GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Condensation - Condensation domain
Pfam: PF00668 (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: CL0149
Length: 301
Sequences: 11093
Seq/Len: 36.85
HH_delta: -0.028 (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
266_D297_R1.394033.878
61_R75_L1.355733.771
34_E128_E1.319513.670
255_A298_I1.055952.937
54_R151_E0.946052.632
239_A249_V0.938312.610
45_R49_E0.888372.471
36_D128_E0.873742.430
48_L119_F0.865452.407
135_F140_C0.864382.404
55_H151_E0.843522.346
51_L155_A0.842982.345
51_L152_L0.836212.326
268_V295_P0.823932.292
61_R114_G0.80752.246
278_R282_G0.787432.190
49_E53_A0.784382.182
50_R53_A0.740162.059
7_L70_P0.737072.050
50_R159_L0.734082.042
44_L152_L0.727482.024
110_D113_E0.725962.019
228_S231_L0.71221.981
266_D299_D0.708691.971
150_R285_N0.667831.858
40_D43_R0.658191.831
57_I60_T0.638251.775
116_L139_I0.634331.764
40_D156_Y0.633591.762
96_E99_E0.613271.706
50_R155_A0.612511.704
148_L287_V0.610631.699
34_E130_F0.60091.671
191_A195_E0.597291.661
85_I120_T0.594451.654
237_E241_Q0.591521.645
18_Q23_D0.589051.639
238_F242_Y0.580441.615
235_L246_P0.574451.598
43_R156_Y0.572591.593
63_E73_R0.56981.585
43_R159_L0.558481.553
251_L269_I0.555981.547
100_L122_I0.550891.532
235_L249_V0.549881.530
192_F196_Y0.54981.529
123_R129_Y0.545341.517
244_V248_A0.539091.500
41_I121_L0.538071.497
86_D123_R0.532771.482
137_H142_G0.529421.473
190_R194_R0.529351.472
88_S123_R0.528631.470
32_V130_F0.527041.466
99_E103_Q0.526891.466
39_I44_L0.526511.465
118_R134_S0.524831.460
286_T290_F0.523911.457
56_P169_S0.519521.445
187_Q191_A0.518331.442
255_A269_I0.51411.430
32_V132_L0.511431.423
119_F131_L0.511431.423
104_E120_T0.510331.420
247_F271_T0.507761.412
122_I132_L0.505281.406
38_P127_D0.50381.401
239_A244_V0.502531.398
200_V268_V0.499761.390
46_Q159_L0.499351.389
14_I289_P0.494331.375
19_Q64_E0.492821.371
62_F138_I0.492561.370
44_L156_Y0.485551.351
30_A134_S0.48381.346
232_S236_K0.482421.342
62_F139_I0.481951.341
257_A261_L0.478231.330
88_S126_D0.477971.330
150_R154_Q0.477351.328
104_E107_R0.476351.325
143_W274_S0.476271.325
97_I130_F0.471671.312
60_T74_V0.470751.309
231_L234_R0.470581.309
39_I129_Y0.470121.308
140_C144_S0.466431.297
60_T72_Q0.466081.296
43_R160_S0.464231.291
44_L131_L0.459291.278
49_E79_S0.45821.275
195_E198_R0.45261.259
12_Q178_R0.447691.245
94_E98_L0.447371.244
232_S246_P0.447311.244
47_A152_L0.445831.240
104_E134_S0.445191.238
229_S233_K0.444751.237
12_Q69_E0.444031.235
41_I45_R0.436291.214
48_L152_L0.435861.212
121_L129_Y0.435151.210
98_L102_E0.434241.208
119_F133_I0.433111.205
180_Y183_S0.433031.205
140_C148_L0.430421.197
155_A159_L0.428861.193
173_F176_F0.428771.193
52_I117_F0.425371.183
199_G297_R0.425311.183
163_L166_P0.424481.181
47_A156_Y0.424191.180
234_R237_E0.423581.178
283_F286_T0.42251.175
51_L148_L0.421631.173
46_Q50_R0.420081.169
144_S287_V0.419311.166
47_A155_A0.419081.166
8_T11_Q0.416171.158
53_A77_S0.414961.154
140_C145_L0.414541.153
153_L157_A0.414381.153
42_E45_R0.411471.145
236_K246_P0.410551.142
7_L62_F0.410361.141
45_R81_E0.406651.131
10_A13_G0.402951.121
176_F179_E0.401711.117
238_F241_Q0.401251.116
29_I140_C0.401071.116
45_R84_Y0.398391.108
259_S262_T0.397481.106
100_L103_Q0.395561.100
124_T130_F0.395421.100
66_D69_E0.391251.088
187_Q190_R0.388891.082
102_E106_N0.386711.076
15_W19_Q0.386691.076
84_Y123_R0.38631.075
273_V294_L0.385541.072
100_L104_E0.383971.068
237_E240_K0.382611.064
170_Y173_F0.380631.059
244_V249_V0.380291.058
64_E67_G0.379851.057
213_P216_P0.379711.056
256_L260_R0.379611.056
41_I84_Y0.378651.053
233_K237_E0.378591.053
111_L138_I0.376821.048
41_I123_R0.375181.044
46_Q49_E0.372031.035
43_R47_A0.370831.032
16_L20_L0.370571.031
251_L271_T0.368991.026
10_A289_P0.36851.025
238_F249_V0.36771.023
125_S128_E0.367261.022
230_E234_R0.36681.020
137_H291_V0.366091.018
169_S172_D0.365791.017
65_D71_Y0.364431.014
170_Y174_V0.362311.008
191_A194_R0.36191.007
9_P177_Q0.361761.006
177_Q181_R0.361671.006
43_R158_G0.361561.006
172_D175_E0.360461.003
70_P74_V0.360351.002
117_F133_I0.359351.000
28_N134_S0.358920.998
37_G129_Y0.357130.993
13_G17_L0.356940.993
54_R155_A0.354090.985
56_P59_R0.351190.977
61_R115_P0.348240.969
39_I156_Y0.348060.968
94_E97_I0.345660.961
154_Q159_L0.343850.956
13_G289_P0.341860.951
45_R82_I0.341530.950
271_T296_V0.341440.950
83_E120_T0.340350.947
39_I121_L0.340280.947
48_L117_F0.337580.939
14_I27_Y0.335760.934
295_P298_I0.332730.926
255_A267_V0.327410.911
101_I132_L0.326270.908
254_F269_I0.326210.907
48_L148_L0.325720.906
236_K240_K0.324880.904
227_L232_S0.324080.901
100_L120_T0.323990.901
6_P175_E0.323020.899
244_V252_A0.322960.898
268_V297_R0.320450.891
151_E155_A0.320420.891
259_S267_V0.317720.884
18_Q21_S0.314810.876
97_I100_L0.314320.874
43_R46_Q0.312980.871
72_Q75_L0.312890.870
251_L255_A0.312410.869
121_L131_L0.309470.861
140_C287_V0.309330.860
109_F118_R0.307230.855
57_I62_F0.307140.854
22_P25_S0.305970.851
155_A163_L0.305410.850
254_F257_A0.305280.849
18_Q24_S0.305010.848
51_L151_E0.304940.848
9_P12_Q0.30250.841
72_Q76_E0.300140.835
147_I287_V0.299410.833
59_R74_V0.298240.830
61_R73_R0.298140.829
28_N109_F0.298080.829
230_E233_K0.296960.826
251_L254_F0.296140.824
259_S265_D0.295720.823
242_Y246_P0.295170.821
183_S186_L0.294950.820
15_W70_P0.294690.820
98_L101_I0.293160.815
96_E100_L0.290260.807
65_D69_E0.289920.806
7_L138_I0.289650.806
247_F251_L0.288980.804
49_E80_I0.28850.803
95_E99_E0.288180.802
109_F134_S0.288040.801
251_L296_V0.28780.801
209_D212_R0.28680.798
228_S232_S0.286790.798
103_Q107_R0.285080.793
108_P118_R0.285040.793
63_E71_Y0.284380.791
172_D176_F0.283860.790
151_E154_Q0.283650.789
227_L231_L0.283010.787
147_I151_E0.282110.785
188_E191_A0.281620.783
256_L259_S0.280140.779
97_I101_I0.279990.779
36_D127_D0.278160.774
13_G16_L0.278040.773
49_E77_S0.275930.768
7_L11_Q0.274790.764
254_F258_L0.274530.764
232_S235_L0.274330.763
267_V298_I0.273150.760
255_A259_S0.273040.759
86_D89_S0.272720.759
32_V101_I0.272430.758
180_Y189_A0.270710.753
166_P286_T0.270410.752
229_S232_S0.269370.749
141_D276_R0.269250.749
18_Q22_P0.268670.747
175_E179_E0.268420.747
204_P207_P0.268420.747
259_S264_Q0.267370.744
270_G295_P0.266680.742
168_P172_D0.265640.739
48_L82_I0.262390.730
35_L121_L0.262320.730
8_T174_V0.261240.727
9_P178_R0.260830.726
137_H276_R0.26030.724
272_P293_T0.258930.720
47_A51_L0.258120.718
223_I226_S0.257480.716
135_F139_I0.257470.716
21_S24_S0.257420.716
148_L152_L0.257240.716
104_E132_L0.25720.715
116_L136_H0.256310.713
104_E118_R0.256260.713
204_P208_P0.25540.710
81_E84_Y0.255330.710
206_L209_D0.254430.708
50_R158_G0.252630.703
14_I18_Q0.250.695
6_P72_Q0.249610.694
99_E102_E0.249110.693
156_Y160_S0.247550.689
176_F180_Y0.24750.688
14_I137_H0.247040.687
41_I129_Y0.246910.687
189_A192_F0.245720.684
15_W18_Q0.245670.683
143_W275_G0.244330.680
42_E46_Q0.243970.679
181_R186_L0.242970.676
29_I135_F0.242110.673
8_T170_Y0.241630.672
14_I17_L0.240170.668
273_V292_N0.239130.665
278_R283_F0.238390.663
75_L78_S0.237750.661
123_R126_D0.237730.661
194_R198_R0.23680.659
137_H141_D0.236340.657
15_W138_I0.236220.657
56_P60_T0.235660.656
27_Y136_H0.23550.655
70_P73_R0.235420.655
97_I122_I0.234940.654
30_A132_L0.234850.653
177_Q180_Y0.234560.652
213_P218_Y0.234250.652
35_L39_I0.233930.651
144_S288_G0.233850.650
57_I289_P0.233560.650
173_F283_F0.232970.648
174_V177_Q0.231830.645
95_E98_L0.231750.645
45_R79_S0.231420.644
151_E287_V0.230960.642
173_F177_Q0.230930.642
180_Y186_L0.230650.642
101_I105_L0.228810.636
30_A105_L0.227820.634
84_Y88_S0.227130.632
239_A242_Y0.225720.628
171_K175_E0.225070.626
201_P268_V0.224590.625
40_D44_L0.223870.623
64_E70_P0.223430.622
11_Q72_Q0.223060.620
83_E107_R0.222080.618
107_R118_R0.221740.617
246_P249_V0.221240.615
186_L189_A0.220950.615
25_S28_N0.220030.612
57_I287_V0.219920.612
57_I286_T0.219840.612
71_Y74_V0.219540.611
50_R54_R0.219510.611
197_L297_R0.218630.608
7_L12_Q0.218540.608
49_E78_S0.218230.607
245_T248_A0.216850.603
154_Q158_G0.216540.602
50_R160_S0.216470.602
233_K236_K0.215320.599
147_I150_R0.215160.598
213_P217_S0.215150.598
35_L129_Y0.214580.597
44_L47_A0.214220.596
52_I80_I0.213470.594
242_Y249_V0.21340.594
176_F283_F0.212190.590
135_F145_L0.211630.589
272_P291_V0.210980.587
174_V178_R0.210960.587
10_A291_V0.210510.586
248_A252_A0.210190.585
145_L149_L0.208580.580
105_L108_P0.20840.580
183_S187_Q0.208250.579
40_D160_S0.208220.579
215_I218_Y0.208140.579
265_D299_D0.207020.576
27_Y30_A0.2060.573
212_R215_I0.205490.572
253_A256_L0.205070.570
269_I298_I0.204740.570
62_F116_L0.204260.568
287_V290_F0.204250.568
151_E285_N0.202570.563
289_P293_T0.202450.563
146_N150_R0.201840.561
268_V272_P0.201290.560
54_R166_P0.201290.560
282_G285_N0.201250.560
289_P292_N0.201030.559
170_Y176_F0.201010.559
78_S114_G0.200950.559
51_L58_L0.200660.558
281_P284_S0.200420.557
80_I84_Y0.199960.556
137_H245_T0.199880.556
179_E182_N0.199650.555
196_Y297_R0.199630.555
63_E112_S0.199610.555
85_I122_I0.19940.555
275_G291_V0.199330.554
73_R76_E0.196570.547
205_S264_Q0.196550.547
10_A293_T0.196510.547
133_I148_L0.196480.547
199_G266_D0.196090.545
178_R182_N0.195790.545
277_P281_P0.195770.545
283_F290_F0.195740.544
80_I83_E0.195630.544
155_A158_G0.195230.543
200_V295_P0.194270.540
82_I86_D0.194150.540
94_E128_E0.193330.538
176_F181_R0.193070.537
110_D114_G0.192250.535
115_P139_I0.192230.535
264_Q267_V0.191550.533
170_Y288_G0.191230.532
38_P129_Y0.191110.532
143_W147_I0.191030.531
198_R201_P0.190850.531
35_L131_L0.190310.529
44_L133_I0.189840.528
57_I139_I0.18820.524
247_F254_F0.187970.523
278_R281_P0.18790.523
61_R116_L0.187350.521
275_G290_F0.18640.518
144_S147_I0.18630.518
9_P16_L0.186030.517
125_S129_Y0.185680.516
55_H287_V0.185620.516
205_S208_P0.18560.516
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
2vsqA0.9834100-0.028
2jgpA0.96351000.011
4jn3A0.98341000.013
4hvmA0.94021000.026
1l5aA0.94351000.064
2xhgA0.98011000.092
1q9jA0.92691000.177
3fotA0.976799.60.6
4g22A0.916999.50.637
2xr7A0.920399.50.638

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