GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MATH - MATH domain
Pfam: PF00917 (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: CL0389
Length: 119
Sequences: 2017
Seq/Len: 16.95
HH_delta: 0.141 (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
42_Y90_G0.615653.724
5_S109_D0.548323.317
31_Y34_G0.406722.460
65_R114_E0.392352.373
27_R46_D0.344922.086
27_R44_H0.334952.026
69_Q107_V0.303481.836
29_K44_H0.289641.752
3_N6_K0.26931.629
96_S99_D0.269051.627
64_F115_V0.259481.570
40_S90_G0.246741.493
41_V113_I0.243641.474
28_L115_V0.235671.426
38_Y93_S0.229741.390
15_S27_R0.229371.387
30_V39_L0.229241.387
34_G40_S0.228061.380
44_H88_S0.227311.375
38_Y96_S0.223891.354
35_N88_S0.220261.332
18_V25_P0.217831.318
40_S94_F0.216821.312
63_R116_E0.215381.303
12_E15_S0.215111.301
45_C56_W0.214591.298
43_L62_F0.214461.297
19_F22_G0.21361.292
74_I77_R0.213481.291
76_K79_K0.209051.265
8_K101_E0.208621.262
41_V64_F0.207861.257
66_L95_I0.206491.249
26_W45_C0.204091.235
23_G26_W0.202921.227
109_D114_E0.201031.216
71_G74_I0.196641.189
13_Y29_K0.19391.173
26_W58_I0.191411.158
90_G94_F0.184681.117
95_I100_L0.183711.111
24_Y45_C0.183621.111
88_S91_W0.182551.104
98_E112_T0.180911.094
24_Y58_I0.176471.067
62_F83_F0.171311.036
27_R47_K0.171121.035
106_L111_L0.171121.035
99_D114_E0.170021.028
26_W60_A0.16861.020
4_F32_P0.165080.999
60_A117_V0.163930.992
23_G28_L0.16390.991
97_W101_E0.161290.976
70_N73_S0.159710.966
25_P45_C0.158390.958
15_S44_H0.15790.955
61_E118_K0.156250.945
4_F106_L0.155790.942
12_E112_T0.155520.941
20_S25_P0.1550.938
3_N8_K0.153930.931
73_S77_R0.153760.930
106_L109_D0.152630.923
64_F91_W0.152390.922
41_V45_C0.151610.917
17_F20_S0.150950.913
11_E14_S0.150730.912
4_F7_L0.148820.900
65_R116_E0.146790.888
29_K88_S0.145610.881
45_C58_I0.144930.877
20_S23_G0.14490.877
26_W43_L0.144740.876
88_S92_S0.143780.870
14_S27_R0.14320.866
87_S92_S0.142750.864
24_Y56_W0.142280.861
81_H92_S0.14210.860
6_K113_I0.142010.859
81_H87_S0.14060.850
67_L114_E0.140570.850
59_E82_S0.140050.847
69_Q112_T0.139280.843
100_L111_L0.139160.842
101_E117_V0.139120.842
8_K23_G0.138320.837
112_T115_V0.138220.836
101_E110_S0.137840.834
42_Y94_F0.137590.832
23_G50_N0.13750.832
62_F92_S0.137140.830
81_H91_W0.136760.827
105_F108_D0.135430.819
81_H89_W0.135420.819
29_K60_A0.135150.818
101_E111_L0.135120.817
22_G60_A0.134720.815
36_G114_E0.13440.813
56_W62_F0.134110.811
93_S102_D0.133330.807
23_G110_S0.133220.806
25_P46_D0.133180.806
103_P106_L0.131890.798
79_K86_P0.131880.798
42_Y92_S0.13130.794
11_E115_V0.13110.793
3_N105_F0.130550.790
19_F64_F0.130240.788
68_N101_E0.129980.786
33_K39_L0.129480.783
15_S64_F0.129390.783
5_S95_I0.129370.783
95_I99_D0.12890.780
78_I84_N0.128860.779
30_V41_V0.127470.771
76_K87_S0.127130.769
24_Y38_Y0.126850.767
11_E15_S0.126040.762
80_S84_N0.126010.762
76_K80_S0.1250.756
37_K47_K0.124670.754
44_H100_L0.124620.754
79_K92_S0.123870.749
5_S8_K0.12330.746
22_G47_K0.123210.745
78_I81_H0.122870.743
32_P60_A0.122580.741
57_S82_S0.122530.741
39_L97_W0.122320.740
19_F109_D0.120610.730
110_S118_K0.120610.730
8_K72_K0.120610.730
96_S110_S0.119170.721
7_L39_L0.11910.720
32_P68_N0.118930.719
6_K41_V0.118530.717
109_D112_T0.118060.714
81_H85_N0.117730.712
19_F26_W0.117680.712
30_V64_F0.117610.711
35_N42_Y0.117080.708
59_E96_S0.116930.707
28_L46_D0.116540.705
35_N98_E0.116360.704
34_G90_G0.11590.701
21_H105_F0.11590.701
31_Y44_H0.115710.700
39_L58_I0.115320.698
14_S17_F0.115210.697
38_Y45_C0.115030.696
110_S114_E0.114830.695
40_S64_F0.114790.694
77_R82_S0.114680.694
29_K86_P0.114570.693
81_H88_S0.114310.691
62_F78_I0.113780.688
34_G42_Y0.113760.688
39_L100_L0.113670.688
42_Y91_W0.113520.687
60_A65_R0.113510.687
44_H108_D0.113340.686
60_A83_F0.112490.680
69_Q72_K0.112350.680
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
4gjhA199.80.141
2fojA0.949699.80.143
1ca9A199.80.163
3ivvA0.95899.80.165
2f1zA0.95899.70.169
1d00A199.70.17
2gkwA199.70.173
3hqiA0.95899.70.175
4ghuA199.70.178
1flkA199.70.188

Page generated in 0.0137 seconds.