GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Guanylate_cyc - Adenylate and Guanylate cyclase catalytic domain
Pfam: PF00211 (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: CL0276
Length: 184
Sequences: 5642
Seq/Len: 30.66
HH_delta: 0.008 (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
107_H148_S1.245353.178
17_V103_R1.189373.035
10_T108_T1.164922.973
149_E153_D1.144582.921
108_T151_V1.135762.898
149_E178_Q0.980682.502
49_H84_A0.892032.276
165_E178_Q0.891692.275
48_Q84_A0.87532.234
57_I60_G0.832692.125
152_Y156_N0.813192.075
9_V111_V0.790252.017
55_K124_D0.788732.013
136_L148_S0.718471.833
42_L85_L0.714241.823
147_V163_F0.693931.771
41_S88_A0.688341.756
15_D59_D0.680331.736
73_D77_R0.673781.719
152_Y163_F0.66011.684
86_L145_I0.651061.661
10_T74_A0.642631.640
80_Q161_F0.639111.631
106_I151_V0.638821.630
128_D174_K0.635781.622
8_N154_A0.63381.617
15_D20_T0.617961.577
79_V155_L0.612121.562
51_G65_F0.60731.550
6_Y110_P0.604581.543
168_R176_P0.602151.537
168_R178_Q0.575851.469
27_D30_E0.569821.454
131_N134_A0.564721.441
10_T151_V0.5551.416
20_T59_D0.541761.382
76_E80_Q0.539861.378
45_I84_A0.538431.374
105_G133_A0.536931.370
109_G129_A0.536841.370
107_H132_I0.536771.370
131_N135_R0.513251.310
71_D77_R0.51031.302
50_G77_R0.509421.300
45_I88_A0.508661.298
6_Y29_E0.505651.290
18_G21_D0.504851.288
13_F134_A0.499541.275
139_L169_V0.49731.269
82_A145_I0.491741.255
11_V129_A0.490891.253
71_D74_A0.48861.247
11_V133_A0.487261.243
140_A143_G0.486451.241
170_E176_P0.483071.233
54_I124_D0.482621.232
43_D53_I0.482131.230
171_L177_V0.481991.230
22_L26_L0.481051.228
75_A151_V0.479531.224
14_A38_F0.474471.211
47_K119_R0.474271.210
49_H80_Q0.467431.193
136_L179_T0.465751.188
76_E160_Q0.458381.170
88_A91_R0.456391.165
38_F102_V0.455261.162
132_I177_V0.453721.158
12_L85_L0.45241.154
177_V180_Y0.451321.152
15_D60_G0.448571.145
55_K122_E0.442551.129
19_F23_T0.437631.117
147_V151_V0.435491.111
101_S143_G0.433881.107
8_N110_P0.433121.105
135_R172_K0.432721.104
147_V152_Y0.428661.094
10_T78_A0.418741.069
64_V125_V0.417091.064
38_F42_L0.415541.060
23_T31_L0.414561.058
37_D96_S0.413971.056
46_V63_A0.413191.054
128_D132_I0.409011.044
103_R140_A0.405421.035
24_E174_K0.401891.026
30_E33_R0.399571.020
42_L61_V0.39371.005
79_V106_I0.389420.994
155_L163_F0.388430.991
45_I49_H0.387040.988
11_V62_M0.383450.978
34_L100_L0.383180.978
12_L82_A0.381310.973
152_Y180_Y0.380760.972
92_L96_S0.376730.961
150_E153_D0.372830.951
15_D19_F0.372540.951
65_F78_A0.370470.945
89_L93_N0.369890.944
22_L34_L0.369590.943
107_H129_A0.36730.937
45_I81_F0.367170.937
149_E180_Y0.365220.932
164_E167_G0.364060.929
81_F85_L0.363850.928
15_D103_R0.363730.928
44_R48_Q0.362950.926
66_G74_A0.362340.925
82_A104_I0.361070.921
26_L31_L0.358970.916
11_V111_V0.358920.916
19_F31_L0.357910.913
169_V179_T0.357540.912
37_D95_E0.350230.894
12_L106_I0.347960.888
93_N96_S0.344730.880
128_D131_N0.344320.879
139_L146_L0.340890.870
140_A144_Q0.339850.867
26_L30_E0.337610.861
20_T60_G0.335180.855
16_I102_V0.334760.854
62_M130_V0.332580.849
146_L166_L0.33110.845
105_G137_E0.330820.844
20_T58_G0.329410.841
46_V51_G0.329030.840
12_L63_A0.328860.839
57_I62_M0.327830.837
141_P144_Q0.327580.836
55_K62_M0.327240.835
13_F133_A0.326040.832
19_F59_D0.324550.828
21_D25_Q0.324110.827
13_F62_M0.32390.827
146_L179_T0.321950.822
86_L90_E0.318060.812
8_N74_A0.317930.811
10_T106_I0.317880.811
86_L104_I0.317660.811
136_L171_L0.315630.805
116_V126_F0.315440.805
41_S92_L0.314620.803
137_E140_A0.313130.799
63_A81_F0.311860.796
111_V125_V0.310620.793
139_L171_L0.308810.788
43_D56_F0.306760.783
8_N108_T0.303520.775
27_D31_L0.301780.770
9_V64_V0.30150.769
79_V82_A0.300890.768
107_H150_E0.298440.762
76_E155_L0.297780.760
147_V155_L0.297570.759
36_N40_S0.296940.758
56_F61_V0.296910.758
46_V81_F0.295110.753
32_V112_V0.293330.748
39_F43_D0.292960.748
156_N159_D0.292910.747
54_I64_V0.292820.747
78_A81_F0.290730.742
78_A106_I0.289440.739
9_V67_L0.288130.735
148_S151_V0.287180.733
6_Y27_D0.286510.731
110_P129_A0.285460.728
135_R173_G0.2850.727
15_D58_G0.284750.727
13_F105_G0.284690.726
76_E161_F0.283870.724
113_V125_V0.283140.722
151_V154_A0.283140.722
108_T154_A0.283120.722
14_A102_V0.28290.722
107_H151_V0.281870.719
54_I62_M0.280840.717
139_L179_T0.279370.713
86_L143_G0.27880.711
64_V113_V0.276490.706
65_F81_F0.276340.705
131_N172_K0.27540.703
74_A108_T0.274990.702
76_E156_N0.273660.698
46_V53_I0.273330.697
84_A87_E0.273230.697
37_D92_L0.272380.695
51_G81_F0.271190.692
37_D41_S0.271060.692
129_A132_I0.269580.688
32_V36_N0.268250.685
134_A173_G0.26820.684
54_I122_E0.266950.681
32_V116_V0.265430.677
64_V67_L0.265290.677
17_V101_S0.264730.676
77_R80_Q0.262480.670
79_V151_V0.261320.667
122_E126_F0.259850.663
68_P74_A0.257610.657
73_D76_E0.254870.650
82_A106_I0.254370.649
44_R88_A0.253550.647
67_L123_Y0.253530.647
79_V83_L0.252920.645
15_D137_E0.252090.643
93_N97_G0.251570.642
13_F131_N0.250830.640
114_G117_G0.250350.639
103_R137_E0.248980.635
111_V129_A0.248560.634
14_A104_I0.248170.633
75_A154_A0.246220.628
133_A136_L0.245670.627
132_I174_K0.245110.625
54_I126_F0.244940.625
134_A138_S0.244680.624
83_L161_F0.244190.623
140_A146_L0.243810.622
84_A88_A0.243630.622
40_S118_S0.242390.619
83_L87_E0.242190.618
9_V113_V0.241590.616
53_I61_V0.241410.616
101_S144_Q0.241310.616
38_F89_L0.239290.611
143_G167_G0.238510.609
51_G63_A0.234390.598
80_Q84_A0.234340.598
36_N39_F0.232230.593
36_N117_G0.231990.592
91_R94_K0.231780.591
26_L34_L0.23160.591
41_S95_E0.231090.590
32_V35_L0.230530.588
23_T26_L0.22910.585
11_V64_V0.227450.580
14_A60_G0.226460.578
82_A86_L0.225930.577
65_F77_R0.225770.576
49_H81_F0.225210.575
175_G179_T0.22470.573
117_G123_Y0.224520.573
20_T24_E0.223790.571
115_V121_P0.223780.571
170_E175_G0.223150.569
14_A85_L0.222250.567
87_E90_E0.22210.567
53_I56_F0.222090.567
104_I145_I0.222050.567
123_Y127_G0.222010.567
82_A89_L0.221560.565
35_L43_D0.221520.565
16_I34_L0.221150.564
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
1yk9A0.98911000.008
3et6A11000.028
3uvjA11000.04
1azsA0.98371000.041
2w01A0.98911000.047
1ab8A0.98911000.047
3r5gA0.98911000.055
2wz1A0.99461000.056
1wc3A0.98371000.066
1fx2A0.95111000.104

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