GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Chal_sti_synt_N - Chalcone and stilbene synthases N-terminal domain
Pfam: PF00195 (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: CL0046
Length: 226
Sequences: 10217
Seq/Len: 45.21
HH_delta: 0.195 (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
30_T33_E1.809173.927
36_E40_R1.552073.369
111_A221_V1.415653.072
107_A217_A1.203142.611
109_R113_A1.186472.575
108_A185_L1.117762.426
37_F42_T1.115032.420
176_A224_A1.113282.416
89_L97_A1.090612.367
174_D178_A1.03252.241
29_I33_E0.983332.134
124_H127_T0.981452.130
143_I152_V0.968892.103
160_M163_A0.940612.041
19_S114_E0.910681.977
118_D121_D0.909651.974
126_V219_A0.884111.919
181_G184_V0.874661.898
15_A173_K0.87171.892
153_Q171_R0.870021.888
108_A142_L0.858761.864
175_I181_G0.858531.863
125_L175_I0.851221.847
13_G16_Y0.850181.845
187_V219_A0.84911.843
200_N209_A0.844061.832
18_L223_G0.833061.808
28_R37_F0.817951.775
185_L221_V0.813381.765
128_V138_L0.811291.761
15_A222_V0.807821.753
104_A142_L0.800121.737
21_G107_A0.789661.714
173_K177_R0.779921.693
174_D180_P0.775411.683
53_K56_R0.7751.682
107_A219_A0.771651.675
109_R145_R0.769191.669
24_V218_A0.765491.661
139_D154_R0.763061.656
169_L222_V0.759911.649
36_E39_F0.756591.642
99_E103_L0.750881.630
183_R221_V0.738761.603
33_E36_E0.734591.594
108_A219_A0.732041.589
123_T147_G0.728981.582
175_I180_P0.716611.555
63_I66_R0.707591.536
104_A138_L0.706621.534
20_I31_Q0.705341.531
36_E42_T0.704471.529
13_G224_A0.70171.523
112_L146_L0.694611.508
83_D87_P0.691131.500
172_A186_V0.679151.474
174_D177_R0.67231.459
104_A219_A0.654371.420
172_A184_V0.647051.404
140_A152_V0.644031.398
59_E63_I0.628981.365
176_A222_V0.627611.362
199_P209_A0.619011.343
109_R146_L0.617731.341
23_A110_K0.617331.340
182_A224_A0.608631.321
127_T164_G0.606431.316
22_T34_I0.602121.307
28_R33_E0.597711.297
104_A187_V0.593291.288
32_E114_E0.591471.284
22_T31_Q0.581841.263
170_R180_P0.573741.245
111_A185_L0.571431.240
125_L129_S0.563461.223
107_A110_K0.557921.211
21_G111_A0.555821.206
111_A219_A0.552821.200
170_R174_D0.551051.196
21_G110_K0.543991.181
30_T110_K0.539971.172
32_E36_E0.5381.168
104_A126_V0.534141.159
189_V217_A0.534051.159
20_I114_E0.521051.131
183_R186_V0.520861.130
169_L186_V0.518821.126
86_D109_R0.518551.125
112_L148_L0.516551.121
171_R174_D0.506921.100
129_S132_G0.502181.090
83_D86_D0.500831.087
108_A111_A0.496391.077
90_A93_N0.484561.052
204_L208_V0.482631.047
110_K114_E0.481211.044
105_E145_R0.480931.044
99_E102_P0.475021.031
148_L185_L0.469351.019
127_T132_G0.467231.014
52_R55_R0.463311.006
128_V131_T0.45910.996
160_M167_A0.456520.991
155_T171_R0.454530.986
108_A146_L0.454230.986
153_Q160_M0.453210.984
35_A39_F0.452630.982
103_L217_A0.450440.978
33_E37_F0.441680.959
101_P137_G0.439890.955
171_R175_I0.436280.947
112_L221_V0.43380.942
186_V222_V0.433230.940
115_A221_V0.429620.932
53_K57_I0.424740.922
101_P141_R0.415930.903
23_A106_E0.413510.897
105_E142_L0.407820.885
121_D182_A0.405220.879
110_K113_A0.400480.869
59_E66_R0.400240.869
134_A137_G0.399940.868
43_H202_D0.397990.864
53_K66_R0.397920.864
34_I38_F0.396150.860
151_D181_G0.395480.858
137_G140_A0.393970.855
54_L57_I0.393290.854
186_V219_A0.392630.852
125_L184_V0.392430.852
60_N66_R0.391650.850
140_A143_I0.388020.842
111_A115_A0.387530.841
72_E75_L0.385760.837
100_A189_V0.385630.837
112_L122_I0.384980.836
50_L69_V0.381520.828
15_A176_A0.380970.827
112_L185_L0.380440.826
73_E214_G0.380080.825
101_P138_L0.379750.824
126_V129_S0.378920.822
185_L219_A0.378760.822
203_S208_V0.378570.822
106_E110_K0.378150.821
126_V187_V0.376120.816
165_G188_C0.373890.811
127_T131_T0.37340.810
183_R223_G0.372210.808
117_L183_R0.371960.807
168_G186_V0.365240.793
50_L53_K0.362270.786
19_S111_A0.357910.777
198_A201_D0.357690.776
52_R57_I0.356410.774
202_D207_L0.354460.769
190_E213_F0.352810.766
176_A179_N0.351810.764
16_Y223_G0.350370.760
37_F40_R0.350240.760
125_L132_G0.348170.756
31_Q34_I0.347630.754
138_L189_V0.342230.743
119_P122_I0.341860.742
117_L223_G0.338470.735
69_V72_E0.337320.732
117_L121_D0.336620.731
175_I178_A0.336520.730
64_E67_H0.335430.728
167_A171_R0.33470.726
104_A108_A0.333960.725
140_A147_G0.333960.725
128_V154_R0.333590.724
23_A103_L0.333160.723
66_R69_V0.332640.722
16_Y19_S0.331160.719
31_Q114_E0.327440.711
65_K69_V0.32640.708
62_G66_R0.325910.707
164_G168_G0.324450.704
204_L207_L0.324320.704
14_P177_R0.323250.702
122_I183_R0.323220.702
125_L181_G0.322320.700
30_T34_I0.322310.700
117_L221_V0.322070.699
86_D113_A0.319280.693
191_L215_D0.31590.686
23_A107_A0.31450.683
13_G177_R0.314280.682
133_I136_P0.31380.681
124_H128_V0.312740.679
202_D209_A0.310370.674
198_A209_A0.310010.673
62_G65_K0.30760.668
126_V142_L0.307530.667
163_A166_A0.307410.667
203_S211_A0.306690.666
65_K68_S0.306540.665
109_R119_P0.305570.663
86_D146_L0.304370.661
22_T216_G0.303280.658
67_H70_L0.301810.655
172_A222_V0.30010.651
26_P37_F0.298790.648
169_L220_V0.298250.647
58_F61_S0.297810.646
105_E109_R0.297380.645
97_A141_R0.297110.645
129_S190_E0.295390.641
102_P106_E0.294210.639
192_C213_F0.293170.636
100_A138_L0.292170.634
49_D53_K0.291280.632
193_S215_D0.287510.624
126_V131_T0.286150.621
140_A211_A0.286150.621
200_N204_L0.285930.621
103_L191_L0.284410.617
151_D175_I0.282020.612
119_P123_T0.28170.611
94_A102_P0.281010.610
108_A187_V0.280280.608
108_A112_L0.278860.605
39_F42_T0.277990.603
65_K197_Q0.277870.603
34_I37_F0.277670.603
68_S71_P0.277040.601
190_E211_A0.27540.598
151_D184_V0.275320.598
125_L128_V0.274830.596
19_S221_V0.274780.596
175_I184_V0.271160.589
125_L153_Q0.270450.587
127_T130_C0.27010.586
141_R144_N0.269930.586
142_L145_R0.269710.585
131_T134_A0.269650.585
53_K58_F0.267440.580
123_T127_T0.266790.579
54_L59_E0.266650.579
91_E94_A0.266310.578
15_A177_R0.264930.575
17_I222_V0.264710.575
205_D208_V0.263630.572
15_A224_A0.262860.571
155_T168_G0.261120.567
139_D152_V0.259370.563
104_A217_A0.259040.562
179_N224_A0.259010.562
66_R70_L0.255970.556
113_A118_D0.255880.555
173_K186_V0.255080.554
18_L183_R0.254440.552
89_L106_E0.254380.552
25_P37_F0.252690.548
142_L146_L0.252220.547
193_S213_F0.249570.542
97_A102_P0.249170.541
18_L221_V0.24830.539
92_R95_L0.247920.538
204_L209_A0.24660.535
88_S110_K0.244630.531
124_H131_T0.244350.530
54_L68_S0.244120.530
89_L145_R0.243140.528
89_L94_A0.241890.525
57_I61_S0.241370.524
52_R56_R0.241090.523
140_A213_F0.241020.523
105_E146_L0.240940.523
88_S106_E0.240770.523
58_F70_L0.239850.521
125_L130_C0.239240.519
124_H142_L0.239210.519
103_L189_V0.238360.517
103_L107_A0.238160.517
61_S66_R0.23780.516
84_F106_E0.237640.516
60_N68_S0.237580.516
140_A167_A0.236970.514
93_N141_R0.236490.513
126_V186_V0.236090.512
111_A114_E0.235880.512
124_H148_L0.235530.511
25_P214_G0.235470.511
21_G217_A0.235280.511
125_L171_R0.234330.509
70_L75_L0.234240.508
132_G135_A0.232170.504
135_A196_F0.231750.503
123_T184_V0.231650.503
17_I20_I0.23050.500
104_A107_A0.229620.498
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
2vz8A0.88941000.195
2qo3A0.95131000.203
3hhdA0.89821000.207
2hg4A0.93811000.239
3mqdA0.90711000.246
3ho9A0.91151000.252
4ddoA0.94691000.253
4jgaA0.93361000.261
1tqyA0.86731000.263
4ewgA0.88051000.264

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