GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
UPF0104 - Uncharacterised protein family (UPF0104)
Pfam: PF03706 (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: 294
Sequences: 2438
Seq/Len: 8.29
HH_delta: 0.944 (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
42_L212_L0.251472.337
47_W104_A0.241322.243
250_P282_R0.238462.216
13_D16_E0.237982.212
46_R114_D0.23732.206
257_E282_R0.228982.128
258_A262_L0.228832.127
48_R52_R0.223842.081
43_R114_D0.212531.975
46_R109_R0.20981.950
256_F282_R0.203931.895
44_A64_L0.200081.860
35_L219_L0.199761.857
44_A60_F0.194271.806
59_S62_D0.193061.794
217_F260_F0.190731.773
18_W22_R0.189451.761
46_R206_S0.187621.744
70_G86_R0.186231.731
221_L277_A0.183181.703
86_R108_E0.17661.641
64_L68_F0.175361.630
25_N28_W0.172161.600
114_D210_W0.170511.585
229_S232_V0.168131.563
243_I259_A0.167561.557
240_A244_G0.164971.533
47_W86_R0.163371.518
256_F281_Y0.162761.513
218_Y222_R0.159861.486
125_A238_S0.159711.484
74_N83_E0.15881.476
204_L208_L0.158031.469
28_W219_L0.157691.466
62_D94_K0.156691.456
216_S281_Y0.156171.452
43_R80_R0.154941.440
278_A282_R0.153821.430
97_S100_D0.153271.425
24_A223_A0.152331.416
261_V274_A0.15221.415
83_E108_E0.151371.407
237_F240_A0.15121.405
34_L38_L0.151011.404
43_R210_W0.150221.396
58_I63_A0.149881.393
83_E109_R0.14981.392
32_A223_A0.149761.392
42_L205_L0.149441.389
28_W31_L0.149421.389
56_H96_I0.147971.375
142_L146_L0.146571.362
43_R83_E0.146051.357
83_E114_D0.145211.350
60_F64_L0.144151.340
80_R114_D0.143871.337
46_R209_S0.143641.335
80_R83_E0.142881.328
83_E86_R0.141591.316
35_L212_L0.141311.313
66_I89_L0.139771.299
108_E114_D0.139221.294
45_L205_L0.138491.287
27_W31_L0.137791.281
31_L219_L0.136851.272
31_L34_L0.136751.271
262_L265_S0.136571.269
274_A278_A0.136371.268
32_A284_I0.136291.267
270_P273_A0.13571.261
145_I149_A0.135681.261
261_V275_L0.135141.256
114_D206_S0.13421.247
109_R114_D0.134061.246
79_G256_F0.130491.213
86_R109_R0.129291.202
74_N82_G0.127881.189
249_T282_R0.126491.176
240_A252_G0.125731.169
256_F278_A0.12561.167
240_A260_F0.125361.165
282_R285_T0.124211.154
49_L205_L0.123721.150
118_L214_A0.12361.149
71_F281_Y0.12331.146
123_L127_L0.123191.145
260_F278_A0.122571.139
117_A207_L0.121661.131
26_P30_L0.121371.128
40_Y68_F0.12121.127
66_I70_G0.120781.123
250_P256_F0.120521.120
79_G82_G0.120341.119
28_W222_R0.120081.116
253_L282_R0.119891.114
200_L204_L0.11921.108
212_L290_L0.118751.104
30_L34_L0.118321.100
120_L127_L0.117761.095
209_S247_P0.117751.094
43_R209_S0.116861.086
57_R61_R0.116081.079
72_F289_P0.11561.074
207_L211_L0.114771.067
46_R108_E0.114651.066
77_T82_G0.114631.065
252_G260_F0.114521.064
25_N30_L0.11421.061
80_R86_R0.11371.057
244_G282_R0.113661.056
74_N118_L0.113611.056
16_E272_A0.113311.053
24_A280_L0.113131.052
278_A281_Y0.112741.048
251_G256_F0.112531.046
184_R187_E0.112061.042
123_L126_L0.111491.036
269_V274_A0.111061.032
47_W90_L0.110991.032
223_A284_I0.110851.030
221_L226_I0.110841.030
139_V270_P0.109971.022
213_Y285_T0.109721.020
216_S284_I0.109441.017
251_G286_Y0.108861.012
47_W281_Y0.108581.009
117_A206_S0.108411.008
120_L128_L0.108361.007
19_D23_S0.108121.005
47_W83_E0.107611.000
86_R105_V0.107360.998
47_W108_E0.107280.997
143_L150_L0.107280.997
43_R282_R0.107120.996
98_R101_A0.106960.994
32_A216_S0.106890.994
212_L216_S0.106840.993
211_L215_L0.106590.991
38_L212_L0.106180.987
265_S268_G0.10570.982
269_V273_A0.105020.976
210_W213_Y0.104960.976
28_W223_A0.104940.975
221_L269_V0.104660.973
220_I223_A0.104650.973
62_D65_R0.104540.972
22_R27_W0.104130.968
44_A63_A0.103980.966
42_L208_L0.103970.966
33_L288_L0.103750.964
43_R109_R0.103590.963
38_L246_I0.103580.963
250_P278_A0.10340.961
32_A288_L0.103160.959
173_R177_K0.102870.956
209_S213_Y0.102820.956
255_V258_A0.102770.955
32_A220_I0.102530.953
75_N290_L0.102510.953
198_L234_L0.102210.950
29_L220_I0.10220.950
257_E279_L0.102110.949
80_R210_W0.101830.946
18_W21_L0.10150.943
217_F264_L0.101430.943
216_S285_T0.101230.941
85_V89_L0.101210.941
86_R287_F0.100930.938
40_Y71_F0.10070.936
36_S216_S0.100540.934
87_A102_F0.100390.933
80_R282_R0.100320.932
87_A101_A0.100180.931
91_K98_R0.100050.930
43_R108_E0.099880.928
135_F142_L0.099690.927
77_T84_V0.099550.925
51_L96_I0.099540.925
43_R213_Y0.099370.924
96_I101_A0.099310.923
281_Y285_T0.098910.919
120_L123_L0.098910.919
99_S136_S0.098820.919
264_L274_A0.098580.916
151_I178_L0.098470.915
215_L230_F0.098230.913
19_D22_R0.098090.912
217_F277_A0.0980.911
46_R83_E0.097620.907
244_G286_Y0.097590.907
251_G285_T0.097270.904
43_R256_F0.097210.904
36_S213_Y0.097170.903
37_L41_V0.097150.903
51_L90_L0.096890.901
47_W80_R0.096880.900
73_L118_L0.096820.900
63_A73_L0.096550.897
141_I144_G0.096470.897
90_L101_A0.096460.897
236_A263_L0.096150.894
114_D282_R0.096130.894
114_D256_F0.096020.892
60_F208_L0.095960.892
57_R211_L0.095630.889
30_L61_R0.09530.886
48_R63_A0.095230.885
120_L203_F0.094830.881
194_R197_R0.094710.880
218_Y221_L0.09470.880
151_I215_L0.094690.880
87_A257_E0.094470.878
33_L116_L0.094410.878
29_L280_L0.094080.874
40_Y242_L0.094040.874
252_G257_E0.093680.871
125_A235_L0.093550.870
90_L105_V0.093530.869
47_W78_P0.093530.869
67_S209_S0.093480.869
220_I281_Y0.093420.868
52_R197_R0.093290.867
203_F230_F0.092780.862
183_D187_E0.092750.862
41_V60_F0.092550.860
63_A67_S0.092480.860
96_I100_D0.092350.858
47_W286_Y0.092090.856
259_A262_L0.091870.854
45_L48_R0.091650.852
57_R142_L0.091380.849
33_L284_I0.091110.847
16_E19_D0.091020.846
44_A48_R0.091010.846
240_A243_I0.090760.844
180_E183_D0.090740.843
114_D209_S0.090480.841
71_F213_Y0.090440.841
105_V114_D0.090040.837
19_D196_R0.089920.836
201_I204_L0.089890.836
77_T282_R0.089860.835
51_L63_A0.089820.835
244_G247_P0.089770.834
86_R253_L0.089660.833
116_L157_L0.089650.833
69_I89_L0.089630.833
221_L228_I0.089610.833
86_R256_F0.089590.833
43_R46_R0.089380.831
78_P247_P0.088820.826
86_R114_D0.088250.820
235_L245_A0.087980.818
49_L201_I0.087910.817
181_W184_R0.087790.816
109_R185_F0.087770.816
257_E278_A0.087730.815
193_S243_I0.087660.815
73_L77_T0.087620.814
138_T145_I0.087570.814
77_T108_E0.087420.813
34_L231_A0.087340.812
46_R249_T0.08730.811
46_R86_R0.087190.810
51_L210_W0.087160.810
210_W250_P0.087140.810
106_L199_L0.086990.809
252_G282_R0.086860.807
28_W78_P0.086790.807
58_I246_I0.086790.807
210_W251_G0.086750.806
80_R241_M0.086710.806
254_G257_E0.086680.806
20_A272_A0.086360.803
39_S216_S0.086320.802
33_L124_L0.086240.802
26_P229_S0.086210.801
194_R229_S0.0860.799
209_S256_F0.085930.799
39_S285_T0.085880.798
23_S149_A0.085680.796
108_E249_T0.085670.796
249_T278_A0.085610.796
85_V88_Y0.085560.795
143_L280_L0.085450.794
12_I17_L0.085280.793
50_L202_A0.085270.793
36_S220_I0.085260.792
256_F287_F0.085110.791
77_T83_E0.084880.789
14_L17_L0.084740.788
55_G97_S0.084610.786
260_F274_A0.084570.786
148_A152_L0.08450.785
60_F196_R0.084490.785
79_G283_L0.084430.785
22_R26_P0.08440.784
36_S46_R0.084340.784
15_K211_L0.084220.783
214_A234_L0.084170.782
105_V109_R0.083930.780
75_N286_Y0.083820.779
78_P285_T0.083790.779
100_D104_A0.083620.777
39_S43_R0.083460.776
17_L234_L0.083430.775
218_Y230_F0.083350.775
243_I255_V0.083340.775
267_F280_L0.083340.775
178_L181_W0.082880.770
65_R69_I0.082780.769
249_T255_V0.082580.768
109_R242_L0.082490.767
271_A276_A0.082480.767
89_L289_P0.082460.766
47_W278_A0.082440.766
17_L276_A0.082320.765
36_S259_A0.082290.765
38_L173_R0.082220.764
73_L85_V0.082120.763
36_S281_Y0.082030.762
77_T281_Y0.082020.762
250_P255_V0.081940.762
227_D230_F0.081890.761
256_F285_T0.081620.759
67_S78_P0.081580.758
25_N223_A0.081570.758
14_L290_L0.081550.758
231_A234_L0.081480.757
106_L197_R0.081410.757
61_R65_R0.081340.756
40_Y221_L0.081180.755
55_G58_I0.081170.754
118_L213_Y0.080980.753
39_S209_S0.080860.752
43_R81_A0.080790.751
131_S135_F0.080780.751
215_L219_L0.080780.751
282_R287_F0.080660.750
83_E105_V0.080570.749
73_L260_F0.080450.748
43_R67_S0.080370.747
16_E30_L0.080270.746
83_E289_P0.080180.745
216_S259_A0.080140.745
33_L38_L0.080050.744
113_L206_S0.079950.743
39_S217_F0.079920.743
36_S284_I0.079790.742
146_L153_L0.079770.741
15_K18_W0.079750.741
58_I66_I0.079630.740
80_R281_Y0.07960.740
151_I157_L0.079570.740
154_F259_A0.079430.738
213_Y217_F0.07940.738
72_F247_P0.079330.737
71_F289_P0.079330.737
78_P209_S0.079160.736
222_R225_G0.078920.734
149_A159_R0.078730.732
27_W30_L0.078730.732
51_L89_L0.078670.731
255_V278_A0.078610.731
127_L150_L0.078570.730
237_F260_F0.078550.730
69_I261_V0.078340.728
76_I79_G0.078230.727
75_N257_E0.07820.727
47_W256_F0.078190.727
47_W249_T0.078160.726
46_R250_P0.078080.726
144_G147_L0.077960.725
85_V241_M0.077950.725
236_A283_L0.077910.724
173_R180_E0.07790.724
210_W241_M0.077730.722
260_F277_A0.077710.722
229_S233_A0.077540.721
114_D213_Y0.077520.721
178_L182_I0.07740.719
39_S77_T0.077280.718
84_V286_Y0.077180.717
128_L151_I0.077090.717
57_R124_L0.077090.717
51_L104_A0.076990.716
142_L150_L0.076870.714
51_L262_L0.076840.714
286_Y289_P0.076790.714
47_W71_F0.076740.713
83_E282_R0.07660.712
131_S134_L0.076510.711
278_A286_Y0.076470.711
72_F210_W0.076390.710
43_R47_W0.076360.710
101_A247_P0.076350.710
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:
PDB Cov Prob HH_delta
3aqpA0.588420.10.944
2zy9A0.387817.60.945
4dx5A0.615610.20.95
3w9iA0.5856.50.954
3pjsK0.38444.60.957
4j05A0.9663.80.959
3ukmA0.51730.961
1zzwA0.17012.60.962
3zuxA0.82652.30.963
2l8sA0.17692.10.963
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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