GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF177 - Uncharacterized ACR COG1399
Pfam: PF02620 (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. )
Length: 119
Sequences: 1588
Seq/Len: 13.34
HH_delta: 0.915 (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_C83_C0.747483.497
6_E25_D0.668083.125
109_D112_F0.638022.985
3_G28_F0.61442.874
8_T23_P0.579352.710
16_C79_C0.552962.587
14_D77_P0.530652.482
114_A117_K0.514892.409
11_L22_Y0.487052.278
18_E95_N0.465762.179
89_C92_C0.45532.130
79_C83_C0.412921.932
8_T21_D0.406191.900
14_D76_K0.382731.790
60_D63_E0.379621.776
2_D29_E0.376391.761
4_R25_D0.370031.731
20_F77_P0.362541.696
15_R78_L0.344021.609
10_T19_P0.31221.461
108_I113_A0.308231.442
13_C16_C0.296461.387
113_A116_K0.289971.357
112_F115_L0.280791.314
4_R27_D0.278731.304
12_P20_F0.275531.289
32_F64_L0.263441.232
85_G92_C0.258981.212
13_C79_C0.25461.191
63_E67_E0.253181.184
89_C103_C0.251171.175
13_C83_C0.250361.171
10_T21_D0.249651.168
92_C103_C0.24851.163
88_L92_C0.24771.159
66_E70_L0.245041.146
26_E72_A0.244831.145
7_G24_I0.24481.145
5_I26_E0.243721.140
62_A66_E0.242781.136
11_L20_F0.239351.120
30_E49_E0.236051.104
30_E64_L0.2331.090
5_I69_I0.227691.065
1_V32_F0.227331.063
7_G69_I0.226891.061
107_K116_K0.224151.049
85_G89_C0.222851.043
12_P19_P0.222021.039
102_E105_E0.220931.034
14_D66_E0.216871.015
10_T20_F0.215931.010
35_E38_E0.214221.002
30_E68_E0.212040.992
9_V24_I0.209840.982
82_D85_G0.208590.976
2_D27_D0.207940.973
54_V57_D0.206970.968
89_C93_G0.203220.951
36_E39_E0.197650.925
50_E53_P0.197150.922
90_P93_G0.196470.919
1_V64_L0.194510.910
104_E107_K0.194170.908
79_C85_G0.183360.858
50_E110_P0.182440.853
70_L74_P0.181530.849
115_L118_L0.181370.848
11_L70_L0.18070.845
18_E79_C0.180350.844
3_G29_E0.178580.835
85_G93_G0.177060.828
6_E23_P0.175390.821
112_F118_L0.174470.816
84_K92_C0.172050.805
32_F113_A0.169180.791
28_F68_E0.166430.779
85_G88_L0.165780.776
67_E70_L0.165610.775
15_R76_K0.160080.749
11_L73_I0.159030.744
27_D102_E0.158620.742
5_I25_D0.157820.738
9_V66_E0.157410.736
63_E66_E0.155380.727
50_E54_V0.154960.725
114_A118_L0.154270.722
103_C106_E0.152740.715
90_P95_N0.152630.714
88_L103_C0.152270.712
16_C85_G0.148560.695
22_Y74_P0.147690.691
88_L93_G0.146960.688
92_C95_N0.146460.685
66_E112_F0.145360.680
61_L118_L0.144650.677
22_Y73_I0.144480.676
81_E94_A0.144270.675
57_D61_L0.143930.673
84_K89_C0.143370.671
104_E117_K0.143170.670
78_L109_D0.143060.669
3_G56_D0.142650.667
9_V73_I0.142590.667
93_G103_C0.141680.663
65_I69_I0.141270.661
5_I65_I0.140780.659
66_E109_D0.140060.655
9_V22_Y0.139060.651
22_Y26_E0.138320.647
15_R74_P0.137820.645
30_E67_E0.137440.643
15_R79_C0.136920.641
29_E59_I0.136110.637
91_V104_E0.13550.634
25_D117_K0.135470.634
108_I116_K0.135370.633
51_V59_I0.135140.632
5_I70_L0.133410.624
85_G103_C0.133160.623
84_K95_N0.133040.622
78_L89_C0.132840.621
83_C92_C0.132280.619
11_L75_M0.131870.617
16_C93_G0.131660.616
19_P23_P0.130210.609
51_V57_D0.130110.609
30_E79_C0.128560.601
34_P66_E0.128550.601
15_R83_C0.128170.600
1_V22_Y0.127880.598
14_D79_C0.127830.598
9_V21_D0.127110.595
94_A106_E0.126240.591
51_V114_A0.125860.589
65_I118_L0.125550.587
6_E27_D0.125530.587
8_T47_E0.125020.585
34_P54_V0.124880.584
95_N103_C0.124470.582
24_I73_I0.123820.579
16_C78_L0.123730.579
30_E109_D0.123670.579
63_E114_A0.123660.579
50_E69_I0.123610.578
64_L68_E0.122980.575
22_Y65_I0.122090.571
31_V69_I0.121430.568
32_F61_L0.121340.568
62_A112_F0.119010.557
13_C32_F0.118220.553
16_C80_S0.117630.550
32_F66_E0.117270.549
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
3so4A0.798312.90.915
4hsuA0.34454.70.929
4gh9A0.38663.10.935
2i5oA0.31933.10.935
1d6gA0.37822.60.937
4bbrM0.48742.60.937
2cjqA0.5632.10.94
1dcqA0.47062.10.94
3pw3A0.36971.90.941
3gp2B0.0841.70.942
If you are interested in a protein containing this domain,
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