GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
p450 - Cytochrome P450
Pfam: PF00067 (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: 463
Sequences: 18511
Seq/Len: 39.98
HH_delta: 0.098 (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_D382_E1.684514.420
326_A389_L1.482793.891
379_D384_D1.453773.815
297_E301_E1.241093.257
295_V323_Y1.187433.116
285_T426_L1.169083.068
228_R260_D1.156073.033
301_E305_S1.148733.014
349_D359_K1.146183.007
285_T331_T1.077442.827
372_R381_D1.053162.763
288_E335_Y1.049312.753
298_K386_E1.035332.717
227_R240_D1.02052.678
299_L327_V0.988192.593
346_A357_I0.987432.591
281_T422_M0.978652.568
351_T356_F0.973982.556
349_D356_F0.954912.506
358_P361_T0.936742.458
300_R304_D0.910052.388
325_D423_K0.907022.380
221_K264_A0.899172.359
148_F425_F0.877522.303
27_R31_K0.857662.250
429_L435_F0.851472.234
297_E434_D0.841712.209
351_T354_G0.827772.172
130_R432_R0.81892.149
299_L430_L0.817922.146
311_R317_D0.8152.138
123_E428_K0.805112.113
298_K323_Y0.799342.097
49_V58_I0.784222.058
145_L286_L0.783912.057
300_R434_D0.779072.044
225_E229_E0.776922.039
225_E260_D0.764122.005
66_F350_V0.76232.000
296_Q300_R0.74481.954
285_T289_L0.729791.915
65_Y348_E0.72541.903
327_V383_F0.721761.894
25_F28_E0.719841.889
296_Q434_D0.714191.874
299_L324_L0.703271.845
130_R433_F0.696911.829
28_E32_K0.693881.821
36_I49_V0.689831.810
374_P380_P0.687861.805
172_E215_R0.680121.785
221_K260_D0.678171.779
328_I422_M0.6781.779
38_R45_P0.677071.777
285_T327_V0.675191.772
120_E155_R0.674181.769
40_W45_P0.669381.756
297_E300_R0.66411.743
288_E292_N0.653761.715
145_L282_L0.649611.705
47_V361_T0.647191.698
290_A296_Q0.641331.683
35_P51_D0.639371.678
334_L372_R0.636141.669
259_S262_E0.635131.667
323_Y386_E0.631261.656
326_A386_E0.630741.655
288_E334_L0.630721.655
282_L425_F0.627921.648
221_K225_E0.627771.647
368_Y372_R0.623961.637
54_L353_G0.622741.634
51_D54_L0.621891.632
327_V331_T0.621591.631
37_F48_V0.619281.625
98_Q266_E0.616791.618
176_A215_R0.613251.609
374_P381_D0.611621.605
55_I370_L0.601511.578
348_E359_K0.59891.571
179_E208_R0.59231.554
222_E226_E0.591551.552
295_V327_V0.591241.551
21_N24_E0.588391.544
214_D218_K0.584771.534
303_I427_A0.58061.523
411_M415_R0.575451.510
28_E31_K0.572981.503
286_L429_L0.569681.495
292_N295_V0.567841.490
207_R211_R0.556651.461
218_K222_E0.55631.460
289_L299_L0.55481.456
371_H404_P0.551671.448
306_V321_L0.54191.422
349_D358_P0.5371.409
175_E179_E0.536821.409
122_A126_I0.533251.399
325_D329_K0.528011.385
119_D428_K0.527151.383
140_D143_D0.526351.381
121_E155_R0.524671.377
314_T317_D0.522891.372
25_F29_L0.51951.363
330_E333_R0.515321.352
211_R215_R0.513041.346
289_L295_V0.511111.341
93_E96_R0.510331.339
53_E353_G0.508131.333
329_K402_F0.506561.329
121_E124_E0.506031.328
418_A422_M0.505921.327
226_E230_E0.504851.325
129_L144_W0.503461.321
217_R264_A0.499531.311
374_P378_P0.496591.303
160_K226_E0.4951.299
97_R262_E0.49451.298
156_V417_L0.494291.297
303_I321_L0.492281.292
57_E353_G0.490351.287
243_D247_Q0.487011.278
122_A148_F0.485161.273
281_T337_P0.482671.266
225_E228_R0.481361.263
345_V360_G0.474951.246
179_E212_A0.469861.233
300_R430_L0.467241.226
302_E321_L0.4661.223
36_I54_L0.462871.215
62_R350_V0.462081.212
35_P375_E0.461711.211
93_E97_R0.461621.211
148_F152_V0.46091.209
126_I433_F0.459611.206
378_P384_D0.451851.186
31_K374_P0.451591.185
27_R369_A0.448681.177
153_I274_G0.448441.177
154_G162_F0.445681.169
258_L262_E0.445071.168
288_E291_K0.443961.165
299_L323_Y0.437481.148
282_L422_M0.434981.141
288_E331_T0.432621.135
332_L404_P0.431711.133
346_A349_D0.43041.129
304_D431_R0.429891.128
303_I324_L0.429581.127
298_K301_E0.427071.121
231_L247_Q0.422421.108
62_R65_Y0.421591.106
329_K419_M0.420111.102
285_T328_I0.41971.101
56_K60_R0.418941.099
47_V357_I0.418411.098
287_Y291_K0.416971.094
295_V386_E0.416241.092
322_P326_A0.410931.078
85_K94_R0.408081.071
227_R243_D0.407621.070
128_Q144_W0.407521.069
331_T383_F0.407491.069
90_S94_R0.406691.067
398_P401_A0.405941.065
123_E127_D0.405691.064
317_D320_K0.405381.064
155_R161_D0.403791.060
163_G166_D0.403221.058
125_L148_F0.401741.054
64_K348_E0.400611.051
294_E298_K0.400221.050
49_V55_I0.399931.049
86_G269_T0.399181.047
226_E229_E0.397351.043
50_S366_S0.397161.042
127_D432_R0.39281.031
289_L430_L0.39121.026
217_R221_K0.390461.025
223_I226_E0.39041.024
428_K431_R0.389911.023
379_D387_R0.389621.022
295_V298_K0.388531.019
324_L327_V0.386351.014
55_I365_V0.386051.013
49_V54_L0.385031.010
119_D123_E0.384771.010
346_A360_G0.384621.009
145_L283_S0.384331.008
290_A435_F0.382831.005
121_E151_D0.381411.001
94_R97_R0.381331.001
126_I428_K0.381081.000
213_R217_R0.380770.999
124_E127_D0.380250.998
29_L37_F0.379790.997
286_L430_L0.374850.984
142_F283_S0.372330.977
126_I432_R0.372140.976
345_V362_I0.371810.976
371_H402_F0.371790.976
112_L420_M0.370340.972
128_Q131_K0.369960.971
150_L275_H0.369640.970
323_Y385_P0.369530.970
138_P438_V0.369310.969
417_L421_E0.368970.968
415_R419_M0.368150.966
121_E161_D0.367750.965
57_E350_V0.366550.962
172_E176_A0.366460.962
373_D376_Y0.365790.960
356_F359_K0.365170.958
289_L296_Q0.364720.957
95_W99_R0.362640.952
286_L426_L0.362370.951
367_I403_L0.362340.951
260_D264_A0.361410.948
53_E56_K0.360630.946
284_W335_Y0.360570.946
36_I355_Y0.360290.945
274_G277_T0.359490.943
323_Y327_V0.357940.939
357_I363_V0.356330.935
215_R218_K0.355440.933
384_D390_D0.355330.932
217_R261_E0.355260.932
106_F413_P0.354930.931
87_L413_P0.354010.929
294_E297_E0.353880.929
240_D243_D0.353280.927
296_Q430_L0.353220.927
377_F388_F0.352560.925
229_E233_D0.350980.921
102_L413_P0.350530.920
318_L423_K0.349190.916
153_I157_L0.347320.911
122_A424_V0.347190.911
224_I242_L0.346370.909
123_E312_E0.344310.903
52_P376_Y0.344250.903
278_T421_E0.343690.902
204_P207_R0.341790.897
53_E375_E0.341540.896
68_F347_T0.341440.896
29_L33_Y0.341390.896
293_P297_E0.341080.895
346_A359_K0.340830.894
127_D131_K0.340630.894
332_L402_F0.340430.893
290_A437_L0.338560.888
306_V320_K0.338190.887
386_E389_L0.337950.887
118_I417_L0.336730.884
141_L286_L0.334190.877
117_L120_E0.334180.877
118_I420_M0.33340.875
125_L425_F0.332420.872
324_L423_K0.332320.872
292_N382_E0.332020.871
53_E57_E0.330560.867
285_T383_F0.327630.860
149_A278_T0.327550.859
30_H37_F0.326880.858
54_L57_E0.326590.857
207_R210_K0.326540.857
408_G412_C0.325740.855
281_T331_T0.324860.852
141_L145_L0.324070.850
243_D246_L0.323420.849
27_R381_D0.32310.848
299_L303_I0.320830.842
324_L427_A0.32050.841
273_A277_T0.320050.840
59_L365_V0.319950.840
249_S257_G0.319410.838
120_E124_E0.319350.838
179_E182_E0.318380.835
229_E232_D0.317230.832
318_L325_D0.316880.831
150_L271_L0.316690.831
384_D387_R0.316560.831
94_R262_E0.31580.829
65_Y350_V0.315260.827
56_K400_F0.314760.826
120_E161_D0.313910.824
305_S320_K0.312580.820
122_A428_K0.311520.817
115_E119_D0.311410.817
366_S369_A0.310240.814
128_Q132_K0.309990.813
175_E178_D0.309770.813
210_K214_D0.309240.811
352_L357_I0.309070.811
303_I431_R0.308660.810
428_K432_R0.307930.808
81_P84_G0.307810.808
125_L429_L0.307060.806
286_L435_F0.306090.803
57_E62_R0.305960.803
124_E166_D0.303850.797
302_E322_P0.303820.797
295_V384_D0.303820.797
350_V356_F0.302180.793
297_E304_D0.30210.793
38_R47_V0.301410.791
118_I152_V0.300830.789
302_E324_L0.300810.789
24_E27_R0.300630.789
239_R243_D0.30040.788
204_P208_R0.299060.785
304_D434_D0.299010.785
30_H48_V0.298520.783
419_M423_K0.298330.783
51_D353_G0.29830.783
149_A279_A0.298030.782
217_R265_A0.297320.780
325_D419_M0.296560.778
111_I114_L0.296150.777
376_Y401_A0.296040.777
39_I48_V0.294250.772
214_D217_R0.293790.771
316_E319_S0.292430.767
289_L426_L0.292420.767
152_V421_E0.291840.766
63_S348_E0.291470.765
346_A358_P0.291090.764
323_Y326_A0.291070.764
127_D130_R0.290960.763
35_P373_D0.289520.760
99_R103_A0.289360.759
29_L32_K0.288430.757
316_E320_K0.287350.754
328_I419_M0.28690.753
405_F408_G0.286750.752
44_Q362_I0.286570.752
406_G411_M0.285080.748
124_E128_Q0.285030.748
324_L426_L0.2850.748
30_H373_D0.284940.748
347_T359_K0.284920.748
116_P120_E0.284720.747
221_K261_E0.284580.747
381_D384_D0.284010.745
29_L39_I0.2840.745
144_W147_R0.283940.745
176_A179_E0.282560.741
293_P434_D0.281650.739
262_E266_E0.281120.738
60_R63_S0.280880.737
276_D280_S0.280640.736
228_R231_L0.280580.736
289_L292_N0.280530.736
172_E175_E0.280490.736
327_V385_P0.280490.736
58_I352_L0.280030.735
120_E123_E0.279760.734
46_I364_I0.279740.734
389_L392_R0.279020.732
308_G311_R0.27870.731
149_A153_I0.278590.731
208_R211_R0.278480.731
206_F210_K0.278220.730
261_E264_A0.277880.729
62_R66_F0.277770.729
30_H50_S0.277650.729
346_A361_T0.277590.728
227_R230_E0.27720.727
143_D147_R0.277010.727
178_D182_E0.276540.726
405_F410_R0.275690.723
171_E175_E0.275470.723
125_L129_L0.275310.722
281_T332_L0.274810.721
307_L431_R0.272370.715
378_P382_E0.272020.714
34_G37_F0.271420.712
390_D393_G0.27130.712
55_I59_L0.270990.711
277_T421_E0.270860.711
231_L234_G0.270810.711
282_L286_L0.27010.709
176_A212_A0.269710.708
124_E161_D0.269430.707
240_D246_L0.268750.705
393_G397_R0.267280.701
67_S347_T0.267160.701
174_L178_D0.267150.701
313_I427_A0.266550.699
57_E61_S0.266340.699
261_E265_A0.265160.696
169_D222_E0.26490.695
55_I403_L0.264790.695
145_L149_A0.264180.693
172_E218_K0.264070.693
301_E304_D0.263750.692
377_F380_P0.263720.692
46_I362_I0.26360.692
96_R100_R0.263580.692
349_D360_G0.263360.691
334_L382_E0.262870.690
280_S284_W0.262730.689
303_I430_L0.262640.689
307_L311_R0.26210.688
159_G240_D0.262040.688
129_L429_L0.261070.685
52_P373_D0.260370.683
102_L270_L0.260040.682
94_R98_Q0.259990.682
418_A421_E0.259820.682
202_P206_F0.259680.681
307_L313_I0.25880.679
66_F69_R0.258530.678
149_A421_E0.258450.678
319_S322_P0.258320.678
278_T422_M0.257880.677
66_F346_A0.257760.676
68_F91_D0.25610.672
310_G317_D0.255470.670
49_V352_L0.255430.670
315_F420_M0.254620.668
349_D361_T0.254250.667
218_K221_K0.252420.662
228_R249_S0.251950.661
227_R242_L0.251720.660
24_E28_E0.251540.660
222_E225_E0.25030.657
392_R396_N0.249960.656
86_G90_S0.249930.656
249_S260_D0.249750.655
341_S367_I0.249650.655
90_S98_Q0.248880.653
328_I423_K0.248810.653
308_G431_R0.248620.652
57_E352_L0.247420.649
150_L154_G0.247280.649
203_T206_F0.247270.649
266_E269_T0.247230.649
107_S111_I0.246850.648
153_I421_E0.246510.647
86_G89_F0.246480.647
294_E382_E0.24570.645
50_S373_D0.245380.644
41_P46_I0.245280.644
22_P26_F0.244220.641
65_Y68_F0.243570.639
45_P361_T0.243380.639
280_S337_P0.241670.634
332_L337_P0.241390.633
117_L155_R0.241210.633
199_K202_P0.240840.632
126_I130_R0.24080.632
85_K261_E0.240050.630
336_P371_H0.240.630
103_A413_P0.23930.628
277_T338_V0.238810.627
424_V428_K0.238780.627
289_L327_V0.238480.626
430_L435_F0.238280.625
377_F402_F0.237950.624
191_L195_F0.237820.624
176_A216_L0.237770.624
326_A390_D0.237680.624
408_G414_G0.237660.624
157_L270_L0.237630.624
21_N28_E0.237560.623
115_E424_V0.237510.623
313_I317_D0.23740.623
132_K144_W0.235910.619
102_L266_E0.235710.618
278_T418_A0.23490.616
220_I268_L0.234810.616
92_G95_W0.234670.616
116_P119_D0.233780.613
322_P390_D0.232420.610
343_P364_I0.232170.609
383_F388_F0.231990.609
27_R30_H0.231310.607
291_K437_L0.23120.607
287_Y437_L0.230810.606
307_L317_D0.230570.605
332_L422_M0.230010.604
51_D370_L0.229490.602
54_L352_L0.229230.601
50_S369_A0.2290.601
139_V144_W0.22880.600
353_G356_F0.227790.598
87_L269_T0.227330.596
309_D431_R0.226780.595
326_A385_P0.226630.595
193_F196_P0.22660.595
217_R268_L0.226160.593
400_F407_A0.226090.593
147_R151_D0.225820.593
151_D163_G0.225020.590
51_D375_E0.224220.588
157_L274_G0.223810.587
181_F184_L0.223120.585
208_R212_A0.222890.585
334_L381_D0.222680.584
87_L102_L0.222380.584
95_W410_R0.221720.582
128_Q147_R0.22160.581
416_N419_M0.220960.580
221_K224_I0.220940.580
304_D307_L0.220930.580
132_K139_V0.220890.580
52_P370_L0.220730.579
175_E215_R0.22060.579
173_F176_A0.220520.579
407_A411_M0.219660.576
288_E295_V0.218570.574
198_L202_P0.218490.573
197_W200_Y0.218340.573
212_A215_R0.218120.572
342_L367_I0.217660.571
123_E432_R0.21760.571
397_R401_A0.217550.571
130_R133_A0.217380.570
146_R150_L0.217170.570
230_E239_R0.216950.569
58_I365_V0.216940.569
172_E222_E0.216810.569
346_A350_V0.216770.569
237_S247_Q0.216080.567
35_P50_S0.215710.566
106_F270_L0.215630.566
422_M426_L0.215580.566
98_Q101_L0.215430.565
412_C418_A0.215160.565
119_D314_T0.214990.564
51_D373_D0.214560.563
88_F269_T0.214040.562
115_E118_I0.21370.561
299_L423_K0.213030.559
109_K113_K0.212970.559
385_P388_F0.212520.558
115_E420_M0.212470.558
31_K381_D0.212160.557
264_A268_L0.212020.556
106_F109_K0.211460.555
293_P296_Q0.211230.554
37_F50_S0.211220.554
132_K135_S0.211060.554
371_H377_F0.210960.554
284_W288_E0.210490.552
54_L354_G0.209840.551
224_I228_R0.209830.551
66_F363_V0.209710.550
326_A388_F0.209340.549
299_L302_E0.209240.549
53_E398_P0.209130.549
179_E215_R0.209010.548
293_P436_E0.208930.548
328_I426_L0.208430.547
391_E397_R0.20830.547
119_D312_E0.208130.546
292_N327_V0.208090.546
200_Y203_T0.207940.546
59_L403_L0.207580.545
350_V353_G0.207080.543
277_T414_G0.206950.543
181_F272_F0.206020.541
33_Y37_F0.2060.541
145_L425_F0.205870.540
307_L321_L0.205380.539
257_G262_E0.204130.536
282_L426_L0.204110.536
326_A384_D0.203970.535
427_A431_R0.20390.535
384_D392_R0.203050.533
59_L407_A0.203040.533
183_L212_A0.20290.532
112_L417_L0.202750.532
349_D357_I0.202670.532
26_F30_H0.202270.531
52_P401_A0.20220.531
68_F345_V0.202180.531
102_L105_A0.201770.529
147_R171_E0.201480.529
239_R247_Q0.200930.527
273_A276_D0.200920.527
281_T328_I0.200880.527
21_N25_F0.200790.527
179_E183_L0.200660.527
122_A125_L0.200050.525
73_P76_E0.199730.524
145_L422_M0.199370.523
419_M422_M0.199070.522
39_I46_I0.198860.522
68_F92_G0.198590.521
367_I371_H0.198430.521
273_A281_T0.19840.521
242_L263_I0.198310.520
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
3pm0A0.97841000.098
3tbgA0.98491000.103
3swzA0.98061000.108
3k9vA0.96111000.109
3nxuA0.97191000.113
3e6iA0.97411000.115
2hi4A0.97621000.117
1po5A0.97621000.118
2fdvA0.97621000.119
1r9oA0.97621000.12

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