GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF892 - Domain of unknown function (DUF892)
Pfam: PF05974 (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: CL0044
Length: 159
Sequences: 6640
Seq/Len: 41.76
HH_delta: 0.227 (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
117_I133_E0.889812.193
92_A95_D0.841112.073
121_K129_A0.839622.070
14_Y58_F0.757061.866
53_R134_Q0.752491.855
57_I128_A0.743541.833
7_I63_A0.741791.828
45_E48_E0.679841.676
94_K100_A0.647621.596
9_E119_L0.645081.590
100_A104_K0.643561.586
114_G136_L0.633691.562
16_A112_A0.618191.524
110_I114_G0.616351.519
58_F63_A0.604651.490
9_E116_L0.600691.481
31_A98_L0.588971.452
17_E50_Q0.583411.438
111_A115_T0.581961.434
118_A122_Q0.581631.434
130_Q133_E0.576771.422
129_A133_E0.576211.420
24_L47_T0.574851.417
21_L48_E0.571941.410
103_Q143_D0.563571.389
38_A42_E0.562611.387
24_L106_E0.554581.367
103_Q147_T0.549171.354
8_D12_D0.54611.346
28_A41_E0.544691.343
36_L93_V0.543421.339
47_T50_Q0.535051.319
117_I136_L0.534691.318
130_Q134_Q0.531091.309
57_I131_L0.527461.300
28_A44_L0.524631.293
144_E148_Q0.521491.285
119_L123_L0.515071.270
139_E142_A0.507151.250
103_Q107_H0.504671.244
121_K133_E0.502931.240
101_A104_K0.496611.224
15_S19_Q0.493081.215
110_I136_L0.490181.208
13_L113_Y0.485571.197
108_Y111_A0.485031.196
125_D128_A0.482221.189
37_K41_E0.473181.166
13_L132_L0.473151.166
99_I146_L0.472431.165
17_E139_E0.466931.151
54_L135_N0.466121.149
13_L112_A0.458251.130
126_E129_A0.455561.123
104_K107_H0.45221.115
100_A150_A0.451961.114
108_Y112_A0.448971.107
25_P44_L0.443361.093
50_Q139_E0.442881.092
47_T142_A0.441231.088
23_A105_V0.437261.078
10_L54_L0.436221.075
115_T118_A0.435981.075
18_K51_I0.435921.075
25_P48_E0.434611.071
40_L98_L0.431991.065
11_R58_F0.429571.059
53_R135_N0.428051.055
118_A124_G0.42721.053
40_L102_A0.424971.048
52_E56_Q0.42391.045
11_R66_S0.42391.045
17_E47_T0.423231.043
27_L101_A0.422091.040
39_A42_E0.421121.038
116_L132_L0.419481.034
29_E55_E0.414391.021
41_E45_E0.413591.019
13_L116_L0.412511.017
107_H143_D0.410531.012
21_L44_L0.40340.994
49_Q53_R0.402040.991
138_E141_A0.396060.976
121_K126_E0.390920.964
46_E50_Q0.38910.959
103_Q150_A0.386090.952
50_Q138_E0.385530.950
107_H111_A0.384860.949
12_D112_A0.384760.948
57_I61_L0.382550.943
13_L54_L0.376970.929
11_R63_A0.373160.920
110_I140_E0.372990.919
47_T106_E0.372730.919
50_Q142_A0.372010.917
53_R131_L0.367490.906
95_D100_A0.366970.905
94_K150_A0.36530.900
110_I143_D0.365060.900
42_E145_K0.364610.899
27_L98_L0.361120.890
117_I132_L0.359710.887
103_Q146_L0.359670.887
29_E52_E0.354610.874
130_Q137_D0.352210.868
31_A40_L0.351730.867
106_E139_E0.350690.864
14_Y51_I0.349530.862
117_I129_A0.348920.860
27_L102_A0.347230.856
39_A145_K0.34610.853
25_P41_E0.344160.848
95_D101_A0.342550.844
133_E137_D0.340610.840
133_E136_L0.337040.831
140_E144_E0.334940.826
9_E12_D0.329630.813
50_Q135_N0.328520.810
39_A43_H0.32850.810
114_G118_A0.326520.805
7_I58_F0.324940.801
134_Q137_D0.324180.799
6_F128_A0.323720.798
107_H147_T0.323380.797
106_E142_A0.322880.796
21_L51_I0.32230.794
45_E49_Q0.322220.794
46_E141_A0.322120.794
20_L47_T0.318440.785
17_E142_A0.317710.783
44_L48_E0.316920.781
14_Y54_L0.315560.778
47_T139_E0.314610.775
10_L58_F0.314270.775
43_H106_E0.314020.774
38_A49_Q0.312360.770
118_A126_E0.312040.769
60_A127_E0.311830.769
28_A37_K0.311740.768
17_E113_Y0.306390.755
53_R138_E0.305110.752
50_Q106_E0.304380.750
48_E52_E0.304090.750
143_D147_T0.303710.749
145_K149_L0.303150.747
136_L140_E0.301580.743
126_E130_Q0.298690.736
46_E49_Q0.298090.735
41_E44_L0.295920.729
32_S41_E0.295070.727
19_Q23_A0.293810.724
38_A41_E0.291750.719
52_E55_E0.29170.719
29_E41_E0.288310.711
19_Q69_K0.287940.710
22_K69_K0.28630.706
57_I60_A0.285030.703
56_Q60_A0.284410.701
56_Q59_E0.284310.701
57_I125_D0.283790.700
9_E115_T0.283740.699
115_T119_L0.283380.699
43_H47_T0.282930.697
25_P29_E0.282690.697
55_E59_E0.280810.692
113_Y139_E0.279530.689
32_S37_K0.278550.687
23_A101_A0.278460.686
36_L98_L0.278010.685
62_G65_P0.276730.682
6_F123_L0.276120.681
43_H145_K0.275480.679
54_L132_L0.274590.677
93_V98_L0.273760.675
46_E142_A0.272190.671
11_R65_P0.271380.669
24_L142_A0.26930.664
20_L24_L0.268930.663
10_L57_I0.267270.659
31_A37_K0.266840.658
10_L128_A0.266630.657
109_E113_Y0.26560.655
47_T109_E0.26490.653
8_D11_R0.264450.652
18_K21_L0.262360.647
61_L125_D0.261830.645
43_H142_A0.261810.645
124_G129_A0.26050.642
17_E106_E0.25950.640
9_E112_A0.259480.640
20_L109_E0.259220.639
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
2gyqA0.993799.70.227
2gs4A0.993799.70.228
3oghB0.974899.60.295
4am5A0.899499.60.301
3hiuA0.974899.60.306
2y3qA0.899499.60.311
3qb9A0.899499.60.315
1jgcA0.899499.60.315
3gvyA0.899499.50.321
1nfvA0.899499.50.323

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