GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
AroM - AroM protein
Pfam: PF07302 (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: CL0399
Length: 221
Sequences: 3272
Seq/Len: 14.81
HH_delta: 0.446 (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
127_Q151_P0.626292.973
90_V216_A0.621612.950
92_L216_A0.589652.799
133_P136_E0.566492.689
88_Y91_I0.561482.665
132_V137_Q0.526312.498
77_Q105_R0.508642.414
129_G174_L0.46692.216
125_G181_L0.460572.186
42_E45_A0.443042.103
133_P137_Q0.437552.077
58_R75_R0.426432.024
134_L138_I0.424132.013
82_Q86_Q0.412931.960
80_I91_I0.410711.949
46_L217_A0.397041.885
126_H180_D0.380821.808
194_R198_Q0.378611.797
120_A215_L0.372221.767
215_L218_E0.369881.756
172_R176_E0.366511.740
51_G89_D0.36531.734
129_G179_A0.364931.732
116_P144_K0.354991.685
95_C186_C0.353021.676
107_P112_D0.348721.655
166_E169_A0.346321.644
73_E101_G0.342911.628
206_L211_L0.338851.608
190_T209_R0.337051.600
109_L112_D0.329351.563
95_C98_E0.327931.556
181_L206_L0.319881.518
81_A85_A0.317631.508
129_G182_I0.316961.504
132_V136_E0.309051.467
167_L170_A0.30651.455
71_K74_P0.305231.449
43_I53_Y0.300561.427
127_Q153_V0.285371.354
81_A105_R0.281721.337
127_Q180_D0.27971.328
75_R78_A0.27831.321
58_R78_A0.276981.315
172_R200_A0.275791.309
165_E169_A0.274891.305
117_P120_A0.268851.276
73_E77_Q0.267931.272
117_P211_L0.254311.207
125_G180_D0.253031.201
100_P104_A0.252941.201
171_A182_I0.251911.196
136_E140_Q0.251461.194
71_K75_R0.248961.182
92_L212_V0.24731.174
132_V135_P0.24691.172
84_E110_E0.246861.172
164_E199_R0.239111.135
101_G105_R0.237191.126
102_L106_N0.236411.122
144_K147_P0.235291.117
165_E168_A0.235251.117
178_G203_K0.233281.107
131_I182_I0.232911.105
134_L137_Q0.230921.096
43_I216_A0.230151.092
77_Q80_I0.229421.089
156_A173_E0.228821.086
101_G104_A0.227451.080
166_E170_A0.223041.059
56_V79_C0.223031.059
42_E210_T0.22291.058
143_E146_Q0.222781.057
210_T214_R0.221771.053
173_E176_E0.220251.045
78_A82_Q0.218051.035
93_L112_D0.217461.032
103_T106_N0.21681.029
107_P110_E0.216691.028
81_A106_N0.216291.027
112_D115_L0.214261.017
195_D199_R0.214081.016
197_V200_A0.210210.998
168_A172_R0.20860.990
99_F160_Y0.207610.985
130_V152_V0.206120.978
93_L102_L0.202120.959
194_R205_V0.201670.957
82_Q85_A0.201590.957
137_Q155_A0.20120.955
83_L91_I0.199310.946
146_Q151_P0.199050.945
135_P138_I0.198780.943
84_E109_L0.197960.940
127_Q178_G0.197930.939
127_Q179_A0.197630.938
196_I199_R0.197330.937
60_R64_Q0.197140.936
171_A201_L0.196560.933
55_L60_R0.195620.928
145_W152_V0.191830.911
132_V140_Q0.191450.909
140_Q143_E0.190370.904
133_P139_A0.190310.903
194_R207_L0.190090.902
142_A145_W0.189370.899
133_P140_Q0.188990.897
168_A200_A0.188170.893
77_Q81_A0.188130.893
84_E106_N0.18810.893
158_S161_E0.186740.886
101_G106_N0.186380.885
208_S211_L0.186190.884
198_Q205_V0.186010.883
97_G187_M0.185930.882
110_E116_P0.184790.877
83_L88_Y0.18390.873
110_E132_V0.183770.872
58_R64_Q0.183520.871
137_Q140_Q0.183410.871
98_E186_C0.183380.870
160_Y163_D0.183320.870
153_V179_A0.183220.870
179_A182_I0.182870.868
39_S191_Q0.180910.859
194_R210_T0.180150.855
141_Q145_W0.179670.853
119_V148_L0.179170.850
140_Q155_A0.178920.849
169_A172_R0.178510.847
135_P139_A0.176980.840
70_K74_P0.176750.839
68_S71_K0.174930.830
100_P106_N0.174330.827
132_V139_A0.174290.827
122_L128_V0.173070.821
46_L213_A0.172680.820
106_N110_E0.171680.815
47_A89_D0.169730.806
106_N109_L0.169380.804
214_R217_A0.169030.802
77_Q101_G0.168950.802
137_Q141_Q0.16890.802
213_A217_A0.168230.798
49_E54_V0.167420.795
135_P140_Q0.167050.793
123_V126_H0.166980.793
80_I84_E0.166940.792
146_Q169_A0.166920.792
172_R175_A0.166360.790
126_H149_G0.165880.787
122_L206_L0.16550.786
70_K73_E0.164790.782
84_E87_G0.164040.779
167_L171_A0.163970.778
64_Q75_R0.163670.777
97_G186_C0.163520.776
103_T116_P0.163290.775
162_G189_Y0.162840.773
156_A177_Q0.162830.773
142_A146_Q0.162830.773
136_E141_Q0.162590.772
72_V76_L0.162320.770
153_V177_Q0.162280.770
75_R79_C0.161970.769
41_E170_A0.161030.764
107_P117_P0.160980.764
97_G188_G0.160830.763
123_V203_K0.160710.763
121_A214_R0.16040.761
142_A155_A0.160090.760
61_D64_Q0.160020.760
169_A173_E0.159740.758
43_I92_L0.15890.754
164_E168_A0.158870.754
96_T187_M0.157570.748
125_G206_L0.156820.744
136_E139_A0.156790.744
161_E167_L0.15650.743
172_R199_R0.15640.742
76_L79_C0.156280.742
146_Q152_V0.155770.739
163_D189_Y0.155630.739
128_V150_N0.155580.738
126_H151_P0.155250.737
180_D208_S0.153750.730
160_Y189_Y0.152740.725
92_L102_L0.152590.724
94_L97_G0.152220.722
131_I197_V0.15140.719
42_E209_R0.15130.718
129_G177_Q0.151110.717
128_V180_D0.150030.712
96_T188_G0.14960.710
43_I213_A0.14950.710
74_P78_A0.148720.706
55_L86_Q0.14860.705
171_A174_L0.148550.705
52_E91_I0.148360.704
123_V180_D0.148170.703
79_C82_Q0.148030.703
80_I83_L0.146840.697
63_T134_L0.146460.695
212_V215_L0.145770.692
55_L61_D0.145090.689
130_V137_Q0.144940.688
197_V202_G0.144660.687
97_G135_P0.144270.685
197_V201_L0.144220.685
59_L163_D0.144220.685
198_Q202_G0.144190.684
39_S42_E0.14410.684
64_Q71_K0.143930.683
91_I110_E0.143780.682
116_P120_A0.143440.681
109_L116_P0.143210.680
168_A201_L0.143160.679
175_A202_G0.1430.679
138_I141_Q0.142840.678
83_L87_G0.142690.677
197_V205_V0.142520.676
195_D198_Q0.142030.674
80_I106_N0.141840.673
37_G40_R0.141240.670
103_T107_P0.141060.670
100_P107_P0.140820.668
181_L204_P0.140570.667
173_E177_Q0.140530.667
57_T79_C0.139920.664
175_A201_L0.139170.661
145_W183_V0.138560.658
49_E52_E0.138340.657
62_G184_L0.137640.653
79_C91_I0.137420.652
44_A53_Y0.137120.651
188_G191_Q0.136740.649
96_T186_C0.134920.640
163_D193_M0.13480.640
81_A84_E0.134470.638
196_I200_A0.134010.636
168_A173_E0.133970.636
103_T112_D0.133860.635
64_Q76_L0.13360.634
186_C207_L0.132990.631
61_D188_G0.132570.629
112_D116_P0.132510.629
51_G68_S0.132080.627
145_W150_N0.131770.625
76_L93_L0.131650.625
76_L98_E0.130570.620
189_Y209_R0.130480.619
57_T82_Q0.130180.618
44_A213_A0.130170.618
134_L140_Q0.129740.616
211_L214_R0.12940.614
141_Q150_N0.12930.614
195_D218_E0.129060.613
80_I99_F0.128870.612
178_G204_P0.128810.611
123_V148_L0.128650.611
110_E141_Q0.128640.611
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
2xedA0.977499.90.446
2dwuA0.873399.90.45
3istA0.864399.90.453
3ixlA0.868899.90.454
2zskA0.846299.90.458
3ojcA0.859799.90.458
3outA0.877899.90.463
2gzmA0.850799.90.465
3s81A0.950299.90.465
1zuwA0.850799.90.466

Page generated in 0.0351 seconds.