GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Glyco_transf_56 - 4-alpha-L-fucosyltransferase glycosyl transferase group 56
Pfam: PF07429 (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: CL0113
Length: 360
Sequences: 13936
Seq/Len: 38.71
HH_delta: 0.202 (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
188_I266_C1.886464.442
83_F353_L1.728214.070
216_K249_I1.565753.687
269_G285_L1.244982.932
207_L217_I1.228712.893
231_I235_I1.185932.793
40_M79_A1.175082.767
184_G216_K1.087722.561
305_K311_V1.042652.455
186_L218_I1.010522.380
209_Q324_R1.006762.371
40_M77_D0.987762.326
35_Q347_Q0.983672.316
218_I251_T0.973072.291
189_L200_H0.960522.262
319_D322_L0.959262.259
297_D302_Q0.958382.257
199_N202_E0.952552.243
220_P262_L0.946532.229
209_Q321_A0.930892.192
211_F246_N0.895862.110
145_R148_L0.88272.079
258_E261_A0.882382.078
186_L216_K0.867682.043
306_E309_I0.850472.003
269_G290_K0.843291.986
187_T268_L0.837521.972
37_R350_R0.836261.969
205_E237_A0.834321.965
331_A334_D0.824881.942
83_F109_H0.806591.899
327_Q331_A0.798661.881
344_N348_G0.795051.872
26_V29_P0.790941.862
316_D322_L0.790841.862
203_A217_I0.785831.850
312_L326_A0.782391.842
205_E320_E0.768551.810
35_Q350_R0.766751.806
289_G335_K0.763061.797
322_L326_A0.761811.794
320_E324_R0.759581.789
203_A270_I0.747821.761
234_V239_K0.745181.755
297_D316_D0.740271.743
26_V346_L0.735291.731
185_K267_D0.73461.730
140_H352_A0.729161.717
344_N347_Q0.712041.677
26_V343_P0.688631.622
190_V259_Y0.681541.605
220_P251_T0.676781.594
294_L314_Y0.667281.571
186_L265_R0.657431.548
259_Y263_L0.655161.543
329_Q333_V0.650831.533
234_V250_L0.650331.531
148_L152_Q0.649291.529
279_I283_C0.648441.527
260_L288_L0.641341.510
199_N274_N0.638231.503
218_I249_I0.6361.498
207_L215_V0.621941.465
218_I266_C0.61851.456
306_E310_P0.613611.445
266_C290_K0.606971.429
328_R332_N0.605251.425
348_G351_Q0.604891.424
205_E233_Q0.604351.423
186_L267_D0.603671.422
193_S219_V0.600781.415
84_L106_C0.595871.403
24_N41_V0.59351.398
210_Q215_V0.588341.385
85_H111_W0.588221.385
333_V336_Q0.586881.382
81_K353_L0.582041.371
309_I333_V0.578991.363
198_N277_Q0.575221.355
21_R25_D0.573761.351
256_F259_Y0.573151.350
28_A36_K0.570541.343
273_H277_Q0.569951.342
108_W138_V0.568091.338
142_F352_A0.567731.337
232_Q236_Q0.562661.325
294_L301_W0.562021.323
209_Q212_G0.560241.319
232_Q235_I0.556561.311
282_I301_W0.556531.311
206_A323_V0.554131.305
73_K77_D0.551591.299
187_T270_I0.548271.291
342_A346_L0.547261.289
218_I262_L0.547051.288
145_R149_A0.544871.283
295_S315_G0.544691.283
299_P302_Q0.540361.272
316_D319_D0.538121.267
256_F262_L0.536691.264
233_Q237_A0.534071.258
26_V35_Q0.533991.257
84_L108_W0.528221.244
142_F349_W0.525121.237
263_L281_N0.5241.234
341_F344_N0.520841.226
294_L305_K0.519761.224
181_K184_G0.518451.221
190_V220_P0.51661.216
24_N28_A0.516431.216
332_N336_Q0.515211.213
144_T147_D0.515131.213
74_A79_A0.510251.202
198_N281_N0.509811.200
269_G281_N0.507821.196
165_F168_R0.50771.196
163_L166_P0.504831.189
347_Q351_Q0.504251.187
187_T207_L0.502051.182
209_Q320_E0.501811.182
331_A335_K0.50031.178
300_F303_D0.500021.177
345_Y348_G0.497581.172
200_H219_V0.497321.171
234_V238_G0.496291.169
290_K331_A0.494481.164
192_N197_S0.491421.157
185_K268_L0.490861.156
201_I274_N0.49051.155
315_G326_A0.489911.154
322_L325_E0.487281.147
251_T262_L0.485031.142
321_A325_E0.484871.142
238_G250_L0.483261.138
271_F281_N0.482261.136
186_L266_C0.481031.133
190_V263_L0.480961.133
285_L290_K0.480831.132
264_S288_L0.480411.131
201_I205_E0.478651.127
271_F282_I0.472591.113
282_I304_L0.471941.111
208_K237_A0.460861.085
230_Y233_Q0.460631.085
198_N273_H0.459361.082
342_A345_Y0.45921.081
20_L85_H0.457261.077
188_I220_P0.454871.071
194_G197_S0.448091.055
144_T148_L0.444491.047
277_Q280_G0.443981.045
71_I75_K0.439991.036
185_K214_D0.439881.036
72_A76_A0.439221.034
19_V111_W0.438491.033
188_I262_L0.437871.031
263_L288_L0.434331.023
329_Q332_N0.433831.022
161_S164_Y0.431891.017
218_I265_R0.430531.014
272_N295_S0.428461.009
22_F25_D0.425711.002
145_R303_D0.424731.000
233_Q238_G0.424320.999
149_A152_Q0.423540.997
23_F349_W0.418690.986
286_L292_V0.418670.986
202_E318_L0.416460.981
233_Q236_Q0.415830.979
289_G332_N0.415490.978
208_K212_G0.414170.975
71_I100_K0.412870.972
37_R80_D0.411930.970
138_V141_V0.410740.967
343_P347_Q0.410670.967
176_S265_R0.410420.966
330_L333_V0.40980.965
305_K310_P0.407630.960
202_E320_E0.407590.960
149_A153_Q0.405920.956
94_L98_F0.403310.950
197_S275_R0.401340.945
345_Y349_W0.400430.943
164_Y167_T0.399950.942
282_I294_L0.399030.940
307_Q310_P0.398850.939
185_K215_V0.397970.937
105_K139_G0.396880.935
199_N272_N0.395650.932
146_G149_A0.394860.930
286_L331_A0.39350.927
230_Y234_V0.391970.923
71_I101_I0.391920.923
188_I263_L0.390910.921
36_K39_F0.390230.919
282_I292_V0.389310.917
349_W353_L0.389160.916
28_A39_F0.388880.916
176_S179_N0.388870.916
107_Y142_F0.38860.915
295_S298_N0.386750.911
176_S180_K0.385660.908
202_E205_E0.385060.907
315_G322_L0.384820.906
223_Y253_F0.382820.901
184_G214_D0.381810.899
312_L330_L0.378730.892
189_L269_G0.377270.888
189_L272_N0.374980.883
157_R160_A0.374860.883
228_Q231_I0.374280.881
216_K246_N0.373720.880
209_Q213_D0.37220.876
311_V315_G0.371030.874
85_H109_H0.370910.873
271_F280_G0.369540.870
194_G225_A0.368480.868
201_I233_Q0.367930.866
346_L350_R0.367320.865
261_A264_S0.366280.863
230_Y239_K0.365960.862
217_I247_F0.36580.861
19_V109_H0.364230.858
79_A104_K0.363850.857
175_L265_R0.362660.854
260_L264_S0.362210.853
202_E274_N0.361960.852
327_Q334_D0.361610.852
283_C340_F0.36090.850
279_I340_F0.358740.845
158_V161_S0.356790.840
263_L290_K0.355980.838
205_E209_Q0.355590.837
315_G323_V0.355430.837
143_A147_D0.353310.832
175_L178_K0.353310.832
256_F260_L0.352620.830
271_F301_W0.352270.830
187_T215_V0.352030.829
159_P163_L0.351610.828
187_T217_I0.350750.826
311_V314_Y0.350470.825
268_L293_F0.349640.823
341_F345_Y0.348410.820
286_L334_D0.34840.820
27_L37_R0.345730.814
67_A72_A0.345550.814
112_G197_S0.34490.812
35_Q346_L0.342590.807
273_H284_L0.342510.807
83_F349_W0.342120.806
207_L246_N0.341920.805
306_E311_V0.341850.805
285_L292_V0.341040.803
293_F326_A0.340320.801
347_Q350_R0.340010.801
330_L334_D0.339530.800
185_K188_I0.339470.799
175_L179_N0.339410.799
234_V237_A0.339380.799
205_E208_K0.339360.799
29_P36_K0.33890.798
230_Y238_G0.338420.797
328_R331_A0.337120.794
298_N301_W0.337050.794
206_A270_I0.334490.788
323_V326_A0.332640.783
280_G301_W0.332310.783
42_V73_K0.331620.781
107_Y353_L0.328620.774
79_A82_F0.328450.773
202_E295_S0.328330.773
280_G283_C0.327360.771
327_Q330_L0.327040.770
182_N185_K0.326020.768
310_P334_D0.324920.765
97_L101_I0.324230.763
148_L151_F0.322880.760
139_G142_F0.32270.760
210_Q324_R0.320880.756
181_K216_K0.320750.755
332_N335_K0.319210.752
73_K76_A0.319170.752
178_K261_A0.318950.751
262_L265_R0.318230.749
259_Y262_L0.316820.746
189_L203_A0.315630.743
64_K68_Q0.314960.742
22_F342_A0.314680.741
28_A37_R0.311740.734
84_L94_L0.310720.732
202_E206_A0.30990.730
164_Y168_R0.309710.729
286_L310_P0.309290.728
206_A324_R0.309180.728
307_Q312_L0.307890.725
273_H278_G0.307790.725
291_K331_A0.307590.724
229_A232_Q0.307520.724
204_L238_G0.306330.721
192_N198_N0.30540.719
236_Q239_K0.305110.718
261_A265_R0.304920.718
189_L219_V0.304590.717
107_Y111_W0.304440.717
208_K211_F0.303710.715
183_K186_L0.303570.715
207_L210_Q0.303040.714
29_P35_Q0.301450.710
195_D201_I0.300750.708
315_G319_D0.300630.708
161_S165_F0.300120.707
81_K107_Y0.300040.707
272_N323_V0.298050.702
18_T22_F0.296450.698
206_A210_Q0.295940.697
160_A164_Y0.295930.697
98_F102_K0.295170.695
307_Q326_A0.295070.695
105_K108_W0.293330.691
293_F315_G0.291850.687
228_Q232_Q0.291580.687
203_A272_N0.291530.686
163_L167_T0.291190.686
20_L41_V0.290890.685
295_S317_E0.290830.685
268_L291_K0.29010.683
319_D323_V0.289920.683
235_I239_K0.28730.677
192_N281_N0.286880.676
281_N285_L0.28630.674
187_T192_N0.286230.674
201_I237_A0.285910.673
35_Q343_P0.285820.673
321_A324_R0.285670.673
270_I323_V0.284210.669
204_L247_F0.283980.669
179_N265_R0.282790.666
233_Q239_K0.282710.666
82_F98_F0.280420.660
23_F26_V0.27970.659
199_N295_S0.27870.656
131_R135_Q0.278480.656
231_I234_V0.277470.653
111_W143_A0.277420.653
305_K314_Y0.275920.650
99_G102_K0.275540.649
219_V247_F0.275480.649
197_S278_G0.274790.647
40_M56_N0.27470.647
99_G137_R0.274310.646
246_N249_I0.274260.646
29_P343_P0.273450.644
262_L266_C0.273150.643
75_K101_I0.272920.643
188_I290_K0.272410.641
143_A278_G0.271960.640
339_A348_G0.271770.640
235_I240_E0.271720.640
202_E323_V0.271570.639
42_V79_A0.271310.639
267_D327_Q0.270590.637
150_Y153_Q0.270420.637
203_A207_L0.269420.634
348_G352_A0.269310.634
109_H349_W0.269060.634
129_F132_R0.268250.632
24_N39_F0.268050.631
85_H353_L0.267760.631
130_L133_L0.26760.630
204_L234_V0.267360.630
140_H161_S0.267270.629
224_G230_Y0.266740.628
256_F261_A0.266530.628
318_L323_V0.266480.628
289_G331_A0.266440.627
168_R172_A0.266260.627
159_P162_L0.265970.626
156_P159_P0.265730.626
283_C304_L0.264030.622
159_P164_Y0.263330.620
180_K265_R0.263110.620
282_I286_L0.262470.618
208_K240_E0.262140.617
95_A99_G0.261380.615
310_P333_V0.261110.615
133_L136_K0.260660.614
98_F139_G0.260610.614
144_T151_F0.259830.612
211_F215_V0.258890.610
268_L327_Q0.258850.610
22_F26_V0.258530.609
106_C138_V0.25850.609
273_H281_N0.258090.608
18_T21_R0.258090.608
19_V23_F0.257620.607
157_R161_S0.257160.606
19_V85_H0.256690.604
279_I301_W0.256580.604
160_A165_F0.255390.601
109_H281_N0.254170.599
132_R136_K0.253820.598
187_T293_F0.253160.596
260_L263_L0.252940.596
263_L285_L0.251820.593
135_Q138_V0.251790.593
147_D150_Y0.251470.592
297_D314_Y0.25050.590
190_V269_G0.249960.589
24_N36_K0.249890.588
293_F312_L0.249260.587
177_E182_N0.24910.587
26_V342_A0.24830.585
291_K327_Q0.247680.583
179_N218_I0.247440.583
176_S267_D0.246820.581
125_R129_F0.246630.581
143_A148_L0.246320.580
206_A320_E0.245440.578
23_F85_H0.245420.578
94_L97_L0.245020.577
171_P174_T0.243070.572
159_P165_F0.242170.570
190_V281_N0.242110.570
174_T177_E0.241930.570
111_W114_D0.241890.570
162_L165_F0.241690.569
215_V246_N0.241420.568
349_W352_A0.241230.568
240_E245_E0.240160.566
271_F294_L0.238860.562
53_P56_N0.238420.561
220_P266_C0.238360.561
339_A344_N0.23830.561
146_G150_Y0.23830.561
23_F346_L0.23750.559
278_G300_F0.237190.559
235_I238_G0.236740.557
193_S200_H0.235970.556
100_K103_L0.23560.555
111_W198_N0.235470.554
237_A240_E0.235040.553
200_H204_L0.233630.550
82_F104_K0.232960.549
274_N318_L0.232940.549
220_P256_F0.232750.548
175_L262_L0.232170.547
96_L100_K0.232140.547
270_I293_F0.231290.545
179_N262_L0.231120.544
174_T178_K0.230770.543
170_D174_T0.230550.543
213_D325_E0.230510.543
49_Q52_Y0.230110.542
197_S273_H0.229480.540
177_E180_K0.228780.539
86_G90_P0.228370.538
198_N285_L0.228220.537
173_L177_E0.227930.537
335_K338_I0.227630.536
129_F133_L0.227430.536
269_G272_N0.227190.535
17_Q21_R0.22710.535
293_F323_V0.226180.533
214_D246_N0.226130.532
106_C139_G0.226070.532
186_L251_T0.225820.532
189_L281_N0.225060.530
27_L39_F0.225030.530
206_A209_Q0.22360.527
37_R346_L0.223590.527
23_F27_L0.223540.526
74_A82_F0.222920.525
315_G318_L0.221760.522
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
2r60A0.96391000.202
3c48A0.95281000.204
3froA0.951000.209
1rzuA0.94441000.221
2qzsA0.94721000.236
2iuyA0.84721000.248
2gekA0.92781000.249
2x6qA0.91391000.255
3okpA0.92781000.259
2jjmA0.93611000.268

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