GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Actin - Actin
Pfam: PF00022 (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: CL0108
Length: 393
Sequences: 5482
Seq/Len: 13.95
HH_delta: 0.082 (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
96_P124_P0.854055.092
96_P126_V0.554983.309
221_E225_E0.532913.178
328_E332_Q0.50152.990
352_D355_F0.498562.973
181_E185_E0.475412.835
222_E226_E0.471152.809
188_K214_S0.460812.748
320_S323_I0.437032.606
149_I320_S0.430022.564
149_I154_T0.419612.502
293_E297_D0.403742.407
329_R333_E0.395882.361
60_E177_D0.392922.343
145_L156_V0.388932.319
182_Y270_I0.367712.193
6_P126_V0.361812.157
328_E331_Q0.348442.078
77_E120_K0.339832.026
329_R332_Q0.334781.996
352_D359_I0.324671.936
295_I330_L0.317971.896
327_K348_A0.314741.877
17_K28_V0.311121.855
99_L117_L0.310991.854
190_R264_R0.308671.841
11_N80_W0.302481.804
261_G264_R0.300441.791
355_F359_I0.299581.786
16_I32_S0.298341.779
78_E82_Y0.295471.762
292_P333_E0.294381.755
13_S152_S0.292591.745
147_V154_T0.292171.742
316_L330_L0.291011.735
325_G328_E0.290631.733
149_I326_F0.288151.718
101_E110_R0.287991.717
179_L267_I0.285721.704
19_G358_W0.281881.681
50_D54_S0.278931.663
307_R310_L0.278661.662
82_Y85_S0.27251.625
170_K297_D0.267961.598
325_G329_R0.265251.582
145_L158_P0.263661.572
88_L91_D0.263081.569
322_L354_Q0.25891.544
129_I134_L0.253411.511
187_L258_I0.253031.509
96_P125_S0.24741.475
136_L144_G0.247061.473
8_V361_G0.245311.463
170_K301_K0.244921.460
81_D121_F0.244161.456
215_D220_V0.243511.452
348_A353_R0.242391.445
158_P302_C0.242291.445
17_K29_V0.240591.435
293_E296_L0.238991.425
233_D236_E0.238361.421
184_K224_K0.238331.421
6_P365_A0.237781.418
268_P323_I0.237441.416
148_D155_S0.236741.412
349_P356_A0.236621.411
171_R274_P0.236221.409
22_G362_S0.233671.393
184_K217_E0.233551.393
146_V317_T0.231361.380
19_G362_S0.229941.371
156_V294_L0.228171.361
151_Y177_D0.227791.358
49_G52_A0.227521.357
314_I334_L0.224351.338
81_D85_S0.224311.338
183_L260_L0.22291.329
185_E189_E0.222061.324
18_A83_I0.215111.283
147_V156_V0.213521.273
268_P272_F0.211621.262
179_L271_L0.210631.256
243_S259_I0.209921.252
62_R66_E0.20991.252
29_V355_F0.209491.249
15_T354_Q0.209231.248
9_I97_V0.209121.247
98_L361_G0.208161.241
327_K331_Q0.207981.240
147_V295_I0.207891.240
265_F320_S0.206921.234
14_S151_Y0.204551.220
117_L126_V0.204241.218
97_V117_L0.202981.210
266_R269_E0.199911.192
359_I363_I0.199631.190
231_S234_P0.198921.186
7_V18_A0.198421.183
149_I179_L0.196871.174
46_Y82_Y0.196161.170
186_L190_R0.195981.169
36_R75_A0.194711.161
141_R315_V0.19461.160
321_S326_F0.194061.157
72_D75_A0.193661.155
272_F329_R0.193261.152
316_L327_K0.191831.144
8_V358_W0.190971.139
268_P271_L0.190931.138
147_V275_S0.190271.135
9_I16_I0.188791.126
129_I364_L0.186451.112
98_L364_L0.185471.106
105_N109_Q0.185011.103
10_D13_S0.184761.102
16_I79_I0.184581.101
6_P96_P0.184221.098
12_G319_G0.184061.098
67_N178_D0.183511.094
321_S348_A0.183451.094
182_Y274_P0.183411.094
218_E221_E0.182031.085
298_S302_C0.181261.081
95_H124_P0.181111.080
32_S79_I0.18041.076
183_L186_L0.180311.075
265_F268_P0.179971.073
189_E214_S0.178671.065
316_L321_S0.178381.064
251_E254_D0.178291.063
145_L334_L0.177271.057
8_V11_N0.176831.054
179_L323_I0.176481.052
220_V223_I0.175631.047
181_E217_E0.175461.046
152_S357_A0.175261.045
269_E274_P0.174831.042
359_I362_S0.174831.042
216_D219_I0.17481.042
70_I73_W0.174471.040
245_N257_T0.173591.035
358_W362_S0.173551.035
65_I68_G0.172611.029
292_P296_L0.172211.027
131_S357_A0.170241.015
169_I293_E0.169911.013
21_A26_P0.169351.010
114_A118_F0.168971.008
187_L223_I0.16891.007
134_L361_G0.168891.007
190_R263_E0.168831.007
101_E105_N0.167971.002
143_T306_L0.167751.000
7_V94_D0.167721.000
269_E272_F0.167050.996
21_A365_A0.16670.994
23_E27_R0.166480.993
150_G176_G0.166430.992
176_G320_S0.16580.989
35_G59_L0.165690.988
169_I172_S0.16440.980
362_S366_S0.163420.974
228_C323_I0.163080.972
213_N251_E0.162610.970
100_T361_G0.160920.960
149_I321_S0.160270.956
184_K220_V0.159510.951
162_G166_P0.159390.950
292_P329_R0.159370.950
19_G359_I0.157610.940
130_P133_L0.157180.937
61_L80_W0.156980.936
28_V359_I0.15670.934
253_P258_I0.156560.934
219_I222_E0.15650.933
228_C268_P0.156490.933
47_Y51_E0.156350.932
106_P171_R0.154990.924
184_K188_K0.15470.922
299_I311_L0.154580.922
98_L134_L0.15440.921
117_L121_F0.154270.920
78_E81_D0.154150.919
84_F97_V0.153280.914
176_G224_K0.153260.914
358_W361_G0.152370.909
186_L267_I0.151340.902
183_L220_V0.151280.902
179_L320_S0.151250.902
330_L334_L0.150790.899
111_E115_E0.150760.899
114_A128_F0.149390.891
176_G180_T0.149180.890
174_I178_D0.148710.887
231_S329_R0.148260.884
274_P290_G0.148240.884
110_R114_A0.148090.883
6_P124_P0.147760.881
131_S153_S0.147550.880
26_P359_I0.147530.880
158_P168_S0.147140.877
21_A366_S0.146730.875
117_L123_V0.146720.875
139_S356_A0.14590.870
22_G27_R0.145710.869
85_S92_P0.14540.867
168_S298_S0.145050.865
114_A117_L0.14420.860
219_I223_I0.143640.856
15_T29_V0.142950.852
271_L290_G0.142950.852
182_Y185_E0.142920.852
313_N347_I0.142780.851
80_W84_F0.142590.850
302_C310_L0.142530.850
17_K358_W0.142420.849
68_G74_D0.141830.846
59_L64_P0.141420.843
101_E129_I0.141260.842
33_V61_L0.141220.842
133_L164_V0.140970.841
304_I307_R0.14070.839
64_P67_N0.140490.838
181_E184_K0.140450.837
79_I83_I0.140320.837
172_S294_L0.14020.836
272_F323_I0.139950.834
93_S122_G0.13850.826
233_D314_I0.138450.826
131_S155_S0.138380.825
39_D45_D0.137850.822
226_E233_D0.137660.821
107_R111_E0.137450.820
222_E225_E0.137330.819
272_F325_G0.13730.819
118_F121_F0.137240.818
180_T224_K0.137190.818
77_E81_D0.136980.817
104_F155_S0.136460.814
103_P132_P0.136450.814
135_A357_A0.135960.811
132_P151_Y0.135880.810
188_K220_V0.135850.810
295_I325_G0.135420.807
297_D301_K0.135340.807
265_F323_I0.135320.807
233_D332_Q0.135250.806
13_S151_Y0.134960.805
318_G360_G0.134950.805
63_S177_D0.134890.804
131_S152_S0.134880.804
36_R82_Y0.134590.803
315_V347_I0.134570.802
80_W113_L0.134560.802
152_S155_S0.13420.800
106_P109_Q0.133990.799
223_I228_C0.13370.797
270_I274_P0.133630.797
86_N91_D0.132860.792
13_S16_I0.132530.790
189_E293_E0.132370.789
30_I83_I0.131930.787
56_R61_L0.131630.785
61_L65_I0.131520.784
64_P68_G0.13060.779
224_K228_C0.130520.778
186_L189_E0.130490.778
291_L333_E0.130380.777
254_D258_I0.130270.777
90_V291_L0.130120.776
317_T356_A0.129110.770
296_L333_E0.128970.769
68_G71_V0.128710.767
101_E130_P0.128270.765
82_Y86_N0.12740.760
10_D17_K0.127320.759
187_L262_K0.127180.758
97_V123_V0.126620.755
297_D300_S0.126520.754
262_K266_R0.125720.750
37_P40_K0.125710.750
224_K320_S0.125680.749
33_V59_L0.125590.749
296_L300_S0.125090.746
85_S90_V0.125050.746
157_V164_V0.124870.745
133_L159_V0.124670.743
34_V79_I0.124650.743
291_L334_L0.124570.743
145_L330_L0.12430.741
46_Y78_E0.124070.740
156_V169_I0.123870.739
247_E251_E0.123160.734
299_I302_C0.123060.734
247_E259_I0.122910.733
187_L215_D0.122470.730
55_P74_D0.12220.729
251_E257_T0.122130.728
37_P45_D0.121960.727
174_I290_G0.121530.725
64_P291_L0.121510.725
89_K123_V0.121470.724
290_G294_L0.121420.724
64_P70_I0.12140.724
101_E128_F0.121290.723
313_N356_A0.121120.722
111_E157_V0.121080.722
90_V93_S0.121040.722
290_G293_E0.120910.721
8_V98_L0.120820.720
145_L295_I0.120750.720
11_N76_L0.120720.720
88_L92_P0.120650.719
312_S315_V0.120590.719
58_N61_L0.120460.718
19_G26_P0.120430.718
115_E120_K0.120370.718
229_Y232_E0.120310.717
36_R58_N0.120070.716
156_V298_S0.11930.711
273_N276_L0.119290.711
131_S151_Y0.11920.711
357_A360_G0.119120.710
180_T320_S0.119030.710
181_E220_V0.118820.708
182_Y268_P0.118690.708
347_I356_A0.118590.707
12_G150_G0.118570.707
64_P69_V0.118560.707
76_L80_W0.118430.706
331_Q335_R0.118360.706
264_R267_I0.117860.703
234_P262_K0.117770.702
57_S60_E0.117510.701
311_L334_L0.117380.700
51_E86_N0.117310.699
31_P34_V0.117250.699
269_E329_R0.117190.699
231_S332_Q0.117180.699
228_C231_S0.116890.697
187_L313_N0.116870.697
146_V315_V0.116770.696
73_W115_E0.11670.696
132_P155_S0.116680.696
272_F333_E0.116630.695
158_P306_L0.11660.695
265_F272_F0.11640.694
172_S175_G0.115970.691
93_S161_D0.115920.691
179_L268_P0.115920.691
230_V275_S0.115860.691
314_I330_L0.115850.691
180_T184_K0.115710.690
98_L365_A0.115460.688
112_K115_E0.115360.688
163_Y166_P0.115120.686
27_R215_D0.114550.683
146_V159_V0.114360.682
109_Q173_P0.114350.682
80_W83_I0.114330.682
77_E90_V0.114220.681
73_W78_E0.114190.681
267_I270_I0.114170.681
35_G47_Y0.11410.680
231_S236_E0.114080.680
13_S131_S0.114010.680
308_K333_E0.11390.679
48_V52_A0.113820.679
75_A78_E0.113810.679
20_F23_E0.113630.678
220_V228_C0.113570.677
291_L295_I0.11340.676
152_S178_D0.113270.675
262_K265_F0.113070.674
24_D141_R0.112820.673
260_L265_F0.112470.671
58_N62_R0.112330.670
131_S135_A0.11180.667
9_I18_A0.111660.666
147_V291_L0.111520.665
268_P274_P0.111490.665
248_K264_R0.111330.664
267_I271_L0.111280.664
132_P135_A0.110850.661
152_S319_G0.110810.661
127_Y364_L0.11070.660
295_I298_S0.11070.660
268_P329_R0.110680.660
251_E255_G0.110670.660
8_V21_A0.11060.659
163_Y364_L0.110550.659
151_Y221_E0.110460.659
253_P256_Q0.110440.659
101_E113_L0.110420.658
305_D310_L0.110270.658
77_E80_W0.110190.657
321_S353_R0.110180.657
190_R259_I0.110070.656
188_K212_N0.109920.655
145_L291_L0.109890.655
290_G297_D0.109870.655
6_P21_A0.109510.653
61_L67_N0.109370.652
64_P173_P0.109360.652
55_P61_L0.109340.652
14_S153_S0.109260.651
179_L274_P0.109130.651
164_V363_I0.108940.650
132_P152_S0.108850.649
252_L256_Q0.108770.649
144_G315_V0.108590.647
102_P148_D0.108510.647
14_S152_S0.108410.646
247_E261_G0.108190.645
61_L83_I0.10810.645
11_N14_S0.107940.644
267_I276_L0.10780.643
258_I269_E0.107760.643
304_I308_K0.107710.642
83_I86_N0.107610.642
6_P16_I0.107580.641
269_E273_N0.107530.641
145_L184_K0.107340.640
155_S171_R0.107270.640
147_V316_L0.107110.639
187_L227_C0.1070.638
132_P136_L0.10690.637
115_E118_F0.106870.637
36_R40_K0.106780.637
109_Q138_A0.106780.637
149_I175_G0.106590.636
7_V88_L0.10640.634
182_Y186_L0.106350.634
68_G72_D0.106230.633
272_F290_G0.106220.633
7_V97_V0.10620.633
190_R258_I0.106190.633
122_G135_A0.106120.633
173_P177_D0.106070.632
103_P152_S0.105540.629
216_D223_I0.105310.628
73_W77_E0.105250.628
156_V295_I0.105190.627
276_L292_P0.105020.626
315_V350_P0.104990.626
224_K227_C0.104960.626
332_Q336_S0.104710.624
269_E325_G0.104610.624
220_V224_K0.104570.624
9_I12_G0.104520.623
264_R270_I0.104520.623
110_R128_F0.104450.623
363_I366_S0.103980.620
252_L255_G0.103630.618
127_Y130_P0.103490.617
102_P105_N0.103270.616
103_P155_S0.103250.616
74_D181_E0.103240.616
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
3qb0A0.98471000.082
3dwlA0.93131000.103
2fxuA0.93641000.125
1k8kB0.93381000.142
4fo0A0.94911000.163
1k8kA0.93381000.168
4i6mB0.91351000.219
4i6mA0.99241000.222
4am6A0.94661000.284
1jceA0.8271000.48

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