GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Methyltransf_32 - Methyltransferase domain
Pfam: PF13679 (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: 141
Sequences: 18913
Seq/Len: 134.13
HH_delta: 0.211 (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
34_S58_G2.473343.701
123_P127_F1.887292.824
28_T55_R1.80382.699
55_R85_S1.72362.579
57_L100_P1.530722.291
57_L87_I1.513232.264
30_V100_P1.493822.235
63_E67_E1.386432.075
63_E88_Q1.335721.999
28_T57_L1.317381.971
59_I89_G1.174941.758
69_A86_F1.16461.743
40_S58_G1.159531.735
41_R72_R1.121971.679
66_V88_Q1.099791.646
24_K27_I1.082441.620
61_C90_D0.975671.460
30_V59_I0.973731.457
119_L122_R0.960081.437
57_L85_S0.941191.408
27_I102_I0.90951.361
27_I54_L0.878371.314
101_D124_N0.864931.294
31_D40_S0.848181.269
31_D34_S0.83391.248
60_D66_V0.829051.241
28_T100_P0.823121.232
29_V43_L0.815011.220
29_V102_I0.812391.216
123_P126_R0.805241.205
67_E70_Q0.804721.204
90_D93_D0.802511.201
118_R122_R0.787621.179
68_S71_K0.787331.178
64_S67_E0.782251.171
42_A45_H0.777861.164
66_V70_Q0.776751.162
44_A83_R0.776511.162
11_E15_S0.768061.149
12_L16_L0.753551.128
19_S27_I0.742481.111
59_I87_I0.733261.097
41_R73_A0.726751.087
107_H110_G0.717861.074
19_S24_K0.713211.067
62_N65_L0.712591.066
40_S56_V0.711391.065
34_S69_A0.706961.058
105_G108_A0.705531.056
12_L15_S0.703731.053
39_L104_V0.695931.041
89_G93_D0.692911.037
108_A111_D0.67041.003
73_A76_L0.667120.998
32_L91_I0.666610.997
107_H111_D0.666190.997
60_D65_L0.666140.997
106_L110_G0.655430.981
36_K65_L0.655410.981
34_S40_S0.65410.979
28_T101_D0.65390.978
34_S60_D0.647340.969
114_D118_R0.638980.956
31_D56_V0.634990.950
71_K74_Q0.634790.950
106_L111_D0.629670.942
29_V56_V0.629210.942
106_L109_C0.625530.936
66_V86_F0.617430.924
117_L120_F0.616970.923
44_A56_V0.609550.912
53_N56_V0.606890.908
109_C112_L0.604070.904
117_L122_R0.602370.901
41_R76_L0.601810.901
97_S100_P0.600920.899
30_V103_L0.599710.897
26_C53_N0.596360.892
124_N127_F0.59410.889
99_P124_N0.581080.870
89_G94_E0.57980.868
31_D104_V0.577730.864
19_S25_R0.577440.864
74_Q77_G0.567270.849
105_G109_C0.56550.846
41_R45_H0.559730.838
37_G69_A0.559720.838
26_C54_L0.558160.835
33_G108_A0.557910.835
72_R76_L0.549140.822
28_T54_L0.546070.817
29_V53_N0.540380.809
113_S116_A0.539170.807
123_P129_V0.536340.803
31_D35_G0.535790.802
110_G113_S0.533030.798
18_D24_K0.532440.797
38_Y42_A0.526060.787
114_D117_L0.523590.783
58_G69_A0.522940.783
39_L43_L0.52170.781
31_D58_G0.515670.772
36_K39_L0.51140.765
72_R75_K0.509650.763
14_D19_S0.508640.761
39_L42_A0.505250.756
73_A84_L0.505070.756
45_H52_P0.504840.755
31_D39_L0.500380.749
73_A86_F0.492530.737
93_D96_S0.492090.736
40_S44_A0.491180.735
33_G107_H0.491040.735
117_L121_I0.490380.734
96_S119_L0.489510.732
67_E71_K0.487090.729
45_H76_L0.484630.725
27_I101_D0.481580.721
77_G82_K0.481320.720
58_G86_F0.480150.718
44_A84_L0.476510.713
35_G65_L0.469420.702
118_R121_I0.469260.702
28_T99_P0.466610.698
64_S68_S0.45320.678
73_A77_G0.450490.674
43_L104_V0.44770.670
100_P103_L0.446440.668
115_R119_L0.444090.665
37_G40_S0.443740.664
16_L19_S0.442230.662
109_C113_S0.441460.661
28_T98_D0.440590.659
101_D126_R0.439670.658
103_L123_P0.432580.647
15_S18_D0.432250.647
70_Q74_Q0.430720.645
127_F131_V0.428970.642
108_A112_L0.426310.638
10_A14_D0.425820.637
112_L116_A0.422730.633
91_I94_E0.422690.633
71_K75_K0.421880.631
116_A120_F0.421120.630
40_S84_L0.416510.623
35_G110_G0.414670.620
112_L117_L0.414470.620
91_I108_A0.411840.616
111_D114_D0.405150.606
34_S66_V0.404470.605
36_K68_S0.400740.600
31_D43_L0.400260.599
60_D86_F0.399820.598
105_G112_L0.398360.596
95_S119_L0.395680.592
31_D59_I0.395260.591
72_R77_G0.391550.586
19_S26_C0.390650.585
115_R118_R0.389060.582
17_C102_I0.387910.580
59_I94_E0.387780.580
33_G105_G0.383280.574
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
2jjqA0.872399.50.211
1uwvA0.900799.50.214
4gekA0.950499.50.219
3ofkA0.893699.40.246
1nkvA0.92299.40.263
3hemA0.907899.30.266
4iscA0.879499.30.267
3htxA0.936299.30.268
3r0qC0.914999.30.27
3bt7A0.886599.30.27

Page generated in 0.0161 seconds.