GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
7TM_GPCR_Sra - Serpentine type 7TM GPCR chemoreceptor Sra
Pfam: PF02117 (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: CL0192
Length: 328
Sequences: 23404
Seq/Len: 71.35
HH_delta: 0.316 (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
76_I80_S0.846272.348
132_F135_Y0.834392.316
61_S152_L0.804962.234
99_S103_P0.789972.192
195_V203_V0.773592.147
28_L31_I0.763032.117
76_I79_W0.733482.035
75_I78_I0.720882.001
157_I160_F0.710011.970
142_I146_I0.691391.919
98_S102_F0.678691.883
31_I224_S0.659391.830
200_N203_V0.65911.829
204_S208_M0.639331.774
31_I222_V0.637081.768
62_N66_A0.628771.745
77_Q80_S0.608191.688
197_T200_N0.599551.664
200_N208_M0.596851.656
210_Y213_K0.594621.650
45_L60_I0.58841.633
46_W60_I0.587931.632
75_I79_W0.587221.630
206_F209_Y0.585261.624
61_S118_I0.581881.615
78_I81_L0.576341.599
121_A151_V0.570991.585
148_S152_L0.566641.572
200_N204_S0.563931.565
97_T100_E0.561581.558
209_Y212_K0.559571.553
127_L131_F0.556171.543
152_L157_I0.553571.536
106_Y110_F0.552661.534
65_F115_M0.550731.528
288_L292_I0.542961.507
127_L132_F0.535321.486
241_I245_Q0.532941.479
128_L139_K0.532311.477
184_N188_I0.529321.469
51_F56_R0.524941.457
195_V200_N0.523631.453
211_N214_K0.521731.448
68_I111_T0.520651.445
64_L68_I0.517271.435
239_C243_I0.51711.435
145_I149_I0.509931.415
184_N187_N0.506171.405
75_I80_S0.506141.405
238_I241_I0.505741.403
65_F114_G0.505451.403
60_I64_L0.504221.399
196_L200_N0.496211.377
197_T201_L0.494681.373
160_F163_Y0.494281.372
73_Y77_Q0.493281.369
199_F203_V0.487381.353
34_T286_L0.486031.349
41_A293_I0.485291.347
73_Y79_W0.48221.338
207_L210_Y0.480121.332
171_Y273_N0.473921.315
101_C175_C0.469241.302
48_K302_Q0.467561.298
160_F164_W0.463431.286
39_V43_K0.463341.286
42_I60_I0.462831.284
204_S207_L0.462061.282
212_K215_E0.459821.276
99_S102_F0.456741.267
247_I251_I0.452941.257
40_F44_K0.451211.252
186_F190_L0.450211.249
203_V206_F0.449571.248
238_I242_S0.443541.231
121_A147_L0.442251.227
205_I208_M0.433831.204
203_V207_L0.432611.201
132_F139_K0.432451.200
74_A78_I0.429221.191
238_I245_Q0.426171.183
116_I120_F0.425421.181
203_V212_K0.425191.180
135_Y138_K0.419081.163
192_V195_V0.417411.158
302_Q305_R0.417251.158
140_S143_I0.414071.149
208_M211_N0.409311.136
245_Q251_I0.409181.136
244_S291_L0.408241.133
183_V187_N0.406991.129
125_D129_A0.406161.127
135_Y139_K0.405181.124
146_I149_I0.40431.122
163_Y166_D0.403681.120
151_V157_I0.402561.117
210_Y216_K0.399081.107
39_V67_N0.396431.100
63_L66_A0.396151.099
74_A79_W0.394781.096
146_I150_L0.392991.091
80_S89_D0.392611.090
240_I244_S0.38981.082
245_Q248_C0.389241.080
268_P271_F0.3851.068
241_I244_S0.384991.068
183_V186_F0.384551.067
73_Y80_S0.384081.066
144_G148_S0.382561.062
197_T203_V0.382391.061
195_V206_F0.382351.061
44_K299_I0.381831.060
143_I147_L0.380221.055
202_I207_L0.377721.048
301_R304_K0.377261.047
250_F254_F0.377231.047
200_N205_I0.376891.046
53_N56_R0.376261.044
195_V198_I0.374231.039
31_I162_I0.37391.038
31_I223_N0.373871.038
149_I152_L0.373851.037
260_R263_R0.371141.030
246_F250_F0.369751.026
81_L89_D0.369441.025
143_I148_S0.369261.025
157_I161_I0.367451.020
245_Q249_M0.364031.010
73_Y78_I0.363411.008
249_M281_F0.363361.008
144_G152_L0.36191.004
248_C251_I0.361471.003
149_I153_I0.359930.999
163_Y167_P0.359440.997
114_G155_S0.359350.997
74_A77_Q0.358940.996
196_L203_V0.357410.992
141_Y145_I0.356570.990
242_S246_F0.356150.988
73_Y76_I0.355920.988
57_I61_S0.355640.987
188_I193_C0.355560.987
201_L205_I0.355510.987
210_Y214_K0.355450.986
283_Y287_S0.355330.986
195_V202_I0.355130.986
110_F156_F0.355080.985
41_A299_I0.354090.983
103_P107_F0.354090.983
145_I148_S0.353510.981
33_I286_L0.35270.979
203_V208_M0.352470.978
43_K47_K0.352450.978
35_F67_N0.35230.978
212_K216_K0.351520.976
77_Q81_L0.351450.975
263_R273_N0.3510.974
130_T134_K0.350730.973
189_F193_C0.349910.971
188_I191_I0.34720.964
208_M214_K0.345380.958
209_Y213_K0.343580.953
166_D169_D0.340370.945
202_I210_Y0.339620.942
242_S245_Q0.339520.942
151_V154_L0.339350.942
207_L211_N0.337370.936
200_N207_L0.336750.935
211_N215_E0.336750.935
202_I206_F0.335830.932
129_A136_Y0.335120.930
200_N206_F0.333350.925
147_L151_V0.332660.923
203_V211_N0.332590.923
258_I262_F0.331220.919
129_A133_P0.331030.919
46_W61_S0.330250.916
247_I250_F0.329520.914
252_Y255_G0.328640.912
267_S272_H0.327860.910
187_N190_L0.327690.909
96_F100_E0.326820.907
116_I253_S0.323160.897
55_T59_L0.323030.896
118_I148_S0.322850.896
215_E218_T0.322330.894
243_I247_I0.322120.894
261_N264_S0.322030.894
61_S148_S0.321150.891
185_R189_F0.320690.890
212_K217_K0.320090.888
105_Y108_Y0.319950.888
41_A45_L0.317990.882
160_F166_D0.31680.879
267_S271_F0.316720.879
195_V211_N0.316660.879
267_S270_T0.316610.879
109_Y112_N0.316370.878
156_F160_F0.316160.877
202_I209_Y0.314510.873
35_F38_S0.314440.873
210_Y218_T0.313970.871
65_F111_T0.313210.869
213_K218_T0.312530.867
210_Y219_R0.311810.865
185_R188_I0.311150.863
45_L52_S0.310420.861
57_I148_S0.30910.858
195_V205_I0.309030.858
257_F261_N0.308330.856
262_F272_H0.308060.855
208_M215_E0.307330.853
30_I286_L0.30690.852
244_S249_M0.305820.849
259_L263_R0.30520.847
257_F260_R0.304880.846
32_I36_I0.304860.846
122_L238_I0.304120.844
45_L51_F0.303470.842
164_W167_P0.301030.835
73_Y81_L0.300640.834
197_T205_I0.300540.834
176_F179_P0.300180.833
178_P181_N0.299330.831
41_A63_L0.299320.831
271_F274_I0.297330.825
291_L295_R0.297160.825
79_W90_D0.296270.822
78_I90_D0.295720.821
243_I246_F0.294740.818
159_G163_Y0.294080.816
187_N191_I0.294060.816
179_P182_S0.293390.814
66_A288_L0.292120.811
42_I67_N0.291410.809
241_I249_M0.290990.808
273_N277_W0.290870.807
117_F154_L0.287930.799
106_Y109_Y0.28750.798
244_S248_C0.287130.797
80_S90_D0.285930.793
115_M252_Y0.285450.792
257_F262_F0.284580.790
102_F164_W0.283950.788
158_T161_I0.283370.786
195_V199_F0.283310.786
196_L206_F0.281470.781
105_Y109_Y0.280350.778
48_K305_R0.280210.778
273_N278_F0.280180.778
213_K216_K0.279310.775
186_F189_F0.27870.773
198_I203_V0.27760.770
161_I165_D0.277060.769
29_I33_I0.277020.769
214_K217_K0.276930.769
262_F267_S0.276190.766
107_F111_T0.275810.765
243_I251_I0.275640.765
268_P272_H0.274950.763
240_I295_R0.274880.763
274_I277_W0.273760.760
272_H275_V0.273550.759
239_C242_S0.272370.756
31_I75_I0.272080.755
293_I296_I0.272060.755
197_T212_K0.271720.754
266_I271_F0.271530.754
209_Y214_K0.270330.750
48_K51_F0.270280.750
58_L122_L0.269540.748
144_G147_L0.269380.748
28_L224_S0.269090.747
283_Y286_L0.268690.746
43_K46_W0.268210.744
208_M212_K0.267710.743
115_M123_T0.267480.742
35_F39_V0.267380.742
160_F167_P0.266790.740
239_C245_Q0.2660.738
75_I90_D0.265330.736
109_Y113_S0.264410.734
270_T273_N0.264070.733
152_L158_T0.263680.732
195_V201_L0.263550.731
274_I278_F0.263510.731
143_I146_I0.263270.731
31_I160_F0.262190.728
298_R305_R0.261950.727
204_S210_Y0.261950.727
199_F205_I0.261810.727
300_R304_K0.261350.725
269_E272_H0.261330.725
266_I270_T0.260360.723
143_I152_L0.260160.722
129_A134_K0.259250.719
157_I163_Y0.258580.718
162_I165_D0.258450.717
259_L262_F0.25820.717
163_Y168_L0.257690.715
301_R305_R0.257620.715
33_I36_I0.257580.715
238_I253_S0.257080.713
110_F113_S0.256850.713
113_S155_S0.256560.712
204_S211_N0.255860.710
108_Y112_N0.255740.710
262_F265_S0.255570.709
68_I107_F0.255550.709
206_F210_Y0.25540.709
263_R272_H0.255210.708
198_I205_I0.25480.707
187_N193_C0.254450.706
264_S267_S0.254230.706
142_I145_I0.2540.705
288_L296_I0.25370.704
63_L288_L0.252770.701
240_I245_Q0.251080.697
136_Y139_K0.250840.696
241_I253_S0.250550.695
125_D136_Y0.250460.695
42_I46_W0.250410.695
113_S117_F0.249540.692
200_N210_Y0.249120.691
58_L295_R0.248850.691
200_N209_Y0.248790.690
192_V200_N0.24840.689
174_S177_Y0.248140.689
44_K303_R0.247680.687
197_T211_N0.247190.686
202_I205_I0.247110.686
186_F193_C0.246950.685
79_W89_D0.246660.685
199_F206_F0.246540.684
65_F113_S0.246360.684
191_I195_V0.244240.678
244_S287_S0.24340.675
37_F63_L0.2430.674
41_A288_L0.242790.674
158_T162_I0.242630.673
47_K52_S0.242160.672
195_V218_T0.242060.672
54_S104_Y0.241970.671
156_F159_G0.241740.671
216_K219_R0.241410.670
157_I162_I0.240820.668
200_N212_K0.240630.668
51_F295_R0.240490.667
150_L154_L0.239660.665
128_L131_F0.239650.665
203_V209_Y0.239580.665
36_I39_V0.239520.665
122_L125_D0.238840.663
159_G164_W0.238230.661
202_I212_K0.238010.660
195_V212_K0.237820.660
190_L193_C0.237770.660
240_I291_L0.237310.659
103_P110_F0.236980.658
97_T101_C0.235970.655
206_F212_K0.235620.654
212_K218_T0.235290.653
268_P273_N0.234770.652
258_I261_N0.234590.651
249_M253_S0.233910.649
295_R298_R0.233740.649
198_I202_I0.233260.647
296_I302_Q0.232950.646
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
4grvA0.97261000.316
3pblA0.9391000.326
2rh1A0.94821000.334
3uonA0.9361000.341
3vw7A0.96951000.347
4dklA0.92991000.348
3v2yA0.95431000.349
3oduA0.92381000.35
3rzeA0.89941000.355
4ib4A0.95431000.358

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