GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
7TM_GPCR_Srv - Serpentine type 7TM GPCR chemoreceptor Srv
Pfam: PF10323 (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: 283
Sequences: 27268
Seq/Len: 96.35
HH_delta: -0.044 (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
39_Q128_W1.494194.076
181_V185_I1.113713.038
118_A122_I0.888492.424
219_F222_F0.871452.377
39_Q92_G0.789252.153
101_Y105_C0.78072.130
147_D150_E0.772982.109
184_G188_I0.762772.081
60_Y63_F0.742992.027
106_F110_R0.741362.022
227_V233_N0.738442.014
95_L127_Q0.733192.000
222_F225_I0.709111.934
59_A65_D0.696581.900
101_Y106_F0.690711.884
185_I188_I0.675011.841
178_I182_C0.641031.749
227_V230_I0.620181.692
95_L123_I0.610641.666
185_I189_F0.608621.660
99_N103_A0.598491.633
31_S34_Y0.597291.629
148_N151_N0.592541.616
43_A88_I0.58951.608
172_V175_T0.555261.515
73_Y77_I0.553011.508
145_Y243_P0.546711.491
110_R113_K0.54581.489
72_T76_A0.541871.478
122_I126_I0.538051.468
43_A89_Q0.530811.448
228_Y232_S0.526441.436
101_Y185_I0.526371.436
38_I42_I0.525911.435
276_Q279_R0.524681.431
44_D262_N0.522591.426
225_I228_Y0.519461.417
121_W125_L0.519011.416
99_N115_W0.51881.415
39_Q124_I0.515831.407
68_F71_Q0.513771.401
101_Y182_C0.510421.392
165_F168_A0.50631.381
208_E219_F0.501081.367
35_T124_I0.499071.361
91_I175_T0.49871.360
180_I184_G0.497351.357
88_I131_P0.4951.350
123_I127_Q0.489341.335
42_I46_L0.485351.324
116_Q119_K0.484491.322
183_Y186_I0.483871.320
105_C189_F0.482731.317
215_V218_L0.475021.296
75_A79_Y0.474741.295
92_G124_I0.469561.281
102_L114_F0.467071.274
131_P135_S0.462471.262
97_S183_Y0.45611.244
208_E215_V0.447671.221
262_N266_L0.443871.211
94_V182_C0.442771.208
257_L261_I0.439741.200
110_R114_F0.437691.194
94_V178_I0.436891.192
90_C94_V0.435791.189
161_I165_F0.434271.185
41_C44_D0.43391.184
219_F223_F0.429491.172
44_D89_Q0.428991.170
98_L182_C0.428771.170
219_F225_I0.428531.169
153_S156_V0.428321.168
90_C175_T0.428281.168
228_Y231_F0.425671.161
122_I125_L0.421471.150
162_Q165_F0.420741.148
36_L96_L0.419241.144
147_D151_N0.419081.143
93_I179_C0.418151.141
188_I192_K0.417831.140
73_Y76_A0.413211.127
130_P134_I0.408321.114
111_H115_W0.407771.112
44_D258_L0.407591.112
100_R103_A0.406381.109
275_K278_R0.404711.104
115_W123_I0.404181.103
91_I130_P0.401061.094
91_I127_Q0.401021.094
215_V219_F0.399721.090
96_L99_N0.397911.085
78_Y82_A0.397351.084
238_N241_T0.395811.080
102_L105_C0.395681.079
104_I108_T0.394651.077
244_I247_L0.393931.075
60_Y64_N0.393611.074
164_N167_I0.390951.066
226_L230_I0.390071.064
88_I92_G0.389371.062
259_S263_P0.387341.057
125_L129_I0.38691.055
221_A224_V0.385941.053
187_F191_R0.385851.053
170_I174_V0.385561.052
187_F190_I0.385511.052
57_F60_Y0.38491.050
103_A108_T0.383081.045
146_F149_E0.379591.035
94_V175_T0.374451.021
40_H44_D0.37411.020
275_K279_R0.368951.006
208_E222_F0.361810.987
60_Y66_F0.361390.986
141_D144_F0.360280.983
92_G128_W0.359330.980
79_Y82_A0.357820.976
117_P121_W0.357780.976
106_F114_F0.351830.960
127_Q131_P0.351020.957
63_F66_F0.350120.955
229_Y233_N0.349430.953
115_W119_K0.349170.952
87_Y134_I0.348540.951
133_L137_P0.348250.950
58_R65_D0.348220.950
233_N242_D0.348110.950
262_N270_N0.347030.947
75_A80_N0.34570.943
66_F69_S0.343530.937
35_T39_Q0.342730.935
34_Y37_L0.342560.934
179_C183_Y0.342160.933
203_R206_R0.342070.933
177_V181_V0.341870.933
168_A171_F0.341820.932
64_N69_S0.340660.929
98_L178_I0.340580.929
189_F192_K0.339710.927
68_F75_A0.339280.925
58_R66_F0.338420.923
31_S35_T0.337950.922
159_E162_Q0.337780.921
87_Y131_P0.334370.912
188_I191_R0.334210.912
227_V237_Q0.334080.911
160_F164_N0.333930.911
60_Y65_D0.333420.909
103_A111_H0.332850.908
118_A121_W0.332240.906
170_I175_T0.331830.905
243_P247_L0.331670.905
66_F70_Y0.331190.903
190_I193_R0.330960.903
233_N237_Q0.329990.900
221_A225_I0.329030.898
257_L260_F0.328870.897
171_F174_V0.325780.889
171_F175_T0.325550.888
35_T121_W0.32530.887
64_N68_F0.325270.887
103_A107_P0.325040.887
40_H266_L0.324740.886
267_L270_N0.323490.882
274_R278_R0.322070.879
138_F141_D0.320940.875
71_Q75_A0.320920.875
246_Y251_Y0.319870.873
224_V227_V0.319740.872
33_F36_L0.319260.871
78_Y81_I0.319240.871
64_N67_Y0.318480.869
59_A64_N0.318290.868
48_M259_S0.318090.868
43_A131_P0.318020.867
88_I128_W0.317330.866
216_F219_F0.31590.862
98_L102_L0.315280.860
260_F263_P0.315250.860
57_F65_D0.315220.860
136_L140_F0.314170.857
58_R63_F0.314160.857
82_A86_L0.31330.855
216_F220_C0.312810.853
36_L120_I0.312230.852
97_S182_C0.311540.850
66_F71_Q0.310240.846
33_F37_L0.31010.846
264_W268_I0.30980.845
88_I127_Q0.30960.845
162_Q166_L0.309250.844
229_Y232_S0.308880.843
228_Y235_F0.308610.842
91_I131_P0.308560.842
152_M155_F0.306190.835
36_L99_N0.304970.832
97_S186_I0.304690.831
134_I137_P0.303770.829
99_N111_H0.303550.828
270_N276_Q0.301130.821
164_N168_A0.300880.821
234_Y237_Q0.300440.820
205_R208_E0.300170.819
237_Q240_N0.300170.819
158_P161_I0.2990.816
267_L277_V0.298970.816
269_F272_D0.298230.814
228_Y234_Y0.297960.813
65_D68_F0.29790.813
37_L99_N0.297170.811
114_F119_K0.296330.808
230_I234_Y0.294940.805
33_F96_L0.294020.802
64_N70_Y0.293270.800
48_M260_F0.29230.797
90_C179_C0.291990.796
34_Y273_L0.291560.795
222_F227_V0.291320.795
163_R166_L0.29130.795
159_E166_L0.29030.792
146_F151_N0.28970.790
273_L276_Q0.289290.789
102_L115_W0.28730.784
141_D166_L0.28730.784
68_F73_Y0.286660.782
215_V222_F0.286530.782
47_S259_S0.286130.780
157_D160_F0.284240.775
96_L215_V0.283240.773
51_Y252_P0.28320.773
36_L95_L0.282860.772
193_R197_K0.282830.771
39_Q42_I0.282770.771
276_Q280_M0.282570.771
141_D146_F0.28180.769
41_C262_N0.280870.766
104_I107_P0.280670.766
151_N162_Q0.28030.765
271_K275_K0.280210.764
218_L222_F0.279260.762
75_A78_Y0.27880.760
204_S208_E0.278080.759
121_W124_I0.277980.758
59_A63_F0.277860.758
39_Q121_W0.277660.757
234_Y238_N0.276910.755
101_Y181_V0.276450.754
160_F163_R0.276030.753
161_I164_N0.275830.752
45_I49_L0.274840.750
167_I171_F0.274120.748
106_F185_I0.274030.747
159_E163_R0.273570.746
74_Y77_I0.273270.745
65_D70_Y0.27270.744
158_P162_Q0.272610.744
237_Q242_D0.272560.743
40_H92_G0.271730.741
162_Q236_A0.27130.740
44_D266_L0.270450.738
37_L96_L0.27020.737
132_L136_L0.269830.736
265_M269_F0.269640.736
94_V179_C0.269280.735
271_K274_R0.26920.734
226_L229_Y0.267730.730
35_T117_P0.267540.730
89_Q228_Y0.26690.728
225_I229_Y0.265960.725
156_V159_E0.265810.725
129_I132_L0.265640.725
67_Y70_Y0.265330.724
225_I234_Y0.265150.723
152_M156_V0.264970.723
92_G127_Q0.26460.722
163_R167_I0.263980.720
60_Y70_Y0.263780.720
59_A66_F0.263730.719
237_Q241_T0.263120.718
105_C186_I0.262650.716
197_K202_S0.261820.714
228_Y233_N0.261820.714
102_L106_F0.261690.714
128_W263_P0.260930.712
136_L139_F0.26060.711
192_K197_K0.260110.710
108_T111_H0.259180.707
60_Y67_Y0.257710.703
115_W120_I0.257680.703
163_R168_A0.257060.701
217_I221_A0.257040.701
51_Y80_N0.256760.700
77_I81_I0.25660.700
208_E218_L0.256510.700
227_V234_Y0.256260.699
152_M157_D0.255510.697
48_M270_N0.25540.697
179_C187_F0.254830.695
137_P141_D0.25460.694
247_L250_F0.254330.694
44_D47_S0.254320.694
75_A81_I0.254130.693
233_N239_F0.254090.693
32_T36_L0.253490.691
119_K123_I0.25330.691
157_D162_Q0.252710.689
146_F150_E0.251620.686
182_C269_F0.250760.684
221_A265_M0.250740.684
273_L280_M0.25070.684
63_F68_F0.250210.683
93_I99_N0.250190.682
169_F173_S0.249950.682
71_Q74_Y0.249880.682
119_K122_I0.249230.680
36_L124_I0.248340.677
247_L251_Y0.247920.676
244_I251_Y0.247890.676
86_L90_C0.247840.676
82_A87_Y0.247510.675
189_F193_R0.247280.675
154_L158_P0.246190.672
172_V176_C0.245640.670
43_A128_W0.244790.668
272_D276_Q0.244110.666
89_Q97_S0.243960.665
265_M270_N0.24230.661
126_I130_P0.242080.660
247_L252_P0.241060.658
242_D245_F0.240130.655
124_I128_W0.240030.655
246_Y252_P0.239810.654
116_Q120_I0.239430.653
181_V184_G0.238440.650
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
4grvA0.9859100-0.044
3uonA0.96821000.026
3vw7A0.96821000.027
2rh1A0.96471000.028
3rzeA0.96821000.029
4ib4A0.97171000.046
4dklA0.96471000.052
3pblA0.95411000.055
3oduA0.96111000.059
3v2yA0.95411000.062

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