GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Na_sulph_symp - Sodiumsulfate symporter transmembrane region
Pfam: PF00939 (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: CL0182
Length: 471
Sequences: 7477
Seq/Len: 15.87
HH_delta: 0.237 (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
344_K348_N0.674964.266
100_K313_D0.567253.585
358_S361_L0.5483.463
368_L413_A0.519713.284
438_K441_D0.514993.255
310_T313_D0.508333.212
131_L229_L0.482723.051
440_K444_K0.441412.790
124_F233_W0.43662.759
118_S121_G0.432212.731
75_E339_K0.407632.576
226_I230_V0.387992.452
257_E260_E0.347232.194
235_I452_I0.346382.189
441_D444_K0.343042.168
451_I455_I0.341912.161
345_W348_N0.341542.158
213_S216_D0.335362.119
345_W349_V0.322312.037
396_A403_P0.316191.998
191_L201_A0.311081.966
234_L238_K0.310461.962
373_L377_F0.309361.955
348_N351_L0.307541.944
110_W114_R0.300811.901
132_L136_F0.299511.893
348_N352_P0.290291.835
110_W113_K0.287281.816
157_E163_P0.286191.809
231_L456_V0.284591.799
374_L383_T0.28291.788
335_T339_K0.281781.781
266_K270_K0.281731.780
150_P154_S0.280331.772
269_K273_V0.279681.767
447_F451_I0.279271.765
284_T287_F0.278351.759
238_K242_P0.277811.756
238_K241_K0.277771.755
349_V353_L0.277531.754
274_I299_G0.271881.718
202_G214_F0.27041.709
395_A406_L0.266031.681
130_G148_L0.259081.637
349_V352_P0.258061.631
278_T299_G0.257641.628
219_I223_P0.253961.605
130_G183_A0.251221.588
392_I396_A0.249771.578
96_A99_E0.246831.560
205_E212_I0.242631.533
337_L342_A0.239781.515
379_S382_A0.239111.511
97_A303_L0.239021.511
198_L408_L0.238311.506
273_V277_L0.237611.502
347_A351_L0.237271.499
205_E211_S0.235681.489
265_S268_E0.23561.489
228_M453_A0.233661.477
88_I92_F0.231641.464
258_L261_L0.231491.463
338_E344_K0.230351.456
216_D219_I0.229521.450
230_V234_L0.227111.435
75_E78_S0.226311.430
94_I278_T0.22331.411
124_F237_Y0.221421.399
235_I239_L0.214731.357
96_A100_K0.21311.347
80_F328_G0.213041.346
115_F125_A0.212211.341
135_F143_R0.207571.312
398_L401_I0.206961.308
190_T225_G0.206881.307
256_K260_E0.20631.304
256_K259_K0.205691.300
455_I459_L0.203111.284
341_G344_K0.202821.282
231_L452_I0.202541.280
89_I92_F0.202491.280
134_S186_G0.200691.268
273_V276_L0.199941.264
354_L361_L0.199441.260
89_I324_L0.197841.250
274_I302_L0.196131.239
409_I413_A0.196041.239
335_T338_E0.195921.238
106_R110_W0.19571.237
126_I180_A0.195431.235
109_L267_K0.195331.234
85_V88_I0.195141.233
218_F222_L0.194331.228
105_K109_L0.193921.226
215_L219_I0.193411.222
97_A271_V0.193031.220
127_M183_A0.191881.213
140_T427_P0.191511.210
380_N424_S0.191271.209
258_L262_G0.191181.208
139_S142_A0.190561.204
188_M415_S0.189841.200
76_A332_S0.188941.194
239_L243_D0.188321.190
369_V373_L0.187661.186
134_S187_G0.186451.178
362_V398_L0.185391.172
140_T415_S0.185371.171
231_L234_L0.184511.166
106_R109_L0.184141.164
139_S143_R0.183931.162
312_K316_Q0.183921.162
192_T214_F0.183681.161
216_D404_L0.1821.150
89_I93_I0.181811.149
83_P291_D0.181181.145
376_N450_T0.181031.144
189_G225_G0.180741.142
227_I456_V0.180521.141
277_L281_L0.18031.139
376_N420_L0.18021.139
127_M182_A0.17991.137
126_I152_L0.179611.135
127_M232_M0.178911.131
93_I300_A0.178471.128
79_G328_G0.177871.124
327_F381_T0.177251.120
326_L330_A0.177041.119
271_V275_F0.176881.118
110_W268_E0.176781.117
259_K262_G0.176361.115
411_A415_S0.176361.115
223_P227_I0.175891.112
440_K443_I0.175611.110
404_L407_A0.175541.109
257_E261_L0.175351.108
96_A317_K0.174991.106
262_G265_S0.174051.100
383_T414_S0.173681.098
204_L388_I0.173271.095
312_K317_K0.172291.089
133_L148_L0.17171.085
359_P363_V0.169981.074
365_V458_I0.169751.073
220_Y224_P0.169531.071
362_V395_A0.169061.068
117_G256_K0.168511.065
393_S396_A0.168241.063
259_K263_P0.16681.054
413_A457_I0.166761.054
354_L358_S0.166591.053
380_N419_F0.166451.052
186_G190_T0.166121.050
346_L349_V0.165731.047
222_L226_I0.165451.046
287_F291_D0.165331.045
368_L409_I0.165291.045
180_A184_S0.164891.042
400_G403_P0.164811.042
164_S441_D0.164531.040
106_R268_E0.163821.035
130_G143_R0.163791.035
420_L443_I0.163381.033
204_L384_V0.162371.026
420_L450_T0.161661.022
185_I228_M0.161451.020
443_I447_F0.160531.014
324_L327_F0.159881.010
102_G105_K0.159221.006
185_I188_M0.159181.006
376_N417_A0.159121.006
241_K244_V0.158331.001
87_L92_F0.156870.991
448_P451_I0.155970.986
270_K306_P0.155920.985
256_K261_L0.155430.982
304_F307_G0.155220.981
281_L298_L0.154990.979
263_P266_K0.154710.978
152_L179_I0.154410.976
102_G106_R0.154340.975
229_L233_W0.154120.974
388_I410_V0.154120.974
372_L450_T0.153930.973
307_G310_T0.153680.971
220_Y408_L0.15360.971
140_T143_R0.152970.967
231_L455_I0.152630.965
200_A407_A0.152230.962
371_V387_L0.151130.955
155_I158_A0.151130.955
420_L447_F0.15110.955
384_V414_S0.150430.951
422_P432_Y0.150110.949
446_G450_T0.149960.948
212_I404_L0.149660.946
271_V303_L0.149640.946
372_L416_F0.149550.945
234_L237_Y0.149510.945
250_G273_V0.149050.942
87_L90_G0.148610.939
416_F453_A0.148480.938
90_G300_A0.148170.936
134_S139_S0.148150.936
369_V454_I0.148150.936
108_A155_I0.14770.933
224_P456_V0.147550.932
454_I458_I0.14730.931
320_P324_L0.147180.930
122_L159_L0.147120.930
337_L343_A0.147090.930
85_V92_F0.146980.929
200_A384_V0.146820.928
200_A381_T0.146560.926
223_P226_I0.146420.925
367_L391_V0.146340.925
186_G229_L0.145970.922
237_Y242_P0.145890.922
184_S419_F0.145660.921
127_M236_L0.145490.919
76_A329_G0.145450.919
374_L377_F0.14530.918
184_S427_P0.144170.911
251_K255_K0.143890.909
205_E388_I0.143390.906
106_R308_I0.143040.904
402_N405_A0.143020.904
201_A205_E0.142780.902
202_G216_D0.141910.897
233_W237_Y0.141680.895
367_L395_A0.141120.892
84_T88_I0.140920.891
78_S82_S0.140850.890
227_I231_L0.140690.889
180_A431_A0.140620.889
334_G386_I0.140620.889
371_V410_V0.140530.888
99_E104_D0.13980.883
377_F421_L0.139670.883
231_L235_I0.139520.882
373_L450_T0.139490.882
388_I411_A0.139260.880
120_K237_Y0.138970.878
97_A309_L0.138610.876
272_L276_L0.137670.870
441_D445_Y0.137330.868
381_T384_V0.137190.867
181_F431_A0.137150.867
354_L366_I0.137060.866
106_R262_G0.136690.864
380_N417_A0.136370.862
196_P411_A0.136340.862
123_L236_L0.136290.861
189_G222_L0.13610.860
236_L240_F0.136040.860
116_G121_G0.135590.857
290_I295_V0.135410.856
393_S397_A0.135310.855
205_E392_I0.135240.855
163_P441_D0.135210.854
214_F217_W0.135020.853
88_I196_P0.134810.852
155_I159_L0.134790.852
88_I327_F0.134470.850
105_K158_A0.13410.847
422_P429_A0.133970.847
143_R180_A0.133420.843
153_L157_E0.133360.843
108_A154_S0.13330.842
375_T380_N0.133150.841
112_L159_L0.132790.839
380_N426_P0.132480.837
109_L158_A0.132390.837
101_T271_V0.132350.836
255_K259_K0.132230.836
98_L101_T0.131730.832
108_A152_L0.131670.832
416_F457_I0.13160.832
355_G358_S0.13130.830
75_E335_T0.13120.829
197_N380_N0.13110.829
95_G104_D0.130410.824
113_K255_K0.130140.822
185_I232_M0.129920.821
298_L302_L0.129290.817
110_W265_S0.129150.816
217_W411_A0.128880.814
310_T315_A0.128650.813
190_T193_G0.128240.810
328_G332_S0.128210.810
239_L448_P0.128180.810
274_I303_L0.127660.807
437_Y442_F0.127620.807
186_G375_T0.127520.806
228_M456_V0.127450.805
371_V391_V0.127170.804
134_S137_I0.127160.804
405_A409_I0.127140.803
447_F450_T0.126980.802
255_K455_I0.126960.802
197_N415_S0.126830.802
408_L411_A0.126530.800
330_A382_A0.126480.799
130_G147_I0.126380.799
424_S429_A0.125950.796
143_R187_G0.125760.795
351_L355_G0.125710.794
119_P241_K0.12510.791
376_N424_S0.125050.790
201_A407_A0.12480.789
183_A188_M0.124780.789
119_P123_L0.124330.786
261_L264_M0.124140.785
88_I381_T0.124030.784
368_L457_I0.123910.783
196_P381_T0.12370.782
124_F128_L0.123680.782
439_F443_I0.123430.780
239_L242_P0.12340.780
97_A297_L0.123330.779
123_L156_C0.123310.779
131_L225_G0.123240.779
120_K123_L0.123230.779
280_L284_T0.12320.779
259_K313_D0.123190.779
111_L125_A0.123170.778
148_L153_L0.123150.778
242_P255_K0.12310.778
139_S196_P0.122830.776
261_L265_S0.122730.776
202_G217_W0.122660.775
308_I313_D0.122480.774
90_G296_A0.122340.773
330_A450_T0.122310.773
121_G125_A0.122030.771
305_L308_I0.121920.770
196_P415_S0.121610.769
154_S158_A0.121150.766
353_L365_V0.121140.766
110_W264_M0.121040.765
120_K233_W0.120960.764
312_K315_A0.12080.763
375_T417_A0.120410.761
341_G345_W0.120220.760
146_P150_P0.12010.759
374_L417_A0.120080.759
235_I449_L0.120020.758
111_L115_F0.119940.758
160_G163_P0.119880.758
235_I448_P0.119550.756
264_M269_K0.119530.755
118_S128_L0.119470.755
388_I407_A0.119050.752
311_W316_Q0.118860.751
182_A186_G0.118810.751
276_L280_L0.118780.751
90_G293_A0.118560.749
312_K318_K0.118540.749
368_L458_I0.118530.749
100_K316_Q0.118340.748
419_F427_P0.118220.747
140_T425_S0.118120.746
360_F363_V0.118070.746
102_G308_I0.117810.745
128_L132_L0.117720.744
270_K308_I0.117520.743
162_K243_D0.117460.742
201_A212_I0.117180.741
200_A334_G0.117180.741
83_P94_I0.117120.740
274_I281_L0.117070.740
141_T430_I0.116690.737
154_S157_E0.116460.736
263_P269_K0.116260.735
277_L302_L0.11620.734
255_K258_L0.116180.734
286_S290_I0.116030.733
131_L190_T0.1160.733
228_M232_M0.11590.732
232_M449_L0.115850.732
146_P152_L0.115710.731
80_F87_L0.115620.731
313_D316_Q0.115550.730
412_F416_F0.115190.728
352_P355_G0.114990.727
421_L424_S0.114950.726
432_Y439_F0.114940.726
425_S430_I0.114870.726
235_I238_K0.114860.726
452_I456_V0.114720.725
186_G193_G0.11470.725
383_T387_L0.114580.724
242_P245_K0.11450.724
221_A412_F0.114480.723
329_G333_L0.114280.722
330_A425_S0.114110.721
391_V406_L0.114070.721
419_F426_P0.114040.721
260_E263_P0.114020.721
362_V401_I0.114010.721
228_M449_L0.113510.717
401_I405_A0.113480.717
196_P425_S0.113410.717
79_G332_S0.113220.716
105_K308_I0.113190.715
134_S188_M0.113170.715
323_T433_G0.112980.714
396_A402_N0.112670.712
311_W315_A0.112460.711
360_F368_L0.112430.711
199_I297_L0.112360.710
190_T214_F0.112270.710
276_L348_N0.112150.709
343_A347_A0.1120.708
152_L156_C0.111850.707
78_S335_T0.111820.707
338_E343_A0.111590.705
283_I287_F0.111320.704
394_L397_A0.111220.703
255_K280_L0.111210.703
264_M270_K0.111050.702
351_L354_L0.110980.701
264_M268_E0.110970.701
95_G424_S0.110840.700
354_L362_V0.110830.700
225_G229_L0.110630.699
281_L285_E0.110570.699
186_G279_I0.11050.698
340_S343_A0.110440.698
381_T385_A0.110440.698
243_D247_L0.110030.695
392_I395_A0.109950.695
128_L233_W0.109730.693
391_V394_L0.109610.693
401_I406_L0.10950.692
372_L376_N0.109490.692
251_K273_V0.109330.691
274_I277_L0.108960.689
74_K78_S0.108290.684
142_A220_Y0.108250.684
133_L137_I0.108120.683
138_P143_R0.10810.683
187_G190_T0.108060.683
182_A420_L0.107830.681
131_L189_G0.10780.681
237_Y241_K0.107750.681
301_V306_P0.107630.680
428_N442_F0.107510.679
370_T391_V0.107420.679
270_K273_V0.10740.679
147_I152_L0.107310.678
331_L382_A0.107230.678
255_K302_L0.107140.677
428_N446_G0.106980.676
275_F282_W0.106920.676
316_Q325_F0.106880.675
342_A345_W0.106660.674
180_A428_N0.106630.674
262_G268_E0.106550.673
202_G205_E0.106370.672
141_T380_N0.106310.672
240_F249_D0.106190.671
108_A112_L0.105990.670
141_T426_P0.105890.669
245_K305_L0.105880.669
415_S426_P0.105790.669
319_I323_T0.105770.668
282_W296_A0.105670.668
266_K269_K0.10560.667
382_A385_A0.10550.667
128_L396_A0.105380.666
291_D294_I0.105330.666
180_A427_P0.105050.664
131_L186_G0.105040.664
381_T425_S0.105040.664
136_F145_A0.104980.663
269_K272_L0.104760.662
251_K451_I0.104680.662
336_A340_S0.104540.661
215_L278_T0.104470.660
146_P187_G0.104470.660
152_L183_A0.104310.659
367_L387_L0.104270.659
436_Y440_K0.10420.659
321_W326_L0.104140.658
428_N443_I0.104030.657
454_I457_I0.104010.657
425_S429_A0.103940.657
133_L143_R0.103850.656
445_Y448_P0.103780.656
102_G271_V0.103660.655
285_E292_P0.103510.654
198_L202_G0.10350.654
379_S417_A0.103480.654
158_A317_K0.103440.654
283_I290_I0.103380.653
204_L385_A0.103340.653
303_L307_G0.10320.652
232_M453_A0.103120.652
340_S386_I0.10310.652
362_V367_L0.103040.651
95_G381_T0.1030.651
446_G449_L0.102840.650
397_A441_D0.102820.650
111_L114_R0.102710.649
444_K455_I0.102680.649
334_G382_A0.102670.649
81_G103_L0.102580.648
334_G432_Y0.102450.647
102_G150_P0.10240.647
97_A301_V0.10240.647
193_G197_N0.102350.647
150_P197_N0.102180.646
325_F328_G0.101990.645
379_S383_T0.101750.643
101_T104_D0.101720.643
332_S336_A0.10170.643
270_K303_L0.101640.642
363_V405_A0.101610.642
245_K248_P0.101420.641
184_S187_G0.101360.641
143_R146_P0.101270.640
122_L126_I0.101240.640
359_P401_I0.101140.639
117_G251_K0.101130.639
395_A403_P0.101120.639
420_L446_G0.100980.638
117_G121_G0.100880.638
455_I458_I0.100860.637
442_F446_G0.100770.637
197_N384_V0.100750.637
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
4f35D0.92781000.237
4f35D0.484199.70.771
4g1uA0.46079.90.971
3tdsE0.47987.60.972
2rddB0.07866.20.973
3ixzA0.12745.90.973
2zxeA0.14014.80.974
4dveA0.34184.30.975
2gfpA0.20174.10.975
2ksfA0.22083.90.975

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