GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Bac_luciferase - Luciferase-like monooxygenase
Pfam: PF00296 (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: 307
Sequences: 5715
Seq/Len: 18.62
HH_delta: 0.156 (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
235_D292_Q1.264774.885
30_Q66_R0.919933.553
33_E69_R0.765982.959
235_D289_T0.741292.863
130_E185_R0.727562.810
289_T292_Q0.708672.737
148_E153_S0.697082.692
127_A150_K0.649962.510
234_D237_E0.646892.499
71_R103_I0.638242.465
204_I223_V0.622522.404
205_D209_E0.616092.380
134_E186_H0.607942.348
60_L72_L0.606252.342
31_L34_E0.603332.330
184_A210_A0.564032.179
64_A98_S0.561882.170
30_Q34_E0.549882.124
2_K38_D0.548682.119
296_R299_E0.5412.090
64_A72_L0.539552.084
95_D100_G0.524732.027
40_V70_I0.521912.016
91_I102_F0.521372.014
41_W73_G0.514411.987
232_A237_E0.512121.978
291_E295_D0.504751.950
29_A40_V0.500131.932
34_E68_K0.4991.927
91_I104_L0.495891.915
26_V30_Q0.492961.904
298_R302_A0.491791.900
298_R301_E0.48921.890
201_K205_D0.474771.834
134_E147_F0.472721.826
29_A63_L0.46511.796
174_A190_L0.464011.792
31_L35_L0.455931.761
27_E30_Q0.452081.746
225_V305_V0.446271.724
181_R210_A0.444761.718
138_R145_V0.443361.712
206_A210_A0.438431.693
127_A151_F0.437941.692
137_R170_I0.437571.690
292_Q295_D0.437191.689
286_L293_V0.432351.670
235_D239_R0.427961.653
204_I208_R0.425871.645
33_E67_T0.424961.641
33_E68_K0.423941.637
146_S156_G0.423861.637
26_V66_R0.421091.626
42_V60_L0.419961.622
236_E240_A0.419831.622
121_P124_E0.413161.596
231_V293_V0.410411.585
138_R142_G0.409911.583
209_E213_E0.408761.579
131_E149_G0.406951.572
294_A298_R0.400211.546
202_E205_D0.384271.484
63_L72_L0.382951.479
26_V62_A0.382231.476
29_A67_T0.380321.469
23_D99_G0.380311.469
211_A221_P0.379721.467
232_A238_A0.376021.452
171_W224_A0.374391.446
181_R185_R0.3741.445
124_E150_K0.373711.443
231_V290_P0.372551.439
299_E302_A0.36931.426
5_I32_A0.365911.413
222_R306_D0.365811.413
76_V173_A0.365191.411
237_E241_R0.364371.407
95_D165_Q0.363221.403
295_D299_E0.361161.395
288_G293_V0.35881.386
55_D90_Q0.352311.361
133_L186_H0.350231.353
237_E240_A0.349881.351
62_A65_A0.347751.343
137_R188_D0.329931.274
62_A97_L0.326941.263
201_K302_A0.32611.260
4_G39_S0.324591.254
57_F77_T0.32011.236
181_R213_E0.319051.232
130_E134_E0.312761.208
138_R143_E0.312141.206
206_A209_E0.309921.197
42_V63_L0.308491.192
23_D27_E0.306711.185
210_A213_E0.304751.177
130_E186_H0.303151.171
134_E138_R0.302341.168
146_S155_P0.302111.167
292_Q296_R0.302021.167
181_R206_A0.301931.166
178_K181_R0.300841.162
86_R90_Q0.299381.156
184_A214_A0.295431.141
180_L206_A0.293811.135
99_G164_P0.293331.133
148_E155_P0.292521.130
270_E273_A0.291431.126
180_L184_A0.290991.124
42_V59_L0.289631.119
62_A66_R0.289361.118
112_P116_R0.28771.111
64_A102_F0.287691.111
106_I133_L0.284861.100
144_P156_G0.281121.086
54_P93_T0.279781.081
137_R186_H0.279521.080
230_V241_R0.279491.080
295_D298_R0.279131.078
38_D69_R0.273661.057
211_A216_R0.27271.053
41_W75_A0.272471.052
286_L296_R0.27171.049
58_V61_A0.268791.038
67_T101_R0.268091.036
172_V179_S0.26641.029
180_L207_Y0.266261.028
240_A243_R0.264731.023
268_Q271_E0.264181.020
183_A190_L0.261281.009
79_L87_L0.259141.001
199_A202_E0.258811.000
44_E82_R0.255470.987
57_F90_Q0.253910.981
139_L145_V0.253010.977
208_R223_V0.252310.975
104_L136_I0.250130.966
172_V187_G0.250090.966
60_L94_L0.249980.966
29_A70_I0.249240.963
87_L132_Y0.249210.963
191_I224_A0.248940.962
300_Y303_A0.248930.961
232_A241_R0.246960.954
60_L74_T0.245340.948
27_E31_L0.245330.948
58_V94_L0.243950.942
239_R282_D0.243510.941
116_R155_P0.242910.938
232_A235_D0.240430.929
135_V147_F0.240420.929
233_E237_E0.240280.928
140_W168_P0.239870.927
135_V138_R0.239130.924
96_Q164_P0.237830.919
110_S114_E0.237740.918
55_D58_V0.237340.917
180_L190_L0.235370.909
34_E69_R0.234690.906
24_E27_E0.23450.906
182_L186_H0.234390.905
22_L97_L0.234320.905
185_R214_A0.233680.903
124_E151_F0.233530.902
130_E182_L0.233460.902
136_I140_W0.233210.901
95_D98_S0.232370.898
30_Q68_K0.2310.892
46_H89_E0.229910.888
216_R220_R0.229640.887
98_S102_F0.228540.883
135_V154_V0.226470.875
76_V107_G0.224690.868
131_E151_F0.224240.866
73_G103_I0.223420.863
45_H114_E0.223260.862
60_L102_F0.222880.861
131_E135_V0.222390.859
141_R166_G0.22220.858
74_T102_F0.22170.856
95_D99_G0.221360.855
59_L93_T0.22080.853
185_R213_E0.220030.850
171_W189_G0.218990.846
96_Q165_Q0.218660.845
79_L132_Y0.218570.844
291_E294_A0.217540.840
133_L172_V0.217180.839
181_R209_E0.216720.837
202_E206_A0.215990.834
108_R129_M0.214130.827
94_L102_F0.212910.822
184_A211_A0.212560.821
9_P25_L0.212120.819
7_L40_V0.211720.818
172_V183_A0.209960.811
71_R165_Q0.209410.809
74_T105_G0.208570.806
210_A214_A0.208250.804
65_A98_S0.208220.804
223_V306_D0.206890.799
81_L114_E0.205470.794
87_L136_I0.205020.792
180_L210_A0.204910.791
60_L64_A0.20480.791
64_A97_L0.20460.790
234_D238_A0.204330.789
129_M179_S0.204020.788
142_G162_R0.203520.786
4_G38_D0.203360.785
108_R125_R0.202860.784
242_A287_V0.20280.783
67_T70_I0.202070.780
30_Q33_E0.201640.779
129_M172_V0.201140.777
61_A65_A0.200950.776
216_R221_P0.200790.776
241_R244_R0.200570.775
73_G105_G0.199650.771
127_A178_K0.198410.766
177_P206_A0.197340.762
233_E290_P0.19670.760
138_R147_F0.196650.760
175_G203_L0.196350.758
201_K303_A0.19610.757
211_A220_R0.195350.755
23_D26_V0.195290.754
57_F91_I0.194770.752
82_R90_Q0.193740.748
208_R212_A0.192910.745
84_P135_V0.192540.744
128_R131_E0.191180.738
126_Y178_K0.190950.738
271_E274_D0.190130.734
103_I171_W0.189880.733
128_R132_Y0.18860.728
85_V139_L0.18770.725
39_S73_G0.187630.725
197_P303_A0.187290.723
131_E150_K0.186210.719
120_I128_R0.18590.718
196_P199_A0.185460.716
26_V63_L0.185410.716
92_A140_W0.18380.710
78_P81_L0.183640.709
54_P96_Q0.183260.708
111_S114_E0.182130.703
55_D93_T0.181970.703
27_E34_E0.181940.703
95_D164_P0.18190.703
128_R151_F0.181420.701
181_R214_A0.179560.694
8_P43_S0.17850.689
45_H109_G0.177240.685
113_D156_G0.176440.682
132_Y136_I0.175420.678
147_F150_K0.175140.676
143_E158_T0.174190.673
64_A94_L0.173920.672
207_Y221_P0.172910.668
92_A163_P0.172220.665
165_Q169_P0.171920.664
124_E128_R0.17170.663
269_W273_A0.170890.660
198_E201_K0.170720.659
95_D163_P0.169830.656
274_D279_E0.169560.655
208_R306_D0.16910.653
7_L25_L0.168650.651
83_H86_R0.168450.651
240_A244_R0.168290.650
229_V293_V0.167320.646
41_W105_G0.16550.639
26_V65_A0.165110.638
57_F86_R0.16490.637
125_R174_A0.164880.637
202_E209_E0.164870.637
232_A287_V0.164870.637
170_I187_G0.164030.634
71_R169_P0.163720.632
301_E304_G0.163010.630
84_P132_Y0.162890.629
192_L203_L0.162490.628
75_A191_I0.162160.626
130_E178_K0.161930.625
126_Y179_S0.161790.625
61_A98_S0.161010.622
100_G163_P0.159740.617
2_K222_R0.159650.617
275_A278_D0.159630.617
177_P181_R0.159580.616
114_E125_R0.159370.616
56_P74_T0.159230.615
211_A214_A0.159030.614
109_G114_E0.158460.612
170_I216_R0.158410.612
47_F111_S0.158230.611
33_E101_R0.157990.610
124_E127_A0.15750.608
204_I305_V0.157450.608
158_T163_P0.157310.608
293_V296_R0.157230.607
137_R141_R0.15710.607
140_W170_I0.156140.603
75_A224_A0.155640.601
25_L28_L0.155210.600
133_L137_R0.154920.598
197_P201_K0.154670.597
26_V68_K0.15380.594
79_L108_R0.15360.593
131_E134_E0.153420.593
146_S157_P0.153070.591
72_L98_S0.153060.591
83_H118_F0.152970.591
148_E151_F0.152770.590
113_D116_R0.152690.590
235_D295_D0.151810.586
57_F87_L0.151770.586
228_P285_A0.151730.586
144_P158_T0.151690.586
207_Y211_A0.151420.585
104_L170_I0.151340.585
235_D291_E0.150960.583
94_L98_S0.150420.581
190_L207_Y0.150370.581
55_D82_R0.149710.578
56_P82_R0.149660.578
126_Y176_G0.149480.577
24_E28_L0.14940.577
209_E295_D0.149390.577
243_R278_D0.149270.577
192_L223_V0.149220.576
196_P200_L0.149190.576
89_E161_P0.148240.573
134_E185_R0.148010.572
139_L159_L0.14790.571
171_W222_R0.147220.569
135_V145_V0.146970.568
67_T98_S0.146140.564
198_E283_R0.145860.563
223_V305_V0.14570.563
209_E212_A0.145670.563
236_E239_R0.145360.561
77_T87_L0.145030.560
23_D68_K0.144910.560
61_A64_A0.144910.560
174_A179_S0.144360.558
84_P136_I0.14420.557
144_P149_G0.144030.556
286_L289_T0.143360.554
25_L63_L0.143290.553
175_G193_S0.1430.552
66_R72_L0.142050.549
278_D281_V0.14170.547
58_V65_A0.140990.545
208_R220_R0.140940.544
73_G191_I0.140940.544
180_L203_L0.140850.544
205_D208_R0.14080.544
201_K299_E0.140790.544
61_A94_L0.14070.543
185_R212_A0.140510.543
22_L62_A0.140390.542
27_E35_L0.140270.542
142_G166_G0.140170.541
154_V157_P0.139940.541
138_R141_R0.139930.540
80_P90_Q0.139880.540
122_P125_R0.139570.539
177_P210_A0.139490.539
88_A163_P0.139220.538
151_F154_V0.138880.536
25_L42_V0.138410.535
146_S153_S0.138320.534
233_E238_A0.138310.534
131_E147_F0.138210.534
269_W274_D0.137750.532
150_K153_S0.137630.532
108_R179_S0.137150.530
106_I172_V0.135820.525
75_A193_S0.135770.524
279_E283_R0.135760.524
122_P126_Y0.135470.523
109_G115_F0.13520.522
106_I228_P0.135020.522
236_E291_E0.135020.522
168_P269_W0.134460.519
39_S103_I0.134220.518
271_E275_A0.133940.517
59_L97_L0.133310.515
194_A228_P0.13330.515
23_D65_A0.133040.514
82_R87_L0.132870.513
62_A98_S0.13280.513
158_T162_R0.132790.513
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
1lucB0.94791000.156
1lucA0.99671000.156
2wgkA0.99021000.171
2i7gA0.96741000.171
1z69A0.94461000.177
1ezwA0.94791000.191
3raoA0.98371000.193
1f07A0.92831000.193
3c8nA0.95111000.197
1rhcA0.95441000.2

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