GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Methyltransf_21 - Methyltransferase FkbM domain
Pfam: PF05050 (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: 167
Sequences: 2204
Seq/Len: 13.2
HH_delta: 0.24 (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
116_I123_V0.892973.861
29_F101_I0.812883.515
33_P91_V0.7913.420
4_A28_A0.708373.063
1_D113_K0.692432.994
36_F56_F0.574132.482
62_S95_V0.565952.447
21_G24_G0.557492.410
32_N35_N0.527342.280
27_H57_H0.515822.230
63_D122_E0.513832.222
115_D141_E0.497842.153
97_T100_D0.490982.123
36_F58_P0.480182.076
36_F40_K0.476612.061
62_S119_A0.440081.903
2_V114_I0.437491.892
60_A95_V0.435881.885
99_D126_G0.421221.821
60_A93_V0.405541.753
121_L125_K0.386991.673
99_D127_A0.385111.665
4_A39_L0.380371.645
116_I119_A0.376891.630
10_S14_Y0.366781.586
20_C24_G0.359671.555
114_I123_V0.355341.536
29_F61_V0.355031.535
98_L127_A0.352631.525
36_F39_L0.339921.470
127_A131_L0.332921.439
25_R55_E0.328841.422
2_V116_I0.328441.420
116_I120_E0.32681.413
11_S15_F0.325881.409
2_V61_V0.324291.402
27_H101_I0.323071.397
30_E36_F0.323071.397
96_I100_D0.322831.396
4_A30_E0.318531.377
119_A122_E0.317021.371
59_Y96_I0.313881.357
29_F57_H0.309771.339
110_D137_K0.307661.330
123_V126_G0.298991.293
96_I104_E0.298021.289
5_N141_E0.290841.258
114_I124_L0.287321.242
64_G68_F0.286231.238
5_N35_N0.280291.212
117_E141_E0.279761.210
152_S155_E0.278381.204
159_F163_H0.277771.201
63_D125_K0.275661.192
31_P58_P0.274581.187
121_L159_F0.273211.181
128_R132_K0.270751.171
67_F92_E0.263571.140
112_L127_A0.261351.130
116_I126_G0.25751.113
10_S15_F0.256911.111
117_E143_H0.255561.105
59_Y94_P0.254311.100
97_T126_G0.254141.099
45_L54_V0.254061.099
99_D131_L0.251881.089
99_D129_E0.251431.087
158_D162_D0.246831.067
2_V123_V0.244921.059
32_N91_V0.241491.044
11_S14_Y0.239471.035
5_N10_S0.237661.028
154_R158_D0.236131.021
23_G26_V0.234671.015
125_K155_E0.23181.002
139_I160_L0.231491.001
99_D130_L0.23040.996
13_V42_N0.228960.990
12_T15_F0.223150.965
64_G70_A0.222660.963
157_L161_R0.22230.961
113_K117_E0.221580.958
29_F97_T0.221480.958
65_S68_F0.220370.953
132_K163_H0.219760.950
101_I105_N0.21730.940
40_K58_P0.215410.931
103_E129_E0.215270.931
109_I134_C0.213990.925
57_H101_I0.211850.916
120_E140_V0.211320.914
45_L48_N0.211210.913
100_D104_E0.210740.911
142_I156_I0.210380.910
117_E120_E0.207630.898
112_L136_P0.20290.877
10_S13_V0.202340.875
2_V112_L0.201670.872
38_K42_N0.198830.860
3_G7_G0.198690.859
114_I120_E0.197610.854
109_I133_K0.197310.853
66_S70_A0.197010.852
39_L56_F0.193290.836
96_I101_I0.191480.828
48_N61_V0.189990.821
156_I160_L0.188530.815
31_P36_F0.186460.806
65_S94_P0.18620.805
40_K56_F0.185240.801
125_K159_F0.183980.795
130_L133_K0.183140.792
33_P37_E0.180490.780
68_F71_E0.179690.777
20_C23_G0.178730.773
6_I38_K0.178120.770
128_R163_H0.177880.769
39_L42_N0.176890.765
5_N113_K0.175580.759
21_G26_V0.174650.755
66_S69_F0.17380.751
2_V29_F0.172130.744
35_N42_N0.171860.743
24_G110_D0.171110.740
55_E105_N0.170240.736
129_E132_K0.169190.732
126_G131_L0.168420.728
102_L105_N0.168090.727
61_V123_V0.167580.725
6_I11_S0.166830.721
35_N39_L0.166580.720
7_G39_L0.166340.719
20_C26_V0.165750.717
12_T113_K0.164930.713
61_V96_I0.164230.710
65_S100_D0.163550.707
6_I42_N0.16230.702
2_V97_T0.161710.699
31_P113_K0.161140.697
113_K120_E0.161080.696
45_L50_K0.160870.696
5_N115_D0.160430.694
5_N117_E0.160320.693
116_I143_H0.159730.691
121_L124_L0.159450.689
158_D161_R0.159090.688
131_L138_V0.158410.685
65_S69_F0.158090.684
1_D28_A0.15740.681
12_T26_V0.15540.672
142_I153_F0.155160.671
159_F162_D0.154640.669
68_F72_G0.154410.668
127_A130_L0.154360.667
128_R159_F0.153790.665
112_L130_L0.152590.660
61_V98_L0.152430.659
98_L130_L0.151570.655
29_F59_Y0.151360.654
123_V127_A0.151320.654
129_E133_K0.150710.652
140_V143_H0.150170.649
30_E39_L0.149320.646
143_H156_I0.148360.641
26_V29_F0.147810.639
31_P93_V0.14750.638
76_G79_S0.147080.636
151_E155_E0.145820.630
1_D4_A0.145140.628
86_D108_R0.144610.625
67_F70_A0.143990.623
76_G80_S0.143960.622
29_F113_K0.143820.622
10_S54_V0.143560.621
28_A39_L0.143240.619
120_E136_P0.142840.618
108_R137_K0.142380.616
7_G26_V0.141410.611
140_V157_L0.140910.609
144_H153_F0.140450.607
12_T28_A0.140190.606
26_V54_V0.139760.604
62_S122_E0.139580.604
31_P123_V0.139130.602
41_R46_A0.138850.600
155_E158_D0.137780.596
48_N52_G0.137650.595
11_S42_N0.137460.594
31_P60_A0.137340.594
40_K46_A0.136260.589
45_L56_F0.13620.589
144_H152_S0.136080.588
55_E129_E0.134820.583
102_L107_P0.134190.580
124_L159_F0.1340.579
2_V127_A0.133750.578
114_I140_V0.133630.578
72_G80_S0.13360.578
48_N56_F0.132930.575
131_L136_P0.132750.574
66_S95_V0.132730.574
97_T101_I0.13260.573
109_I112_L0.132110.571
117_E136_P0.132090.571
95_V119_A0.131740.570
140_V156_I0.131720.570
47_L52_G0.13160.569
126_G130_L0.130650.565
120_E156_I0.130640.565
38_K41_R0.130580.565
55_E86_D0.130110.563
99_D123_V0.130050.562
128_R162_D0.129120.558
99_D128_R0.12890.557
109_I136_P0.128530.556
122_E125_K0.128230.554
2_V126_G0.126630.548
117_E151_E0.126520.547
131_L135_R0.12650.547
152_S157_L0.12650.547
6_I35_N0.126270.546
25_R108_R0.125810.544
124_L156_I0.125490.543
50_K53_E0.125420.542
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
2py6A0.934199.90.24
2frnA0.7246980.739
3k6rA0.724697.90.742
2yx1A0.658797.60.765
3kr9A0.688697.60.765
3njrA0.682697.60.766
3axsA0.724697.40.777
3e05A0.694697.30.779
1o54A0.694697.30.782
3a27A0.718697.20.784

Page generated in 0.0383 seconds.