GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
V1R - Vomeronasal organ pheromone receptor family V1R
Pfam: PF03402 (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: 265
Sequences: 28320
Seq/Len: 106.87
HH_delta: 0.019 (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
17_H103_W1.363973.816
37_F40_W1.081743.026
37_F41_K1.009062.823
165_W169_Y0.940562.631
78_S81_N0.923722.584
48_C135_C0.872222.440
93_K97_P0.849012.375
141_S145_S0.804852.252
68_L102_C0.789682.209
142_Y146_S0.771952.159
141_S146_S0.770942.157
142_Y145_S0.760172.127
38_F41_K0.738582.066
46_I50_I0.734952.056
79_P82_S0.702181.964
57_V107_L0.701921.964
17_H65_T0.698481.954
141_S144_V0.694981.944
45_D49_K0.693071.939
73_Q77_I0.691281.934
140_I146_S0.681411.906
74_A77_I0.667861.868
167_S170_M0.645251.805
73_Q76_T0.643981.802
72_F76_T0.642651.798
111_I115_V0.642631.798
169_Y172_F0.641831.795
24_L58_A0.631461.766
68_L98_S0.628351.758
140_I143_I0.625431.750
168_G172_F0.620671.736
143_I146_S0.616581.725
140_I145_S0.604881.692
7_R12_D0.59851.674
21_A61_L0.573451.604
53_Y57_V0.570221.595
121_P140_I0.55931.565
219_I223_Y0.550131.539
20_L24_L0.549311.537
144_V148_F0.545631.526
145_S149_A0.53471.496
202_T255_S0.531111.486
49_K118_I0.529691.482
145_S148_F0.517291.447
162_L166_A0.515911.443
96_G100_L0.513041.435
248_S252_L0.512681.434
169_Y173_L0.508741.423
16_I20_L0.507761.420
17_H99_C0.507741.420
21_A62_S0.505981.415
131_S234_L0.505961.415
9_K12_D0.490781.373
143_I147_L0.490461.372
91_A94_Y0.486521.361
97_P101_F0.48591.359
44_D47_G0.482341.349
141_S149_A0.481741.348
148_F151_L0.478011.337
13_L99_C0.473471.325
164_I168_G0.472561.322
46_I49_K0.471341.319
146_S152_L0.467851.309
171_V175_Y0.467681.308
214_Y241_S0.466881.306
32_P35_M0.463691.297
196_E200_T0.459761.286
146_S149_A0.45931.285
72_F77_I0.457561.280
142_Y149_A0.456411.277
149_A152_L0.456111.276
112_N115_V0.451961.264
113_V116_Y0.451181.262
74_A78_S0.450651.261
22_N248_S0.446411.249
61_L106_N0.444161.243
75_I89_V0.435131.217
65_T99_C0.432761.211
33_Q47_G0.431461.207
97_P100_L0.43111.206
98_S102_C0.426051.192
64_C159_F0.42131.179
60_G155_R0.42081.177
53_Y114_L0.41991.175
204_L208_S0.417371.168
155_R159_F0.410991.150
18_L22_N0.410761.149
53_Y107_L0.406351.137
63_I67_C0.404711.132
14_I69_L0.403111.128
140_I144_V0.399421.117
116_Y119_A0.397821.113
245_P249_P0.397141.111
163_M167_S0.396681.110
63_I159_F0.396021.108
145_S150_T0.393011.099
41_K44_D0.388261.086
9_K13_L0.386091.080
143_I150_T0.385681.079
114_L118_I0.385381.078
144_V149_A0.384711.076
93_K96_G0.382141.069
140_I152_L0.382091.069
209_T251_V0.377281.055
67_C162_L0.376841.054
148_F152_L0.375791.051
199_A202_T0.374071.046
215_G219_I0.373391.045
243_C247_I0.371841.040
100_L104_I0.370961.038
134_Y137_S0.368771.032
172_F176_R0.367491.028
12_D15_L0.367021.027
171_V174_L0.366691.026
28_S58_A0.363171.016
21_A58_A0.362871.015
223_Y233_L0.361251.011
149_A153_S0.360131.007
146_S150_T0.358851.004
223_Y228_K0.358461.003
78_S89_V0.358431.003
144_V151_L0.356640.998
22_N244_F0.355660.995
67_C166_A0.355020.993
145_S152_L0.3550.993
57_V110_N0.353240.988
74_A79_P0.350760.981
106_N110_N0.350450.980
11_I15_L0.34970.978
225_T228_K0.347790.973
64_C102_C0.347320.972
31_I242_S0.346470.969
67_C159_F0.346190.968
64_C105_L0.34610.968
50_I54_I0.345540.967
234_L239_F0.344140.963
141_S152_L0.343660.961
19_A22_N0.343250.960
13_L17_H0.343220.960
143_I148_F0.342390.958
66_T163_M0.340030.951
105_L109_I0.339420.950
253_I256_D0.337480.944
140_I149_A0.337290.944
147_L151_L0.336930.943
22_N62_S0.334220.935
202_T205_L0.333580.933
65_T103_W0.333240.932
63_I210_F0.332390.930
213_F216_L0.330160.924
171_V200_T0.330060.923
233_L237_S0.32840.919
33_Q37_F0.328150.918
56_R110_N0.325380.910
60_G106_N0.323930.906
55_Y59_R0.32330.904
143_I149_A0.322920.903
197_T201_K0.321780.900
72_F75_I0.321750.900
14_I95_I0.31550.883
248_S256_D0.315160.882
142_Y148_F0.313720.878
123_S126_N0.312630.875
70_S167_S0.311820.872
71_V166_A0.311440.871
145_S151_L0.311040.870
62_S213_F0.309910.867
30_G55_Y0.308610.863
61_L65_T0.30840.863
90_K98_S0.307540.860
174_L177_H0.306680.858
141_S151_L0.306640.858
136_S139_P0.304960.853
25_V245_P0.304450.852
8_L12_D0.303530.849
26_L31_I0.302550.846
61_L103_W0.302260.846
52_F55_Y0.301960.845
81_N89_V0.301390.843
115_V119_A0.301080.842
156_D160_V0.300910.842
78_S82_S0.300120.840
211_V215_G0.294160.823
23_I27_L0.29240.818
32_P36_A0.291550.816
19_A248_S0.290110.812
142_Y151_L0.289420.810
243_C246_T0.287980.806
141_S150_T0.287870.805
232_W236_I0.287120.803
205_L255_S0.286930.803
221_F224_L0.286480.801
70_S166_A0.286390.801
43_F47_G0.286110.800
71_V162_L0.285760.799
102_C106_N0.284790.797
26_L69_L0.283010.792
115_V118_I0.282960.792
33_Q43_F0.282850.791
250_F253_I0.282360.790
33_Q36_A0.282350.790
124_T127_N0.281570.788
160_V211_V0.281250.787
56_R59_R0.280860.786
48_C53_Y0.280590.785
26_L245_P0.280590.785
150_T153_S0.27970.782
14_I72_F0.279660.782
217_S220_L0.279120.781
13_L96_G0.278990.780
107_L111_I0.278290.779
24_L54_I0.277640.777
109_I113_V0.276880.775
76_T79_P0.276820.774
37_F150_T0.276470.773
250_F254_S0.274960.769
172_F175_Y0.274860.769
237_S240_L0.274040.767
61_L102_C0.273830.766
92_P96_G0.272810.763
72_F90_K0.272580.763
200_T206_L0.270590.757
255_S258_R0.269160.753
26_L30_G0.269160.753
256_D262_F0.269130.753
142_Y150_T0.268260.750
237_S241_S0.267720.749
161_G165_W0.267170.747
140_I151_L0.267130.747
218_S221_F0.266990.747
146_S151_L0.266320.745
173_L176_R0.265580.743
156_D217_S0.265540.743
177_H195_P0.264470.740
156_D215_G0.264390.740
158_L161_G0.263470.737
53_Y111_I0.262690.735
202_T256_D0.262320.734
81_N88_K0.262060.733
170_M203_I0.261530.732
156_D218_S0.261510.732
198_R202_T0.260970.730
95_I99_C0.259640.726
108_L111_I0.259150.725
64_C155_R0.258970.724
82_S90_K0.258890.724
12_D259_I0.258010.722
122_N125_N0.257710.721
217_S221_F0.257520.720
251_V255_S0.257380.720
197_T204_L0.256660.718
156_D214_Y0.256540.718
88_K91_A0.256330.717
143_I152_L0.256310.717
10_P51_V0.256170.717
74_A169_Y0.255740.715
257_K261_K0.255530.715
60_G109_I0.255310.714
259_I262_F0.255050.713
253_I259_I0.255030.713
163_M207_V0.25480.713
108_L112_N0.253310.709
121_P126_N0.253080.708
90_K94_Y0.252720.707
259_I263_L0.252250.706
63_I214_Y0.251720.704
5_G8_L0.25050.701
36_A42_F0.250480.701
67_C163_M0.250320.700
238_V242_S0.250090.700
228_K231_P0.249380.698
203_I207_V0.248990.697
109_I112_N0.248580.695
148_F153_S0.248470.695
6_H9_K0.248460.695
94_Y97_P0.24720.692
112_N118_I0.247150.691
11_I14_I0.246810.690
64_C106_N0.246480.690
170_M174_L0.246270.689
150_T154_F0.246120.689
75_I79_P0.245290.686
141_S148_F0.244980.685
31_I34_T0.243860.682
96_G99_C0.24360.681
38_F150_T0.243440.681
14_I90_K0.242750.679
104_I107_L0.242460.678
258_R261_K0.242260.678
194_S197_T0.240240.672
62_S70_S0.239180.669
70_S170_M0.238870.668
17_H20_L0.238830.668
28_S33_Q0.237310.664
17_H96_G0.236970.663
60_G64_C0.236750.662
54_I58_A0.236010.660
13_L92_P0.235550.659
176_R191_P0.235330.658
18_L65_T0.234090.655
9_K254_S0.233810.654
64_C68_L0.233750.654
51_V55_Y0.233540.653
156_D159_F0.233530.653
159_F162_L0.23340.653
174_L199_A0.233190.652
44_D48_C0.233170.652
242_S248_S0.232960.652
110_N114_L0.23280.651
160_V164_I0.232280.650
74_A166_A0.231770.648
191_P194_S0.231720.648
15_L69_L0.231660.648
14_I99_C0.230610.645
142_Y152_L0.229980.643
33_Q41_K0.229890.643
109_I155_R0.229620.642
147_L150_T0.228620.640
228_K233_L0.228520.639
216_L237_S0.228430.639
257_K260_I0.228430.639
73_Q79_P0.226970.635
11_I69_L0.226840.635
65_T69_L0.226740.634
69_L76_T0.226670.634
69_L203_I0.226520.634
101_F105_L0.22640.633
65_T102_C0.226120.633
94_Y98_S0.226020.632
213_F217_S0.225470.631
157_V218_S0.224730.629
220_L223_Y0.224540.628
56_R217_S0.224450.628
240_L244_F0.224390.628
234_L238_V0.223410.625
72_F78_S0.223020.624
174_L197_T0.222020.621
26_L246_T0.2220.621
89_V94_Y0.221790.620
90_K95_I0.221780.620
144_V150_T0.221570.620
66_T249_P0.221460.620
250_F256_D0.220870.618
60_G110_N0.220430.617
113_V118_I0.219940.615
196_E199_A0.219870.615
38_F151_L0.219290.613
55_Y242_S0.219240.613
226_S229_N0.218620.612
205_L214_Y0.218610.612
258_R262_F0.218360.611
202_T206_L0.217090.607
161_G169_Y0.217020.607
251_V256_D0.216630.606
30_G134_Y0.216510.606
22_N213_F0.216440.605
147_L152_L0.216360.605
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
4grvA0.97741000.019
2rh1A0.95471000.091
3vw7A0.96231000.096
3oduA0.95091000.098
3v2yA0.93961000.102
4eiyA0.97741000.107
3emlA0.97741000.11
3uonA0.95851000.11
3rzeA0.96231000.114
4dklA0.95471000.117

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