GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CoA_binding_3 - CoA-binding domain
Pfam: PF13727 (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: CL0063
Length: 175
Sequences: 2693
Seq/Len: 15.39
HH_delta: 0.478 (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
26_L52_F0.671764.131
93_A109_F0.555583.417
144_E172_R0.505533.109
37_F45_R0.446652.747
108_G127_L0.366242.252
81_L108_G0.350112.153
89_G109_F0.338512.082
156_Q159_R0.327472.014
82_I148_A0.316491.946
19_R23_I0.315781.942
137_V169_V0.305681.880
135_E139_E0.30111.852
79_N143_D0.295221.816
82_I93_A0.282081.735
82_I109_F0.278971.716
96_L106_V0.277451.706
22_L56_I0.276531.701
74_R77_G0.266691.640
93_A106_V0.264691.628
110_V136_L0.261961.611
129_D132_D0.260841.604
25_W56_I0.252661.554
17_E67_R0.251021.544
81_L84_G0.247511.522
113_D116_D0.243821.499
132_D135_E0.240791.481
29_F52_F0.240491.479
149_L152_S0.235551.449
153_E156_Q0.234361.441
147_I157_I0.231821.426
81_L136_L0.229271.410
85_A89_G0.228461.405
136_L140_H0.227931.402
40_K45_R0.227451.399
3_F24_A0.227341.398
146_I172_R0.227051.396
164_L168_G0.222991.371
164_L171_V0.220791.358
44_S47_F0.219121.348
158_K162_E0.217921.340
81_L110_V0.217871.340
80_V104_Y0.216431.331
137_V167_H0.212911.309
104_Y144_E0.2121.304
86_G89_G0.211551.301
79_N105_R0.209931.291
90_R122_D0.206261.268
46_S50_I0.206041.267
108_G128_G0.205361.263
134_P163_E0.203321.250
134_P137_V0.202761.247
144_E170_R0.201721.241
82_I89_G0.198941.223
85_A111_D0.198561.221
137_V142_I0.196931.211
127_L136_L0.19681.210
123_G126_V0.194651.197
81_L142_I0.194061.193
85_A112_D0.192591.184
51_F55_S0.19251.184
83_V110_V0.192041.181
43_F48_L0.191861.180
159_R163_E0.191631.178
70_L74_R0.191411.177
89_G111_D0.184151.132
135_E138_R0.183741.130
133_L164_L0.1831.125
79_N141_D0.182561.123
90_R94_E0.182531.123
5_L24_A0.182091.120
86_G113_D0.180971.113
89_G112_D0.179891.106
25_W55_S0.17961.105
47_F51_F0.178931.100
112_D156_Q0.17821.096
109_F124_V0.177471.091
40_K44_S0.176381.085
128_G132_D0.175751.081
52_F56_I0.175051.077
145_V164_L0.174561.074
20_R23_I0.170711.050
167_H171_V0.170121.046
92_L96_L0.16561.018
92_L146_I0.165331.017
107_V142_I0.163811.007
59_L62_S0.163731.007
100_P103_G0.163371.005
117_R129_D0.163171.003
89_G148_A0.162851.002
17_E63_R0.16130.992
157_I161_I0.160210.985
3_F27_I0.158620.975
104_Y172_R0.15820.973
99_N102_L0.157780.970
50_I54_L0.157120.966
106_V124_V0.156760.964
85_A148_A0.154350.949
162_E165_E0.154330.949
110_V133_L0.153620.945
92_L95_A0.153390.943
88_A149_L0.153380.943
26_L56_I0.153150.942
70_L103_G0.151730.933
112_D149_L0.150810.927
125_P128_G0.149740.921
78_R144_E0.148550.914
21_I60_I0.147760.909
93_A124_V0.147720.908
109_F126_V0.147170.905
81_L140_H0.146940.904
18_L60_I0.145310.894
4_G7_R0.142720.878
10_R13_S0.142450.876
14_F67_R0.141130.868
32_L36_L0.141030.867
93_A126_V0.14090.867
145_V169_V0.14040.863
21_I56_I0.139990.861
62_S66_L0.139510.858
37_F43_F0.13930.857
158_K171_V0.138910.854
37_F44_S0.138830.854
83_V145_V0.138330.851
77_G105_R0.1380.849
83_V127_L0.137720.847
146_I173_V0.137440.845
138_R167_H0.137160.844
28_A55_S0.137140.843
55_S59_L0.136990.842
89_G93_A0.13660.840
137_V145_V0.13620.838
45_R50_I0.136040.837
29_F55_S0.135870.836
134_P138_R0.135460.833
34_L76_S0.135370.833
124_V127_L0.134480.827
10_R14_F0.134350.826
10_R74_R0.134320.826
23_I28_A0.134120.825
109_F127_L0.133750.823
163_E167_H0.132840.817
37_F40_K0.13280.817
131_D163_E0.132330.814
83_V133_L0.13220.813
133_L150_P0.131030.806
86_G111_D0.13060.803
59_L63_R0.130310.801
36_L40_K0.130120.800
88_A150_P0.130080.800
80_V84_G0.12940.796
9_W12_R0.128960.793
74_R103_G0.12870.791
40_K46_S0.12820.788
134_P166_N0.127820.786
81_L127_L0.127530.784
84_G148_A0.127390.783
65_L68_R0.127360.783
130_L156_Q0.127150.782
3_F23_I0.127120.782
25_W28_A0.126910.780
72_R75_R0.126480.778
19_R102_L0.126320.777
40_K43_F0.125240.770
8_S11_R0.12510.769
11_R77_G0.125010.769
85_A109_F0.124910.768
82_I86_G0.124770.767
88_A112_D0.124530.766
64_L68_R0.123570.760
54_L58_L0.123540.760
113_D117_R0.123370.759
112_D128_G0.123140.757
84_G89_G0.122850.756
121_I124_V0.12270.755
161_I171_V0.122640.754
146_I166_N0.12220.752
152_S156_Q0.122150.751
155_E159_R0.121880.750
23_I27_I0.121760.749
86_G149_L0.120750.743
86_G148_A0.120670.742
118_G121_I0.12040.740
104_Y171_V0.120260.740
149_L153_E0.11950.735
115_S119_P0.119290.734
79_N107_V0.119050.732
32_L169_V0.118880.731
83_V130_L0.118840.731
29_F51_F0.118380.728
94_E98_S0.117710.724
151_W154_E0.117230.721
93_A97_R0.116690.718
24_A28_A0.116670.718
145_V170_R0.116640.717
72_R76_S0.116550.717
24_A63_R0.116070.714
25_W59_L0.116050.714
68_R71_R0.115740.712
157_I173_V0.115420.710
88_A95_A0.114760.706
21_I59_L0.114340.703
43_F47_F0.113860.700
72_R97_R0.113160.696
86_G150_P0.112770.694
73_Y76_S0.11260.692
122_D125_P0.11250.692
28_A51_F0.112390.691
69_Y72_R0.112270.690
5_L8_S0.111980.689
14_F33_V0.111770.687
51_F168_G0.111710.687
34_L114_P0.111580.686
82_I124_V0.111550.686
14_F17_E0.111510.686
63_R67_R0.111370.685
164_L167_H0.11090.682
36_L42_A0.11070.681
6_Y24_A0.110620.680
107_V145_V0.110410.679
108_G142_I0.110340.679
55_S58_L0.109240.672
111_D156_Q0.109170.671
38_F48_L0.109160.671
142_I148_A0.108980.670
170_R173_V0.108940.670
38_F45_R0.10880.669
147_I171_V0.108760.669
8_S17_E0.108690.668
58_L62_S0.108660.668
23_I73_Y0.108520.667
138_R166_N0.108350.666
144_E149_L0.108060.665
94_E122_D0.108040.664
110_V168_G0.107860.663
83_V128_G0.107530.661
83_V129_D0.107250.660
91_E116_D0.107250.660
61_L80_V0.107070.658
66_L69_Y0.106690.656
31_L35_I0.106260.653
136_L142_I0.105640.650
108_G136_L0.10560.649
90_R109_F0.105550.649
147_I167_H0.105510.649
88_A151_W0.104950.645
87_G131_D0.104790.644
21_I25_W0.104750.644
88_A148_A0.104160.641
56_I61_L0.104070.640
28_A172_R0.104060.640
22_L75_R0.103910.639
106_V109_F0.103860.639
79_N103_G0.103680.638
111_D150_P0.103630.637
27_I99_N0.103590.637
10_R70_L0.103530.637
31_L154_E0.103520.637
132_D136_L0.10350.637
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
3nklA0.565799.40.478
3keoA0.874398.70.63
4ea9A0.582998.60.638
2dt5A0.891498.50.659
2vt3A0.891498.20.688
2py6A0.788698.20.69
3ohsX0.554397.20.759
3e9mA0.5696.90.774
4h3vA0.577196.80.777
3evnA0.5696.80.777

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