V131_R0.332160.684
90_A93_A0.33140.683
32_P82_T0.329720.679
83_P104_Y0.329360.678
83_P110_D0.328570.677
55_K58_L0.323430.666
32_P83_P0.320330.660
118_K121_K0.319880.659
13_I107_H0.319840.659
93_A96_L0.319270.658
21_K25_Y0.31870.657
125_I129_F0.314450.648
14_Y43_E0.312470.644
29_I45_I0.31050.640
79_H103_I0.309940.638
64_F92_L0.309550.638
95_K133_D0.309260.637
113_N117_K0.308220.635
64_F67_R0.308070.635
66_L70_I0.307630.634
104_Y129_F0.306940.632
119_K122_K0.306380.631
121_K128_A0.306230.631
76_D100_K0.305140.629
18_K45_I0.303680.626
118_K122_K0.302910.624
10_S82_T0.301910.622
40_E49_R0.301160.620
39_Y46_K0.301130.620
90_A102_V0.300370.619
106_V137_V0.29970.617
82_T111_F0.298680.615
82_T106_V0.297740.613
33_R49_R0.297610.613
20_L79_H0.2940.606
37_E41_I0.292290.602
18_K44_G0.291190.600
82_T110_D0.290870.599
44_G47_V0.290680.599
87_G104_Y0.290590.599
37_E40_E0.288780.595
129_F132_A0.286010.589
108_G138_Q0.28590.589
82_T107_H0.285470.588
106_V138_Q0.282840.583
120_L124_I0.282320.582
123_F130_K0.281730.580
25_Y77_V0.281680.580
110_D113_N0.279720.576
128_A131_R0.279440.576
96_L100_K0.279180.575
32_P109_S0.278650.574
104_Y125_I0.277590.572
88_L92_L0.277220.571
91_M95_K0.275090.567
69_I75_P0.275070.567
10_S14_Y0.27290.562
116_K119_K0.272380.561
134_K138_Q0.272180.561
68_K71_K0.270460.557
41_I46_K0.269970.556
32_P36_Y0.269290.555
30_I50_L0.267860.552
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
3froA0.985699.30.263
2r60A0.985699.30.281
1rzuA0.985699.20.301
2qzsA0.985699.20.308
3c48A0.985699.20.333
3okpA0.949699.10.352
2gekA0.96499.10.355
2jjmA0.992899.10.356
3s28A0.9856990.373
1f0kA0.9137990.389

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