GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Methyltransf_23 - Methyltransferase domain
Pfam: PF13489 (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: 161
Sequences: 34911
Seq/Len: 216.84
HH_delta: 0.119 (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
31_C49_G2.665342.822
48_T79_F2.658892.815
102_S156_F2.627212.781
105_L109_G2.380932.521
25_R46_E2.348932.487
95_E153_Q2.179252.307
80_D106_K2.132082.257
27_L79_F2.01482.133
101_L111_L1.977462.093
100_E103_R1.93632.050
24_K81_L1.911172.023
21_K24_K1.81521.922
37_L47_V1.750631.853
148_R152_E1.74751.850
99_K154_A1.745911.848
95_E154_A1.700861.801
25_R48_T1.691731.791
26_V81_L1.633921.730
53_S56_M1.603531.698
82_I101_L1.600241.694
95_E150_L1.587041.680
37_L49_G1.546841.638
25_R80_D1.539051.629
84_C87_V1.519341.608
54_P58_E1.495161.583
95_E99_K1.472351.559
25_R79_F1.466391.552
82_I105_L1.461881.548
30_G87_V1.44871.534
89_E115_D1.446221.531
143_S146_E1.434011.518
28_D31_C1.428981.513
102_S154_A1.340051.419
149_Q153_Q1.307331.384
94_P150_L1.305091.382
100_E104_L1.287311.363
64_F67_F1.285231.361
29_I101_L1.278371.353
93_D96_E1.251161.325
75_P78_S1.235281.308
54_P66_N1.225961.298
27_L82_I1.216281.288
74_F79_F1.204651.275
25_R106_K1.200561.271
25_R78_S1.200011.270
86_D114_S1.186731.256
78_S106_K1.182381.252
94_P142_F1.162971.231
86_D89_E1.150431.218
105_L156_F1.139961.207
105_L111_L1.135121.202
36_F83_I1.133281.200
98_L151_L1.129491.196
81_L110_Y1.121751.188
50_V67_F1.113621.179
51_D57_I1.111621.177
84_C111_L1.109611.175
46_E63_V1.106941.172
85_N114_S1.097551.162
76_D103_R1.089591.154
91_L97_F1.085831.150
149_Q152_E1.073981.137
51_D56_M1.067561.130
96_E99_K1.063581.126
96_E100_E1.044061.105
84_C101_L1.043371.105
26_V40_L1.004791.064
61_N65_D1.004631.064
48_T65_D0.997971.057
144_P148_R0.98411.042
67_F73_P0.981591.039
39_A42_K0.970951.028
87_V91_L0.965061.022
86_D90_H0.963111.020
99_K103_R0.936160.991
36_F85_N0.934030.989
55_Q58_E0.923620.978
48_T63_V0.898660.951
64_F68_D0.893060.945
33_T56_M0.87870.930
84_C97_F0.873250.924
31_C37_L0.868010.919
88_L98_L0.859180.910
38_R42_K0.857710.908
97_F101_L0.85760.908
62_V68_D0.853130.903
24_K80_D0.851590.902
90_H115_D0.838510.888
84_C113_I0.820280.868
89_E116_P0.817980.866
66_N69_A0.817030.865
36_F40_L0.811630.859
31_C57_I0.810150.858
150_L153_Q0.808550.856
33_T59_K0.80640.854
40_L83_I0.800130.847
39_A43_R0.797180.844
99_K102_S0.785310.831
53_S57_I0.7830.829
81_L112_V0.777990.824
57_I64_F0.774540.820
98_L154_A0.774380.820
121_P124_R0.773370.819
118_R143_S0.772060.817
86_D116_P0.771440.817
82_I104_L0.770160.815
26_V83_I0.76440.809
78_S104_L0.76360.808
63_V66_N0.762170.807
82_I109_G0.762080.807
26_V47_V0.754650.799
146_E149_Q0.754640.799
148_R158_I0.754310.799
31_C51_D0.754220.798
24_K45_F0.751380.795
36_F39_A0.746210.790
57_I66_N0.737890.781
68_D71_D0.732740.776
61_N64_F0.730830.774
110_Y159_V0.7150.757
30_G84_C0.710840.753
62_V65_D0.70430.746
48_T74_F0.701020.742
64_F69_A0.69970.741
28_D32_G0.699320.740
126_F129_W0.698360.739
88_L91_L0.696410.737
29_I50_V0.695270.736
28_D34_G0.685020.725
28_D47_V0.682270.722
151_L158_I0.681360.721
28_D83_I0.679860.720
98_L150_L0.679640.720
145_D149_Q0.675270.715
60_R63_V0.671870.711
88_L113_I0.671590.711
150_L154_A0.668290.707
38_R41_A0.667910.707
151_L154_A0.658310.697
41_A44_G0.654910.693
146_E150_L0.651070.689
142_F146_E0.646810.685
90_H116_P0.645980.684
27_L50_V0.635990.673
60_R64_F0.634630.672
111_L156_F0.633460.671
79_F104_L0.62440.661
129_W133_R0.621580.658
52_I68_D0.619540.656
74_F78_S0.619290.656
35_S39_A0.618950.655
85_N112_V0.618310.655
23_G81_L0.615790.652
28_D49_G0.614710.651
29_I69_A0.613320.649
28_D36_F0.611670.648
44_G47_V0.608190.644
60_R66_N0.604350.640
37_L83_I0.603050.638
37_L41_A0.599010.634
77_G106_K0.598860.634
117_N144_P0.598430.634
25_R77_G0.596820.632
72_P100_E0.596590.632
101_L105_L0.596480.631
145_D148_R0.595550.630
74_F104_L0.591940.627
130_R133_R0.590380.625
24_K106_K0.586450.621
124_R127_L0.58480.619
42_K45_F0.58340.618
34_G37_L0.582370.617
85_N89_E0.578610.613
90_H139_V0.576420.610
23_G45_F0.575490.609
36_F89_E0.573690.607
98_L113_I0.572880.606
74_F100_E0.572440.606
76_D104_L0.572270.606
122_S125_S0.570880.604
75_P104_L0.569660.603
87_V90_H0.567890.601
21_K45_F0.567510.601
115_D147_L0.564550.598
103_R106_K0.564230.597
65_D74_F0.563560.597
124_R128_K0.558040.591
35_S38_R0.555610.588
129_W132_D0.552580.585
89_E94_P0.552320.585
72_P75_P0.54450.576
102_S155_G0.543640.576
123_P127_L0.543050.575
29_I97_F0.541420.573
131_Y135_Y0.539070.571
73_P100_E0.537550.569
88_L97_F0.536280.568
77_G104_L0.53430.566
88_L115_D0.53350.565
113_I151_L0.531840.563
60_R65_D0.530420.562
76_D100_E0.52920.560
27_L104_L0.526840.558
130_R134_P0.526210.557
132_D135_Y0.525940.557
98_L147_L0.522450.553
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
4e2xA0.975299.80.119
2p7iA0.987699.80.14
3l8dA0.987699.80.163
1vl5A0.987699.80.167
4htfA0.981499.80.169
2aotA199.80.169
3dliA0.968999.80.172
2o57A0.987699.80.175
3egeA0.981499.70.18
3ujcA0.975299.70.182

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