GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
HEPN - HEPN domain
Pfam: PF05168 (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: CL0291
Length: 118
Sequences: 1188
Seq/Len: 10.07
HH_delta: 0.018 (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
16_E109_E0.759413.942
9_E116_E0.629843.270
98_E102_E0.558972.902
11_D37_K0.535442.780
38_A112_I0.503762.615
14_A18_L0.41672.163
35_V80_L0.376021.952
29_F88_R0.36771.909
32_Y36_E0.363711.888
13_K23_D0.360341.871
17_I21_E0.354871.842
7_K25_N0.34471.789
29_F84_R0.343761.785
33_Q88_R0.336811.749
33_Q84_R0.332151.724
84_R88_R0.317251.647
29_F33_Q0.306421.591
12_L16_E0.287111.491
31_A108_A0.275851.432
13_K21_E0.273311.419
14_A23_D0.272031.412
36_E88_R0.270941.407
24_Y98_E0.269511.399
109_E113_E0.25951.347
4_W90_P0.258061.340
31_A105_I0.251631.306
31_A101_A0.25051.300
10_E23_D0.248641.291
81_E85_I0.247771.286
76_C107_K0.245651.275
32_Y88_R0.243811.266
97_S100_E0.241281.253
10_E25_N0.239481.243
42_L63_L0.234441.217
18_L30_H0.234281.216
5_L9_E0.232731.208
36_E40_K0.232331.206
11_D26_W0.231441.202
17_I23_D0.229031.189
29_F32_Y0.227461.181
26_W30_H0.225731.172
14_A26_W0.222551.155
106_E109_E0.215731.120
36_E54_H0.210211.091
34_A112_I0.208321.081
17_I20_E0.206911.074
13_K16_E0.205981.069
43_L48_G0.205341.066
9_E112_I0.205321.066
72_E110_E0.198411.030
84_R87_A0.198241.029
24_Y101_A0.197721.026
33_Q36_E0.196011.018
8_A38_A0.195641.016
19_L102_E0.19421.008
81_E84_R0.194111.008
30_H88_R0.193621.005
55_S81_E0.193251.003
111_I115_V0.193121.003
113_E116_E0.192941.002
35_V111_I0.192811.001
19_L105_I0.192541.000
63_L67_N0.190610.990
22_G98_E0.189870.986
70_S114_W0.185280.962
32_Y84_R0.183470.952
4_W37_K0.18190.944
28_V104_A0.179250.931
15_A105_I0.179150.930
32_Y37_K0.178610.927
11_D30_H0.17790.924
102_E113_E0.176950.919
33_Q37_K0.176360.916
103_E106_E0.174740.907
54_H89_Y0.171990.893
70_S73_L0.169590.880
37_K90_P0.167750.871
11_D29_F0.165720.860
50_Y55_S0.16350.849
105_I109_E0.16340.848
4_W28_V0.162860.845
19_L98_E0.162030.841
39_L111_I0.16160.839
33_Q89_Y0.161240.837
78_K81_E0.160740.834
102_E106_E0.158740.824
16_E105_I0.158580.823
52_K55_S0.158070.821
38_A115_V0.157560.818
38_A108_A0.156670.813
82_K86_D0.156580.813
97_S101_A0.153510.797
35_V38_A0.153130.795
12_L109_E0.150630.782
54_H88_R0.149770.778
11_D14_A0.149740.777
18_L26_W0.146040.758
11_D33_Q0.145560.756
106_E110_E0.144640.751
29_F85_I0.1440.748
23_D26_W0.143920.747
33_Q80_L0.143280.744
83_F104_A0.142810.741
73_L76_C0.142790.741
110_E113_E0.141940.737
103_E107_K0.141630.735
8_A12_L0.140350.729
29_F87_A0.139770.726
80_L83_F0.13860.720
73_L80_L0.13770.715
23_D30_H0.137570.714
39_L56_L0.136190.707
13_K17_I0.136010.706
58_K62_E0.135240.702
32_Y83_F0.13470.699
30_H33_Q0.133790.695
29_F36_E0.133090.691
75_E78_K0.132650.689
76_C110_E0.132230.686
99_E102_E0.130630.678
16_E20_E0.13040.677
14_A30_H0.130.675
35_V39_L0.129310.671
101_A111_I0.12920.671
80_L104_A0.128950.669
12_L108_A0.128950.669
81_E86_D0.128950.669
8_A34_A0.128610.668
67_N70_S0.12840.667
75_E100_E0.127840.664
5_L38_A0.127790.663
27_A105_I0.127780.663
108_A111_I0.12760.662
14_A17_I0.126740.658
61_S74_A0.125710.653
15_A34_A0.125080.649
36_E84_R0.124940.649
12_L112_I0.124680.647
7_K26_W0.124250.645
56_L81_E0.124210.645
112_I116_E0.123660.642
105_I114_W0.122860.638
30_H34_A0.12260.636
16_E31_A0.122180.634
39_L49_R0.120990.628
52_K81_E0.120880.628
6_E9_E0.120790.627
7_K27_A0.120670.626
7_K10_E0.119920.623
32_Y43_L0.11980.622
42_L56_L0.119770.622
9_E20_E0.119520.620
51_P59_L0.119510.620
4_W29_F0.118450.615
32_Y55_S0.117980.612
28_V83_F0.117830.612
73_L112_I0.117270.609
71_P109_E0.11720.608
12_L15_A0.116980.607
27_A101_A0.116060.603
39_L63_L0.114880.596
11_D90_P0.114460.594
5_L116_E0.114090.592
15_A31_A0.113960.592
20_E102_E0.113680.590
60_F70_S0.113510.589
72_E76_C0.113490.589
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
3o10A199.80.018
1ufbA0.991599.80.028
1wolA0.940799.70.073
1o3uA0.991599.70.075
2hsbA0.983199.70.133
2jpuA0.940798.30.544
3mfnA0.932289.50.781
2xzeA0.923761.70.83
2pmrA0.474641.50.849
3n71A0.957639.10.851

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