GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CoA_trans - Coenzyme A transferase
Pfam: PF01144 (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: CL0246
Length: 217
Sequences: 3360
Seq/Len: 15.48
HH_delta: 0.131 (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
135_G140_E0.828713.381
13_R16_D0.797453.253
161_F195_E0.725262.959
119_P139_A0.687412.804
165_V188_V0.684272.792
156_H165_V0.683882.790
5_A38_R0.634062.587
3_S6_E0.626992.558
80_R83_R0.590372.408
137_G145_P0.585842.390
66_K91_E0.572162.334
14_D42_R0.571382.331
199_R204_V0.551372.249
167_F206_I0.535682.185
19_A149_P0.529222.159
34_R58_P0.518912.117
87_D90_I0.507662.071
133_L140_E0.505192.061
183_A192_E0.493222.012
158_K192_E0.489531.997
15_G43_D0.484961.978
158_K162_V0.468571.912
122_I140_E0.46161.883
35_E38_R0.456271.861
112_P116_N0.451881.843
161_F196_E0.436221.780
157_Q168_E0.425431.736
148_R184_K0.424951.734
19_A104_L0.421331.719
43_D66_K0.415441.695
12_I36_L0.405421.654
159_A190_V0.397541.622
83_R87_D0.3971.620
211_V215_V0.392791.602
117_L134_P0.384381.568
8_V153_I0.384071.567
6_E9_A0.367461.499
162_V196_E0.36611.494
79_P83_R0.364661.488
5_A35_E0.363911.485
194_V201_P0.36131.474
45_T69_E0.359781.468
79_P85_V0.356511.454
59_L75_E0.352171.437
159_A188_V0.346991.416
4_L35_E0.342991.399
84_A89_E0.339151.384
107_G148_R0.335311.368
11_L213_A0.331851.354
47_V147_I0.331781.354
16_D151_V0.329831.346
185_I213_A0.328491.340
152_A183_A0.32731.335
19_A179_I0.324211.323
47_V149_P0.321531.312
20_V153_I0.316851.293
133_L142_L0.310631.267
200_D203_R0.307111.253
12_I151_V0.306261.249
158_K166_D0.303951.240
63_G84_A0.301041.228
193_I200_D0.298161.216
165_V200_D0.296361.209
53_I79_P0.295351.205
32_L153_I0.293821.199
115_G143_A0.293371.197
63_G89_E0.292651.194
160_D164_N0.291191.188
159_A193_I0.291141.188
132_R137_G0.286861.170
93_E103_R0.284491.161
17_T47_V0.283021.155
102_D105_R0.28291.154
14_D43_D0.278691.137
202_L211_V0.27841.136
59_L64_C0.27821.135
205_V214_V0.276091.126
194_V199_R0.27471.121
184_K193_I0.274291.119
34_R38_R0.273931.118
36_L153_I0.273281.115
35_E39_Q0.272041.110
37_A64_C0.271591.108
159_A165_V0.270541.104
9_A39_Q0.269411.099
188_V209_V0.269091.098
191_E215_V0.26711.090
19_A47_V0.266961.089
160_D163_G0.265351.083
104_L179_I0.262671.072
12_I16_D0.262331.070
194_V198_R0.261441.067
12_I153_I0.259771.060
212_D215_V0.259061.057
192_E203_R0.258571.055
195_E198_R0.257441.050
61_A64_C0.255871.044
67_R91_E0.252611.031
213_A216_E0.252331.029
11_L185_I0.248051.012
169_G202_L0.246571.006
112_P115_G0.244810.999
8_V35_E0.24380.995
172_G202_L0.243050.992
111_I116_N0.238120.971
8_V39_Q0.237370.968
151_V185_I0.233940.954
95_W103_R0.233750.954
150_D184_K0.232460.948
13_R151_V0.232090.947
60_I84_A0.231410.944
61_A65_V0.231170.943
135_G138_G0.231160.943
205_V211_V0.226650.925
112_P136_F0.225320.919
34_R37_A0.225240.919
37_A58_P0.224940.918
110_G163_G0.224750.917
190_V193_I0.224650.916
105_R109_A0.223360.911
8_V105_R0.223270.911
20_V33_V0.220450.899
3_S7_A0.220330.899
8_V11_L0.219680.896
154_I188_V0.219010.893
153_I187_I0.217140.886
80_R84_A0.216880.885
155_H189_T0.216880.885
4_L153_I0.216420.883
212_D216_E0.21620.882
115_G134_P0.214340.874
106_A116_N0.212840.868
193_I216_E0.212660.868
165_V184_K0.212410.867
37_A62_A0.212250.866
7_A204_V0.211380.862
123_G128_P0.210910.860
106_A111_I0.210840.860
103_R146_A0.21080.860
117_L143_A0.210680.859
148_R183_A0.209150.853
21_G29_P0.207750.848
210_L213_A0.206680.843
62_A89_E0.206110.841
45_T67_R0.204860.836
102_D147_I0.20410.833
102_D116_N0.2040.832
11_L16_D0.201150.821
161_F198_R0.200750.819
17_T45_T0.198890.811
122_I142_L0.196590.802
169_G173_H0.194270.793
67_R93_E0.193810.791
191_E194_V0.193570.790
16_D150_D0.19330.789
186_T212_D0.192120.784
99_G118_N0.19190.783
32_L215_V0.191890.783
12_I18_V0.189230.772
5_A9_A0.189060.771
72_F75_E0.187060.763
11_L151_V0.184950.755
40_G64_C0.184430.752
156_H188_V0.184320.752
4_L8_V0.184240.752
115_G145_P0.183950.750
12_I187_I0.183910.750
188_V213_A0.183560.749
157_Q163_G0.183530.749
112_P146_A0.182070.743
53_I56_L0.181940.742
31_A189_T0.18070.737
169_G200_D0.178570.728
102_D111_I0.177480.724
74_G78_S0.177150.723
8_V12_I0.176610.720
16_D103_R0.17620.719
33_V105_R0.176170.719
211_V214_V0.176150.719
159_A214_V0.175340.715
204_V207_P0.173820.709
71_S100_I0.173680.709
194_V197_G0.173170.706
103_R147_I0.171990.702
186_T206_I0.171110.698
137_G148_R0.171010.698
14_D44_L0.170920.697
46_L68_V0.170750.697
132_R143_A0.169860.693
13_R43_D0.169380.691
29_P32_L0.169070.690
129_R133_L0.168820.689
166_D199_R0.168520.687
206_I209_V0.167870.685
186_T210_L0.166880.681
43_D46_L0.166790.680
137_G141_Y0.16670.680
154_I179_I0.164340.670
132_R135_G0.164320.670
58_P80_R0.163320.666
188_V206_I0.162210.662
40_G43_D0.161560.659
44_L81_F0.161130.657
122_I133_L0.160610.655
104_L117_L0.159930.652
7_A187_I0.158840.648
51_A65_V0.158790.648
108_A117_L0.158430.646
154_I159_A0.158270.646
17_T149_P0.158120.645
65_V121_G0.157520.643
107_G111_I0.157520.643
185_I188_V0.157230.641
192_E216_E0.15650.638
56_L85_V0.156280.638
132_R136_F0.156190.637
180_A206_I0.155640.635
75_E81_F0.15490.632
33_V56_L0.154570.631
157_Q192_E0.154380.630
7_A11_L0.153830.628
97_Q101_I0.153740.627
158_K163_G0.153610.627
188_V212_D0.153580.627
19_A147_I0.153340.626
160_D211_V0.153070.624
199_R203_R0.152960.624
53_I82_R0.152470.622
45_T66_K0.152260.621
70_I73_G0.15220.621
115_G146_A0.151720.619
155_H159_A0.151490.618
195_E199_R0.151390.618
154_I180_A0.151250.617
44_L211_V0.151040.616
29_P33_V0.150470.614
157_Q166_D0.150410.614
21_G27_G0.150370.613
37_A61_A0.149980.612
28_I33_V0.149370.609
166_D169_G0.149340.609
48_I96_S0.149250.609
34_R54_L0.149150.608
57_D70_I0.148470.606
57_D78_S0.147820.603
42_R64_C0.147240.601
56_L59_L0.147070.600
6_E147_I0.146920.599
205_V210_L0.146890.599
158_K194_V0.146760.599
60_I65_V0.146280.597
39_Q64_C0.145230.592
61_A80_R0.145010.592
134_P143_A0.144830.591
192_E198_R0.144480.589
95_W101_I0.144440.589
85_V92_F0.143820.587
183_A203_R0.143660.586
179_I183_A0.143650.586
105_R116_N0.143190.584
98_G160_D0.143080.584
38_R42_R0.143030.583
93_E98_G0.142980.583
117_L136_F0.142430.581
184_K200_D0.141930.579
8_V185_I0.141420.577
202_L205_V0.140950.575
14_D40_G0.140520.573
3_S187_I0.140340.573
3_S207_P0.140230.572
165_V206_I0.139970.571
122_I135_G0.139420.569
57_D60_I0.138790.566
31_A34_R0.138220.564
46_L59_L0.138140.564
189_T208_G0.137710.562
73_G78_S0.137560.561
51_A70_I0.137530.561
4_L7_A0.137380.560
44_L59_L0.136490.557
164_N207_P0.135210.552
51_A81_F0.13520.552
180_A186_T0.135080.551
207_P210_L0.1350.551
35_E59_L0.134970.551
21_G174_F0.134810.550
53_I75_E0.134460.549
64_C67_R0.134290.548
44_L163_G0.134280.548
21_G173_H0.134110.547
84_A90_I0.132890.542
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
3k6mA0.98161000.131
3rrlA0.96771000.171
1k6dA0.96771000.195
1poiA0.97241000.195
3cdkA0.96771000.198
2ahuA0.9771000.204
2g39A0.783499.90.444
2nvvA0.792699.90.446
2oasA0.769699.90.447
3qliA0.811199.90.456

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