GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Methyltransf_31 - Methyltransferase domain
Pfam: PF13847 (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: CL0063
Length: 152
Sequences: 18571
Seq/Len: 122.18
HH_delta: 0.132 (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
12_C33_G2.150843.128
32_I74_F2.000912.910
6_K30_K1.874952.727
8_L74_F1.873672.725
100_L104_G1.842992.680
30_K57_E1.804832.625
75_D101_K1.701312.474
38_E60_Q1.663222.419
95_N98_R1.475822.146
32_I59_I1.423992.071
5_K76_I1.370141.993
6_K32_I1.347631.960
18_L33_G1.277991.859
38_E42_E1.219971.774
18_L31_I1.215521.768
36_I62_D1.193051.735
35_D41_I1.153271.677
41_I60_Q1.134021.649
32_I57_E1.09791.597
41_I58_F1.070951.557
96_I106_L1.048571.525
11_G82_V1.045151.520
62_D65_D1.033461.503
34_V61_G1.024291.490
6_K74_F0.971811.413
43_Y46_K0.964621.403
44_A58_F0.954991.389
84_H110_D0.942351.370
9_D12_C0.936151.361
88_D91_K0.925721.346
37_S40_M0.903081.313
100_L106_L0.888811.293
7_I76_I0.887681.291
95_N99_L0.886821.290
8_L77_I0.875481.273
17_L80_N0.865971.259
19_I47_R0.860291.251
6_K75_D0.850451.237
10_L63_I0.833551.212
34_V59_I0.815131.185
70_L74_F0.808151.175
19_I48_A0.805141.171
6_K73_K0.799931.163
12_C44_A0.779411.133
22_A55_N0.773881.125
10_L96_I0.77321.124
77_I100_L0.763411.110
90_E94_K0.761191.107
48_A56_I0.758821.104
48_A58_F0.755831.099
7_I31_I0.744191.082
42_E45_K0.742521.080
5_K75_D0.733041.066
77_I96_I0.728411.059
14_T40_M0.723841.053
46_K50_E0.723761.053
41_I45_K0.719731.047
91_K94_K0.719541.046
76_I105_I0.697331.014
21_L78_I0.693241.008
33_G58_F0.688641.001
81_G84_H0.677670.986
79_S96_I0.676160.983
5_K105_I0.673530.980
12_C18_L0.667860.971
6_K101_K0.664650.967
42_E46_K0.659840.960
91_K95_N0.649350.944
19_I51_L0.641310.933
79_S82_V0.640390.931
81_G109_S0.635110.924
73_K101_K0.633830.922
94_K98_R0.631180.918
73_K99_L0.623740.907
17_L78_I0.617410.898
45_K48_A0.615660.895
79_S106_L0.614280.893
41_I44_A0.612790.891
67_P95_N0.612450.891
64_E91_K0.612440.891
15_G44_A0.610320.888
25_L29_A0.603760.878
19_I53_L0.598120.870
18_L56_I0.594560.865
20_Q24_E0.592420.862
22_A31_I0.592040.861
63_I82_V0.587760.855
17_L21_L0.585740.852
66_L70_L0.574510.836
45_K49_K0.574050.835
74_F77_I0.571420.831
39_E42_E0.56130.816
81_G111_P0.55960.814
119_E123_E0.559170.813
7_I21_L0.558750.813
66_L99_L0.555950.809
119_E122_E0.549750.800
86_F92_V0.549520.799
97_I100_L0.547170.796
14_T43_Y0.542580.789
83_L108_I0.540590.786
9_D15_G0.540090.785
48_A53_L0.531820.773
9_D78_I0.531760.773
9_D33_G0.519940.756
122_E126_N0.517720.753
85_H110_D0.517340.752
61_G67_P0.515740.750
11_G79_S0.513240.746
49_K54_D0.512210.745
7_I78_I0.510350.742
47_R50_E0.508280.739
47_R51_L0.505710.735
45_K58_F0.502950.731
5_K29_A0.500980.729
80_N109_S0.499930.727
77_I104_G0.497280.723
21_L31_I0.490470.713
123_E126_N0.488430.710
4_N29_A0.48830.710
16_R80_N0.486730.708
105_I109_S0.477640.695
84_H111_P0.473540.689
61_G65_D0.470940.685
66_L95_N0.469990.684
18_L22_A0.468790.682
64_E86_F0.463860.675
53_L56_I0.460870.670
9_D31_I0.453770.660
9_D17_L0.453170.659
121_L124_L0.452590.658
46_K49_K0.450150.655
61_G66_L0.447530.651
6_K72_E0.446220.649
6_K29_A0.445250.648
83_L92_V0.444810.647
82_V86_F0.443710.645
39_E43_Y0.443110.644
9_D18_L0.438190.637
35_D40_M0.435660.634
24_E51_L0.430340.626
8_L34_V0.428850.624
22_A56_I0.424070.617
94_K97_I0.421190.613
98_R102_P0.416530.606
83_L93_L0.416180.605
76_I107_I0.413840.602
12_C35_D0.413330.601
33_G44_A0.411690.599
114_N118_P0.410040.596
122_E125_M0.409810.596
7_I29_A0.403820.587
79_S92_V0.402980.586
79_S83_L0.400320.582
28_G55_N0.399570.581
93_L97_I0.398530.580
67_P70_L0.395320.575
49_K52_G0.393260.572
92_V96_I0.392950.571
48_A51_L0.391740.570
67_P98_R0.389710.567
72_E99_L0.388930.566
81_G85_H0.388580.565
63_I86_F0.387850.564
105_I108_I0.38770.564
8_L99_L0.385960.561
120_Q124_L0.385590.561
121_L126_N0.380050.553
100_L103_G0.375740.546
9_D13_G0.375060.545
59_I70_L0.374410.545
36_I60_Q0.373750.544
65_D95_N0.371730.541
120_Q126_N0.371410.540
82_V85_H0.370340.539
58_F61_G0.370310.539
45_K57_E0.367960.535
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
4fsdA0.980399.80.132
4gekA0.980399.70.154
3gu3A0.980399.70.158
1vl5A0.947499.70.16
4htfA0.960599.70.162
3vc1A0.947499.70.166
1nkvA0.940899.70.172
3ocjA0.960599.70.172
3mggA0.967199.70.175
3dlcA0.973799.70.176

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