GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Molybdopterin - Molybdopterin oxidoreductase
Pfam: PF00384 (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: 432
Sequences: 5918
Seq/Len: 13.7
HH_delta: 0.059 (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
4_Y19_R1.305955.543
27_D432_R0.98224.169
420_R428_E0.885843.760
183_E229_R0.756653.212
32_K35_E0.752443.194
371_V383_A0.720413.058
411_P414_E0.717693.046
175_A213_A0.711093.018
188_K192_E0.710533.016
21_S24_E0.699362.969
178_H182_D0.676732.873
214_A221_A0.669042.840
28_E385_I0.660412.803
424_E428_E0.647582.749
179_V183_E0.635042.696
29_I385_I0.615072.611
118_W173_A0.60422.565
113_D236_P0.598942.542
35_E39_K0.591452.511
143_K230_E0.584652.482
146_V158_A0.579822.461
177_A201_T0.577242.450
160_E226_E0.572712.431
20_I385_I0.569992.419
26_L432_R0.565522.400
26_L428_E0.555572.358
221_A225_R0.555132.356
223_K226_E0.545572.316
7_K28_E0.544632.312
177_A265_L0.540112.293
7_K385_I0.538062.284
114_V230_E0.531742.257
172_L217_C0.530432.252
220_P223_K0.528872.245
7_K20_I0.524832.228
4_Y418_E0.52242.217
36_I44_S0.518122.199
33_L341_A0.517012.195
184_G188_K0.506452.150
340_K367_D0.499492.120
189_E193_K0.498312.115
186_Y191_I0.492652.091
162_I227_L0.488012.071
114_V145_V0.475962.020
211_E221_A0.473922.012
343_F372_I0.47091.999
416_P419_A0.470351.997
112_A115_I0.469151.991
29_I370_V0.468761.990
271_K274_G0.462981.965
366_L369_V0.461741.960
111_N272_P0.460081.953
160_E223_K0.458591.947
226_E230_E0.455611.934
28_E32_K0.454631.930
428_E432_R0.449731.909
209_T212_D0.445211.890
116_L147_V0.4371.855
162_I219_V0.425351.806
213_A224_I0.424681.803
172_L224_I0.424531.802
231_Y266_T0.413961.757
160_E230_E0.411761.748
7_K18_V0.411451.747
27_D31_E0.409921.740
181_I198_F0.409591.739
147_V172_L0.404291.716
376_M380_A0.402021.706
6_L386_I0.398851.693
396_E411_P0.393641.671
231_Y238_A0.39191.664
19_R418_E0.391851.663
360_I364_K0.391541.662
200_Y203_A0.387291.644
20_I28_E0.38411.630
179_V225_R0.382431.623
203_A206_L0.378981.609
191_I198_F0.378831.608
137_A142_A0.377161.601
113_D234_A0.368681.565
181_I202_N0.366341.555
185_L232_A0.36611.554
189_E192_E0.361721.535
44_S340_K0.361621.535
371_V380_A0.356611.514
36_I341_A0.355911.511
229_R233_K0.354551.505
234_A238_A0.352871.498
179_V229_R0.348031.477
335_E358_K0.346421.470
114_V227_L0.346281.470
29_I387_L0.345861.468
214_A220_P0.343711.459
24_E28_E0.34351.458
361_E364_K0.341661.450
20_I24_E0.340771.446
181_I205_L0.338471.437
182_D206_L0.337971.435
180_I232_A0.336681.429
246_I259_I0.333941.417
171_A216_I0.331981.409
5_P22_W0.329921.400
197_G200_Y0.329211.397
178_H210_D0.329061.397
186_Y198_F0.329031.397
176_M231_Y0.326961.388
149_P161_W0.325161.380
146_V155_A0.322941.371
33_L370_V0.322151.367
3_K417_G0.321711.366
34_K38_D0.321621.365
185_L229_R0.321121.363
183_E225_R0.32091.362
40_Y340_K0.318791.353
168_T217_C0.317771.349
6_L19_R0.31721.346
31_E35_E0.316391.343
182_D225_R0.316181.342
160_E227_L0.311431.322
138_R159_D0.309761.315
368_F385_I0.308841.311
390_A421_S0.308431.309
173_A259_I0.30791.307
116_L227_L0.307121.304
41_G44_S0.305751.298
344_V369_V0.30241.284
214_A224_I0.29821.266
168_T216_I0.297721.264
372_I389_A0.296191.257
421_S424_E0.294061.248
213_A217_C0.293551.246
22_W387_L0.289381.228
179_V182_D0.289271.228
202_N206_L0.288811.226
179_V185_L0.288121.223
198_F202_N0.286011.214
26_L420_R0.285311.211
372_I425_I0.283721.204
176_M227_L0.282941.201
180_I186_Y0.281631.195
143_K159_D0.281331.194
268_N274_G0.280741.192
374_P391_T0.27821.181
390_A419_A0.277081.176
341_A368_F0.276361.173
244_W248_R0.276321.173
341_A370_V0.276161.172
428_E431_K0.275611.170
8_R17_F0.275441.169
109_I239_A0.275161.168
334_I366_L0.273041.159
145_V227_L0.271181.151
118_W147_V0.269831.145
162_I223_K0.269721.145
176_M228_A0.267641.136
188_K202_N0.265121.125
117_I120_A0.264721.124
420_R424_E0.264541.123
164_I219_V0.264291.122
34_K37_I0.261641.111
37_I45_I0.260371.105
115_I142_A0.258441.097
332_N336_D0.258431.097
214_A222_E0.257191.092
333_A338_K0.256991.091
172_L227_L0.256741.090
46_A339_I0.255531.085
212_D215_E0.255381.084
18_V24_E0.255331.084
164_I168_T0.254821.082
207_V212_D0.254591.081
151_R163_P0.252891.073
123_A154_T0.251431.067
26_L429_L0.250861.065
376_M386_I0.250231.062
3_K19_R0.249981.061
222_E226_E0.249841.061
108_D111_N0.249491.059
208_Y216_I0.249371.059
185_L233_K0.249351.058
208_Y213_A0.248741.056
345_L426_F0.247221.049
389_A425_I0.245361.041
114_V234_A0.245091.040
179_V224_I0.244551.038
181_I186_Y0.242431.029
145_V230_E0.242331.029
33_L69_L0.241471.025
332_N358_K0.240621.021
32_K367_D0.240351.020
29_I368_F0.239871.018
36_I367_D0.239791.018
145_V160_E0.239711.018
391_T416_P0.239311.016
246_I255_T0.237521.008
330_A339_I0.236681.005
335_E361_E0.236381.003
22_W425_I0.23530.999
176_M262_L0.235260.999
222_E225_R0.23520.998
117_I154_T0.234890.997
326_D329_E0.233820.993
173_A258_A0.233260.990
236_P274_G0.232440.987
350_A356_S0.23150.983
2_L386_I0.229950.976
361_E365_K0.229760.975
24_E385_I0.229290.973
231_Y240_I0.228870.971
225_R229_R0.228660.971
240_I263_A0.227880.967
151_R156_A0.227320.965
28_E368_F0.225670.958
147_V162_I0.225430.957
147_V164_I0.225370.957
124_E153_P0.225230.956
176_M180_I0.22380.950
195_T264_A0.222740.945
117_I144_L0.222470.944
20_I25_A0.221510.940
364_K382_Y0.219850.933
65_F426_F0.219620.932
208_Y212_D0.219460.932
198_F265_L0.217840.925
226_E229_R0.216430.919
22_W420_R0.215390.914
113_D140_R0.215120.913
179_V210_D0.214730.911
151_R161_W0.214320.910
116_L176_M0.214130.909
36_I368_F0.214070.909
108_D273_G0.214020.908
334_I337_G0.21390.908
63_Q67_R0.213760.907
58_E395_R0.212170.901
308_K312_W0.211650.898
114_V231_Y0.211650.898
387_L425_I0.2110.896
424_E431_K0.210470.893
170_A258_A0.210180.892
335_E365_K0.20950.889
329_E332_N0.20910.888
180_I266_T0.20860.885
358_K361_E0.208150.884
201_T205_L0.207770.882
175_A224_I0.207080.879
114_V238_A0.206920.878
29_I429_L0.206860.878
204_P207_V0.20670.877
373_D377_T0.206680.877
26_L424_E0.206590.877
191_I195_T0.206420.876
114_V143_K0.206190.875
155_A161_W0.205790.874
149_P163_P0.205780.873
29_I32_K0.20560.873
17_F386_I0.204850.870
343_F429_L0.204330.867
350_A360_I0.204310.867
230_E234_A0.203860.865
198_F201_T0.203560.864
81_C84_C0.202690.860
325_N333_A0.202250.859
201_T265_L0.201640.856
58_E61_L0.201620.856
82_D85_M0.20150.855
113_D235_A0.200940.853
23_D432_R0.200840.853
170_A251_N0.199450.847
179_V228_A0.199010.845
25_A387_L0.198560.843
3_K6_L0.198480.843
214_A217_C0.198010.841
148_D152_T0.19750.838
242_W276_I0.19690.836
37_I42_P0.196160.833
147_V227_L0.195850.831
307_G310_K0.195340.829
377_T380_A0.195250.829
173_A262_L0.194450.825
342_L366_L0.194360.825
396_E410_N0.193070.820
380_A386_I0.193030.819
350_A382_Y0.192570.817
164_I172_L0.192380.817
115_I137_A0.192140.816
32_K36_I0.191610.813
136_A139_K0.191570.813
65_F430_A0.191110.811
186_Y265_L0.191010.811
135_K138_R0.190820.810
45_I341_A0.190330.808
66_A74_T0.190260.808
175_A179_V0.189940.806
3_K416_P0.189810.806
6_L376_M0.189650.805
46_A330_A0.189640.805
211_E225_R0.189570.805
78_G82_D0.18920.803
116_L240_I0.188770.801
420_R425_I0.188560.800
190_F194_Y0.188220.799
170_A255_T0.188080.798
30_A34_K0.187710.797
178_H209_T0.187030.794
390_A415_P0.186840.793
146_V154_T0.1860.790
179_V221_A0.18590.789
240_I259_I0.185390.787
180_I262_L0.184890.785
124_E150_R0.184860.785
4_Y21_S0.18460.784
355_D358_K0.184440.783
284_N287_G0.184070.781
214_A219_V0.183210.778
196_Y200_Y0.183040.777
427_R431_K0.18290.776
396_E408_R0.182870.776
78_G81_C0.181950.772
413_V416_P0.181770.772
109_I241_I0.181210.769
229_R232_A0.180730.767
37_I69_L0.180380.766
143_K160_E0.180240.765
104_N239_A0.180160.765
23_D27_D0.180040.764
45_I69_L0.179280.761
110_E136_A0.179250.761
329_E333_A0.179130.760
168_T171_A0.17890.759
235_A271_K0.177650.754
238_A268_N0.177520.754
7_K24_E0.177390.753
180_I231_Y0.176960.751
33_L343_F0.176770.750
393_L412_V0.176710.750
143_K226_E0.176640.750
32_K368_F0.176630.750
106_L402_A0.176590.750
174_L258_A0.175260.744
344_V379_T0.174840.742
17_F20_I0.174440.740
40_Y367_D0.174270.740
178_H205_L0.173780.738
187_D271_K0.173550.737
255_T259_I0.173250.735
340_K366_L0.173230.735
236_P271_K0.173060.735
178_H206_L0.172380.732
174_L204_P0.172170.731
118_W259_I0.171860.730
348_N379_T0.171790.729
28_E31_E0.171680.729
41_G340_K0.171410.728
187_D190_F0.170910.725
137_A144_L0.170740.725
254_Q257_R0.170490.724
136_A140_R0.170450.724
30_A432_R0.170420.723
341_A385_I0.170240.723
424_E427_R0.169310.719
199_D202_N0.169040.718
341_A366_L0.168080.713
133_F136_A0.167930.713
1_R5_P0.167860.713
357_N361_E0.167810.712
395_R422_D0.16740.711
325_N339_I0.16720.710
181_I265_L0.166970.709
199_D203_A0.166930.709
204_P208_Y0.166660.707
115_I133_F0.166560.707
77_H82_D0.166160.705
138_R157_K0.166020.705
148_D154_T0.165290.702
40_Y44_S0.164070.696
202_N205_L0.162950.692
331_I362_A0.16260.690
6_L20_I0.162550.690
357_N360_I0.162240.689
210_D225_R0.161710.686
24_E27_D0.161590.686
79_S83_T0.161050.684
228_A232_A0.160170.680
60_Y64_R0.159890.679
369_V383_A0.159560.677
163_P223_K0.158940.675
219_V224_I0.158310.672
5_P21_S0.158260.672
162_I172_L0.157810.670
177_A205_L0.157720.669
343_F426_F0.157460.668
110_E133_F0.15720.667
422_D425_I0.157190.667
308_K314_E0.157150.667
88_A256_A0.156860.666
177_A262_L0.156840.666
344_V371_V0.156710.665
35_E38_D0.156620.665
333_A336_D0.156350.664
228_A262_L0.156110.663
363_L366_L0.156080.663
209_T213_A0.156060.662
80_Q84_C0.155940.662
5_P425_I0.155710.661
65_F70_G0.155670.661
391_T413_V0.155610.661
32_K341_A0.155120.658
26_L29_I0.154950.658
201_T204_P0.154940.658
331_I334_I0.154740.657
311_F316_P0.154520.656
25_A29_I0.153870.653
56_N400_V0.15360.652
61_L426_F0.15360.652
8_R15_G0.153470.651
83_T87_S0.153430.651
227_L230_E0.153350.651
75_N79_S0.153240.650
390_A395_R0.153230.650
165_R218_G0.153230.650
213_A216_I0.153040.650
82_D86_A0.152840.649
309_P312_W0.152690.648
6_L17_F0.152130.646
246_I256_A0.151660.644
210_D213_A0.151610.644
42_P70_G0.151470.643
8_R384_D0.150740.640
376_M381_K0.15040.638
268_N271_K0.150210.638
111_N273_G0.149770.636
308_K311_F0.149660.635
43_D322_P0.148910.632
179_V232_A0.14870.631
350_A363_L0.148680.631
221_A224_I0.148350.630
223_K230_E0.148330.630
78_G84_C0.148280.629
177_A261_N0.147490.626
219_V223_K0.14740.626
355_D361_E0.147210.625
2_L376_M0.147190.625
70_G74_T0.147010.624
171_A175_A0.146630.622
363_L382_Y0.146040.620
300_P303_G0.146020.620
33_L429_L0.145890.619
137_A140_R0.145710.619
307_G311_F0.144470.613
280_G285_V0.144260.612
116_L238_A0.144080.612
183_E232_A0.1440.611
195_T199_D0.143880.611
81_C85_M0.143160.608
37_I40_Y0.14310.607
195_T198_F0.142640.605
192_E199_D0.142470.605
342_L350_A0.142460.605
348_N378_E0.142220.604
26_L30_A0.142160.603
31_E34_K0.142130.603
74_T77_H0.142060.603
303_G310_K0.141840.602
66_A71_S0.140870.598
309_P313_K0.140840.598
374_P389_A0.140730.597
203_A207_V0.140730.597
188_K191_I0.140030.594
163_P166_P0.139810.593
426_F429_L0.139790.593
270_G275_G0.139770.593
222_E229_R0.139720.593
114_V233_K0.139510.592
109_I134_R0.13940.592
77_H81_C0.13920.591
117_I122_P0.138440.588
191_I265_L0.13810.586
115_I134_R0.137940.586
120_A243_G0.137790.585
178_H213_A0.137580.584
143_K233_K0.137530.584
48_F66_A0.137250.583
170_A173_A0.137110.582
423_W427_R0.136910.581
175_A221_A0.136850.581
186_Y189_E0.136770.581
118_W246_I0.136720.580
138_R144_L0.13660.580
427_R430_A0.136420.579
236_P273_G0.136360.579
74_T78_G0.136220.578
81_C88_A0.135980.577
112_A236_P0.135920.577
148_D161_W0.135910.577
180_I185_L0.135890.577
327_F353_F0.135750.576
36_I40_Y0.135750.576
190_F195_T0.135630.576
91_A257_R0.135540.575
88_A260_A0.135520.575
348_N351_Q0.135390.575
349_P379_T0.135080.573
75_N78_G0.134960.573
112_A239_A0.134810.572
373_D386_I0.134750.572
70_G81_C0.13440.570
172_L219_V0.134320.570
236_P268_N0.13410.569
54_T345_L0.133730.568
176_M232_A0.133590.567
39_K340_K0.133180.565
223_K227_L0.133150.565
356_S360_I0.133130.565
29_I33_L0.133050.565
172_L176_M0.132990.565
152_T155_A0.132850.564
125_S243_G0.132830.564
370_V387_L0.132780.564
333_A339_I0.13270.563
134_R137_A0.132470.562
148_D155_A0.132380.562
371_V377_T0.132360.562
78_G85_M0.132210.561
36_I340_K0.132160.561
322_P325_N0.132120.561
149_P169_D0.131910.560
239_A277_F0.131450.558
49_G53_G0.13140.558
249_H255_T0.13090.556
332_N335_E0.130770.555
330_A342_L0.130280.553
419_A425_I0.130180.553
369_V382_Y0.129960.552
80_Q83_T0.129820.551
144_L157_K0.129760.551
23_D428_E0.129450.549
176_M179_V0.129410.549
118_W172_L0.129270.549
112_A273_G0.129030.548
394_E416_P0.129010.548
205_L209_T0.128950.547
33_L37_I0.128510.545
116_L231_Y0.128270.544
231_Y263_A0.127990.543
5_P387_L0.127980.543
342_L369_V0.127680.542
247_T278_P0.127590.542
378_E381_K0.127490.541
344_V349_P0.127210.540
310_K314_E0.127180.540
180_I184_G0.127090.539
119_G149_P0.127030.539
331_I363_L0.126550.537
314_E317_G0.126380.536
70_G78_G0.126310.536
212_D216_I0.126190.536
113_D238_A0.12610.535
312_W318_N0.1260.535
205_L210_D0.12590.534
102_F277_F0.125810.534
121_N124_E0.12580.534
35_E367_D0.125440.532
236_P272_P0.12530.532
344_V347_G0.124750.530
122_P154_T0.123710.525
398_T408_R0.123610.525
419_A424_E0.123460.524
263_A276_I0.123440.524
80_Q85_M0.123160.523
195_T200_Y0.123130.523
347_G353_F0.12270.521
345_L372_I0.122570.520
65_F429_L0.122510.520
200_Y205_L0.122320.519
177_A258_A0.122210.519
176_M224_I0.122190.519
1_R394_E0.121930.518
163_P220_P0.121810.517
360_I382_Y0.121640.516
210_D221_A0.121570.516
399_V409_R0.12150.516
318_N321_F0.121460.516
106_L129_L0.12140.515
2_L374_P0.121390.515
48_F51_G0.121290.515
225_R228_A0.121130.514
30_A429_L0.121110.514
51_G79_S0.1210.514
71_S81_C0.120850.513
175_A212_D0.120780.513
227_L231_Y0.120770.513
389_A422_D0.120680.512
69_L81_C0.120660.512
46_A334_I0.12050.511
170_A174_L0.120460.511
91_A94_G0.12040.511
224_I228_A0.12030.511
109_I129_L0.120210.510
178_H183_E0.12010.510
121_N245_G0.120080.510
49_G52_G0.119970.509
411_P415_P0.119930.509
110_E140_R0.119810.509
175_A178_H0.119790.508
180_I238_A0.119780.508
123_A152_T0.119750.508
308_K313_K0.119670.508
312_W317_G0.119460.507
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
3ml1A0.98151000.059
2iv2X0.97451000.089
1h0hA0.97451000.093
1kqfA0.97451000.093
2ivfA0.97921000.098
2napA0.97691000.109
2e7zA0.9631000.112
4aayA0.90971000.12
2vpzA0.9631000.131
1tmoA0.97451000.134

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