GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FAD_binding_2 - FAD binding domain
Pfam: PF00890 (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: CL0063
Length: 417
Sequences: 4867
Seq/Len: 11.67
HH_delta: 0.215 (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
379_D383_Q1.295916.123
3_V177_V0.879294.155
164_V232_M0.708343.347
233_A376_L0.683713.231
83_R87_E0.676913.198
14_A196_I0.657613.107
26_L159_R0.605612.862
166_D178_V0.572782.706
279_N283_E0.558052.637
150_A153_E0.549872.598
9_L38_S0.549172.595
62_P87_E0.541482.559
284_R288_E0.531932.513
166_D235_R0.530642.507
66_F83_R0.530052.505
28_V179_A0.521372.464
197_L233_A0.510742.413
30_K228_D0.510112.410
233_A238_A0.502062.372
24_K157_D0.500112.363
77_N82_V0.499772.361
199_T229_G0.488132.306
80_D380_E0.483182.283
159_R190_I0.480712.271
327_A331_E0.480072.268
239_A377_K0.477652.257
14_A398_A0.477122.254
30_K226_T0.475822.248
10_A398_A0.46512.198
179_A190_I0.459842.173
384_V397_A0.456662.158
88_N91_E0.447912.116
323_P327_A0.433682.049
1_D193_K0.422621.997
2_V18_A0.421531.992
2_V196_I0.417911.975
85_F406_V0.408931.932
5_I177_V0.407861.927
151_A156_V0.405351.915
397_A401_A0.398631.884
94_D98_E0.397171.877
322_D325_G0.394651.865
197_L401_A0.392411.854
254_S368_G0.388421.835
165_T180_E0.386021.824
26_L190_I0.377771.785
376_L384_V0.377361.783
46_D414_G0.375771.776
18_A23_A0.372381.760
173_R394_G0.371561.756
151_A158_I0.369941.748
198_A398_A0.364241.721
19_A156_V0.363051.715
299_I313_V0.361821.710
332_R336_E0.360961.706
1_D24_K0.359591.699
202_F372_T0.35851.694
79_P83_R0.357431.689
159_R162_T0.355821.681
66_F70_M0.349491.651
149_K153_E0.344311.627
5_I197_L0.342671.619
162_T179_A0.341841.615
3_V26_L0.338051.597
63_E67_Q0.336261.589
279_N303_E0.335591.586
178_V189_R0.334271.579
2_V23_A0.3311.564
4_V25_V0.330831.563
197_L376_L0.327681.548
376_L401_A0.320461.514
192_A195_V0.318261.504
142_A145_E0.317751.501
197_L395_L0.314741.487
3_V190_I0.312441.476
335_E339_A0.311321.471
38_S144_I0.306921.450
64_E121_P0.305391.443
173_R393_P0.30321.433
3_V28_V0.302811.431
91_E94_D0.301711.426
276_I284_R0.301361.424
170_E175_T0.299471.415
62_P66_F0.299451.415
15_A27_L0.29941.415
167_L174_V0.295241.395
28_V177_V0.294021.389
278_V318_D0.293741.388
199_T401_A0.293341.386
63_E83_R0.291731.378
31_G224_G0.289351.367
12_L27_L0.288281.362
178_V187_F0.288121.361
240_L245_M0.287641.359
81_L378_V0.287461.358
66_F86_V0.287431.358
17_E20_E0.286751.355
15_A156_V0.28591.351
20_E99_L0.285171.347
165_T178_V0.284361.344
7_G27_L0.283591.340
170_E173_R0.282641.336
172_G393_P0.282291.334
371_Y416_G0.281491.330
84_A88_N0.280941.327
27_L158_I0.28091.327
70_M79_P0.280421.325
328_A332_R0.280031.323
48_A62_P0.279031.318
229_G232_M0.277311.310
196_I398_A0.273911.294
164_V177_V0.273091.290
148_A152_E0.2731.290
302_R306_E0.272811.289
179_A188_V0.272261.286
5_I164_V0.272251.286
278_V316_I0.271351.282
20_E154_A0.270581.279
16_I151_A0.269741.275
174_V195_V0.269121.272
283_E325_G0.268171.267
324_E328_A0.267091.262
81_L380_E0.266631.260
168_I189_R0.26551.255
168_I178_V0.265191.253
51_P94_D0.263721.246
150_A154_A0.262941.242
66_F79_P0.262131.239
378_V402_A0.25971.227
16_I154_A0.258321.221
73_G77_N0.257771.218
378_V397_A0.257051.215
13_A95_W0.256941.214
321_I325_G0.256461.212
62_P86_V0.255641.208
169_T174_V0.255081.205
17_E21_A0.254491.202
239_A391_P0.254071.201
12_L151_A0.25391.200
334_N338_E0.252811.195
331_E335_E0.251291.187
321_I326_L0.250991.186
241_S377_K0.247271.168
378_V382_A0.246861.166
175_T191_K0.246761.166
32_P161_N0.245621.161
165_T187_F0.243841.152
163_R180_E0.243771.152
92_A95_W0.240661.137
19_A154_A0.24051.136
4_V15_A0.239151.130
230_I240_L0.237231.121
278_V326_L0.236631.118
318_D355_P0.234731.109
90_P94_D0.233961.105
2_V194_A0.232731.100
28_V164_V0.23231.098
300_L305_R0.231261.093
234_L240_L0.229151.083
78_D377_K0.227261.074
64_E67_Q0.22711.073
327_A334_N0.222351.051
101_V146_A0.221811.048
67_Q71_A0.221721.048
48_A86_V0.220071.040
99_L150_A0.219741.038
326_L334_N0.219691.038
232_M235_R0.218281.031
162_T188_V0.21781.029
45_F93_I0.217321.027
28_V162_T0.217191.026
81_L85_F0.216821.025
279_N306_E0.215651.019
167_L195_V0.215131.017
28_V190_I0.214651.014
37_S222_P0.214051.011
276_I330_V0.213231.008
285_F288_E0.212751.005
168_I176_G0.212711.005
61_S64_E0.211941.001
176_G195_V0.210660.995
94_D97_E0.208040.983
277_W365_V0.207840.982
46_D119_H0.205750.972
30_K163_R0.205630.972
325_G328_A0.205110.969
336_E339_A0.204110.964
230_I372_T0.203390.961
168_I175_T0.203250.960
101_V143_L0.202190.955
332_R335_E0.201240.951
145_E149_K0.200590.948
183_A186_E0.199980.945
24_K193_K0.19980.944
28_V159_R0.199420.942
35_G40_F0.198850.940
125_S414_G0.198760.939
169_T175_T0.197860.935
141_K145_E0.197440.933
170_E191_K0.196510.929
84_A380_E0.195990.926
194_A394_G0.195960.926
13_A92_A0.195460.924
168_I191_K0.194870.921
69_I415_N0.194870.921
334_N352_L0.194790.920
20_E95_W0.194620.920
82_V86_V0.194210.918
65_F415_N0.194030.917
119_H414_G0.19380.916
14_A18_A0.193760.916
323_P352_L0.19270.911
101_V142_A0.191870.907
152_E160_F0.19090.902
220_T254_S0.190820.902
285_F299_I0.190320.899
238_A392_I0.188010.888
180_E187_F0.187480.886
166_D236_A0.186730.882
279_N285_F0.18650.881
16_I150_A0.186050.879
194_A396_Y0.185680.877
41_S417_L0.185170.875
70_M77_N0.18480.873
13_A17_E0.1840.869
7_G29_E0.183540.867
95_W99_L0.183090.865
286_M298_A0.182850.864
335_E338_E0.182440.862
323_P326_L0.182410.862
8_G11_G0.181340.857
159_R183_A0.181330.857
383_Q393_P0.181240.856
19_A155_G0.181150.856
202_F248_I0.180870.855
66_F82_V0.180390.852
65_F69_I0.179990.850
65_F86_V0.179690.849
232_M236_A0.179140.846
238_A384_V0.179110.846
290_A294_D0.179040.846
16_I99_L0.178480.843
4_V196_I0.178470.843
1_D23_A0.178260.842
163_R228_D0.178080.841
327_A352_L0.177860.840
169_T236_A0.176160.832
34_L160_F0.176060.832
142_A146_A0.174660.825
70_M75_G0.174460.824
231_A234_L0.173540.820
12_L144_I0.173090.818
203_G369_I0.173010.817
62_P90_P0.172970.817
22_G25_V0.172880.817
280_A308_R0.172850.817
47_A93_I0.172740.816
69_I82_V0.171390.810
65_F89_S0.17130.809
405_G410_Y0.170930.808
5_I199_T0.170390.805
50_T126_P0.170040.803
228_D231_A0.169340.800
175_T178_V0.168970.798
278_V355_P0.168710.797
370_H411_R0.168690.797
70_M82_V0.168270.795
164_V229_G0.167520.792
49_G126_P0.166920.789
340_G349_I0.166540.787
17_E95_W0.166380.786
19_A24_K0.16620.785
166_D232_M0.166040.785
26_L157_D0.164820.779
245_M374_G0.164140.776
7_G34_L0.163950.775
303_E308_R0.163770.774
3_V195_V0.163590.773
164_V179_A0.163250.771
313_V365_V0.162890.770
4_V14_A0.162710.769
7_G12_L0.162450.768
231_A235_R0.162280.767
201_G372_T0.161360.762
29_E160_F0.160830.760
330_V334_N0.160740.760
177_V190_I0.160710.759
407_H411_R0.160240.757
229_G401_A0.160170.757
41_S44_G0.158930.751
240_L376_L0.158450.749
275_G317_F0.158120.747
279_N302_R0.1580.747
400_E416_G0.15680.741
114_T273_P0.156770.741
220_T370_H0.156410.739
349_I354_R0.156350.739
407_H410_Y0.155870.737
34_L148_A0.155690.736
45_F103_F0.155370.734
384_V391_P0.155120.733
172_G175_T0.155120.733
88_N92_A0.155020.732
37_S225_N0.154910.732
162_T190_I0.154830.732
268_E272_G0.154770.731
81_L404_G0.154650.731
338_E353_K0.15440.730
9_L147_L0.153410.725
229_G233_A0.153370.725
278_V314_Y0.152820.722
328_A331_E0.152620.721
71_A75_G0.151430.716
167_L177_V0.150590.712
338_E352_L0.150070.709
46_D125_S0.149790.708
20_E98_E0.149460.706
64_E120_S0.149010.704
167_L197_L0.148870.703
116_F414_G0.148830.703
19_A157_D0.148660.702
292_Y412_G0.148470.702
45_F417_L0.148010.699
276_I288_E0.147960.699
50_T59_E0.147770.698
290_A295_V0.147260.696
1_D26_L0.146060.690
16_I19_A0.146020.690
370_H400_E0.145980.690
63_E66_F0.145530.688
299_I365_V0.144870.685
230_I245_M0.144340.682
397_A402_A0.144170.681
81_L406_V0.142670.674
76_L409_A0.142490.673
81_L84_A0.142470.673
48_A89_S0.142410.673
63_E87_E0.142050.671
292_Y370_H0.141730.670
195_V394_G0.141670.669
291_S294_D0.141020.666
148_A158_I0.140750.665
3_V192_A0.140720.665
6_G11_G0.140650.665
159_R188_V0.140580.664
405_G411_R0.140420.664
229_G236_A0.140250.663
44_G253_P0.140210.663
20_E150_A0.14010.662
337_C340_G0.139980.661
40_F222_P0.139770.660
19_A25_V0.138980.657
278_V329_T0.138960.657
169_T172_G0.138940.657
73_G82_V0.138550.655
284_R287_N0.13850.654
242_N246_E0.137840.651
337_C349_I0.13730.649
270_L275_G0.136450.645
326_L329_T0.136440.645
317_F326_L0.136370.644
119_H125_S0.136220.644
97_E111_F0.135930.642
324_E327_A0.135640.641
238_A395_L0.135620.641
169_T393_P0.135510.640
126_P143_L0.135470.640
408_G411_R0.135360.640
316_I326_L0.135240.639
29_E35_G0.135220.639
74_G291_S0.135030.638
31_G225_N0.134940.638
166_D169_T0.134330.635
67_Q70_M0.134230.634
278_V284_R0.13420.634
175_T195_V0.133880.633
400_E407_H0.133880.633
241_S404_G0.133650.632
286_M290_A0.133170.629
115_P119_H0.132960.628
4_V11_G0.132880.628
125_S413_G0.132670.627
4_V18_A0.132610.627
4_V27_L0.131530.621
16_I156_V0.131480.621
176_G395_L0.131310.620
45_F143_L0.131190.620
276_I287_N0.130910.619
97_E126_P0.130790.618
285_F313_V0.130640.617
104_R127_P0.130560.617
95_W98_E0.130470.616
251_G268_E0.130150.615
329_T332_R0.130040.614
265_L268_E0.129570.612
341_V349_I0.12950.612
228_D232_M0.129330.611
50_T90_P0.129220.611
292_Y411_R0.129110.610
13_A99_L0.129080.610
39_A145_E0.129020.610
351_P354_R0.128960.609
249_Q292_Y0.128850.609
60_D65_F0.12880.609
96_L147_L0.128290.606
144_I148_A0.128180.606
280_A312_Y0.128130.605
116_F413_G0.128110.605
204_G223_P0.128060.605
407_H412_G0.127920.604
233_A236_A0.127690.603
1_D192_A0.127590.603
292_Y410_Y0.127540.603
317_F321_I0.12720.601
371_Y411_R0.126830.599
102_P142_A0.126590.598
27_L151_A0.126390.597
370_H410_Y0.126120.596
406_V410_Y0.126010.595
276_I319_G0.125980.595
408_G412_G0.125790.594
249_Q371_Y0.125790.594
161_N183_A0.125680.594
268_E271_P0.125580.593
271_P289_D0.124720.589
67_Q79_P0.124540.588
167_L232_M0.124320.587
11_G198_A0.124170.587
68_D71_A0.123790.585
271_P274_G0.12290.581
197_L229_G0.122450.579
38_S41_S0.122380.578
167_L233_A0.122360.578
39_A141_K0.122020.577
46_D85_F0.121460.574
277_W374_G0.120820.571
303_E306_E0.12080.571
7_G144_I0.120660.570
159_R179_A0.120660.570
4_V23_A0.120650.570
29_E36_G0.120080.567
167_L236_A0.119750.566
116_F119_H0.11960.565
180_E184_D0.11950.565
180_E185_G0.119480.565
406_V411_R0.11940.564
336_E340_G0.119320.564
203_G225_N0.119240.563
249_Q370_H0.119080.563
72_A410_Y0.119030.562
373_M413_G0.118950.562
281_D307_P0.118540.560
19_A22_G0.118530.560
195_V395_L0.11850.560
17_E50_T0.118170.558
80_D84_A0.118030.558
218_M366_T0.116870.552
171_D175_T0.11670.551
112_A127_P0.116640.551
149_K152_E0.116490.550
238_A391_P0.116490.550
253_P268_E0.116120.549
7_G36_G0.116070.548
152_E158_I0.116060.548
338_E354_R0.115930.548
29_E224_G0.115710.547
48_A65_F0.11570.547
12_L148_A0.11560.546
15_A18_A0.115560.546
117_G140_G0.115450.546
325_G329_T0.115350.545
65_F90_P0.115290.545
265_L272_G0.114820.543
5_I167_L0.114660.542
46_D86_V0.11460.542
186_E193_K0.114520.541
286_M294_D0.114510.541
201_G400_E0.114270.540
3_V191_K0.114010.539
277_W295_V0.113990.539
400_E408_G0.113910.538
76_L246_E0.11390.538
23_A194_A0.113810.538
165_T179_A0.113680.537
66_F75_G0.113630.537
6_G10_A0.113550.537
7_G160_F0.113210.535
277_W286_M0.113120.535
122_R273_P0.113060.534
383_Q391_P0.112980.534
236_A392_I0.112870.533
44_G251_G0.112450.531
300_L366_T0.112220.530
146_A149_K0.112080.530
174_V392_I0.112070.530
47_A126_P0.112060.529
2_V22_G0.112050.529
169_T173_R0.1120.529
18_A194_A0.111980.529
81_L241_S0.111970.529
400_E411_R0.111890.529
49_G62_P0.111560.527
293_D297_Q0.111420.526
227_G230_I0.111380.526
3_V175_T0.11110.525
97_E105_R0.111070.525
373_M411_R0.110620.523
155_G261_P0.110360.521
174_V395_L0.110290.521
249_Q252_P0.110180.521
286_M295_V0.109920.519
249_Q373_M0.109840.519
14_A25_V0.109450.517
334_N351_P0.109330.517
20_E155_G0.109260.516
151_A155_G0.109240.516
72_A413_G0.109220.516
176_G192_A0.109120.516
46_D65_F0.108940.515
202_F230_I0.108720.514
1_D6_G0.108480.513
2_V195_V0.108320.512
93_I97_E0.107990.510
251_G265_L0.107950.510
18_A25_V0.107710.509
175_T189_R0.107560.508
103_F139_G0.107410.508
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
4at0A0.941000.215
1y0pA0.93291000.219
1qo8A0.93291000.221
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