GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SelR - SelR domain
Pfam: PF01641 (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: CL0080
Length: 124
Sequences: 2213
Seq/Len: 17.85
HH_delta: -0.027 (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
9_T12_Q1.268763.273
14_R18_E1.189453.068
27_G116_S1.181143.047
75_R88_R1.079222.784
14_R20_G1.022742.638
78_F83_V1.007972.600
19_K88_R0.982982.536
16_L94_S0.974582.514
42_V94_S0.965222.490
12_Q41_A0.930432.400
87_V114_I0.920972.376
76_E83_V0.845692.182
43_C92_C0.794032.048
52_T64_W0.793572.047
33_K56_S0.765551.975
45_T91_R0.760351.961
45_T90_A0.758911.958
39_V122_I0.729131.881
16_L42_V0.719481.856
32_H121_F0.714111.842
48_F112_Y0.698791.803
79_S82_M0.674951.741
17_R42_V0.657911.697
101_D110_L0.643181.659
16_L41_A0.640051.651
15_V117_A0.617021.592
89_C92_C0.595551.536
73_K88_R0.594131.533
73_K93_G0.592151.527
23_R26_S0.581831.501
74_E110_L0.574641.482
64_W106_P0.569871.470
45_T71_A0.565141.458
29_Y32_H0.561641.449
28_E116_S0.559581.443
11_E14_R0.549661.418
19_K75_R0.544521.405
52_T65_Q0.534741.379
4_W17_R0.53411.378
73_K90_A0.526841.359
102_D109_G0.517751.336
46_P67_I0.50871.312
30_W33_K0.502561.296
28_E120_K0.499371.288
33_K55_D0.490341.265
35_E51_D0.48711.257
88_R93_G0.478771.235
13_Y17_R0.475861.228
64_W108_T0.474421.224
3_E6_K0.470691.214
39_V44_G0.469071.210
37_I46_P0.453241.169
40_C89_C0.452241.167
80_H83_V0.451961.166
34_E123_P0.442361.141
2_E6_K0.429231.107
5_R13_Y0.426341.100
40_C92_C0.425241.097
10_P14_R0.418961.081
3_E7_R0.416911.075
32_H38_Y0.406291.048
71_A90_A0.406131.048
11_E117_A0.406061.047
43_C89_C0.395171.019
68_P71_A0.392861.013
29_Y121_F0.392581.013
44_G120_K0.385330.994
87_V96_L0.381020.983
40_C43_C0.378080.975
37_I67_I0.375280.968
34_E121_F0.373430.963
13_Y18_E0.371810.959
4_W42_V0.368970.952
22_E117_A0.357120.921
102_D105_P0.355990.918
16_L118_S0.355850.918
77_D84_R0.354120.913
24_P80_H0.34220.883
4_W7_R0.340790.879
25_F30_W0.338670.874
41_A94_S0.338360.873
54_F58_C0.334760.864
11_E20_G0.325530.840
25_F31_D0.325180.839
44_G122_I0.323910.836
66_P99_V0.322720.832
74_E85_T0.318560.822
4_W13_Y0.316440.816
33_K58_C0.31630.816
11_E15_V0.312480.806
2_E5_R0.307720.794
65_Q68_P0.294520.760
50_S53_K0.292120.754
39_V46_P0.290530.749
87_V99_V0.289460.747
30_W55_D0.288570.744
96_L114_I0.283910.732
27_G30_W0.283040.730
30_W62_S0.282860.730
54_F64_W0.282210.728
29_Y116_S0.282010.727
19_K93_G0.271460.700
66_P112_Y0.268320.692
38_Y50_S0.268010.691
114_I119_L0.266710.688
78_F81_G0.265510.685
50_S121_F0.262030.676
66_P72_V0.261260.674
49_S67_I0.260870.673
42_V92_C0.259930.671
39_V120_K0.258630.667
11_E23_R0.253160.653
65_Q74_E0.252360.651
74_E101_D0.250970.647
43_C94_S0.24040.620
41_A120_K0.238430.615
31_D55_D0.237080.612
33_K62_S0.236310.610
7_R42_V0.2350.606
86_E95_H0.233920.603
37_I49_S0.232570.600
104_P109_G0.232010.598
79_S83_V0.229910.593
71_A91_R0.22690.585
65_Q69_G0.22470.580
66_P87_V0.222140.573
13_Y42_V0.220760.569
105_P108_T0.218960.565
40_C94_S0.217770.562
100_F113_C0.216570.559
21_T95_H0.214960.555
19_K79_S0.212750.549
35_E123_P0.212740.549
60_W100_F0.212650.549
55_D62_S0.2120.547
60_W98_H0.211610.546
66_P74_E0.211480.546
86_E113_C0.208880.539
101_D109_G0.207860.536
64_W105_P0.207810.536
114_I118_S0.207170.534
58_C81_G0.206980.534
74_E83_V0.205010.529
19_K58_C0.20440.527
41_A118_S0.204240.527
34_E38_Y0.204170.527
37_I119_L0.203540.525
78_F82_M0.20230.522
2_E70_D0.202130.521
72_V96_L0.20150.520
12_Q28_E0.200810.518
8_L12_Q0.196070.506
21_T60_W0.195770.505
60_W113_C0.195340.504
76_E85_T0.19530.504
7_R91_R0.194740.502
100_F111_R0.194190.501
86_E98_H0.192670.497
17_R94_S0.19250.497
26_S30_W0.192140.496
38_Y58_C0.18990.490
6_K23_R0.189720.489
43_C71_A0.188250.486
31_D50_S0.188240.486
30_W54_F0.185670.479
12_Q117_A0.184650.476
84_R95_H0.184570.476
89_C94_S0.183880.474
40_C45_T0.183690.474
43_C91_R0.183590.474
86_E100_F0.180830.466
7_R13_Y0.180340.465
5_R17_R0.180240.465
21_T100_F0.180080.465
61_P98_H0.179080.462
20_G58_C0.177250.457
14_R23_R0.175460.453
60_W86_E0.175350.452
26_S116_S0.175110.452
7_R10_P0.174580.450
85_T101_D0.173730.448
74_E87_V0.173580.448
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
3hcgA1100-0.027
3e0mA1100-0.027
2k8dA0.9919100-0.019
3e0oA0.9839100-0.016
3cxkA0.9919100-0.013
3hcjA0.9919100-0.011
2l1uA0.9919100-0.004
2kv1A0.83871000.233
2kaoA0.80651000.246
3maoA0.79031000.249

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