GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TerC - Integral membrane protein TerC family
Pfam: PF03741 (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: CL0292
Length: 183
Sequences: 3236
Seq/Len: 17.68
HH_delta: 0.905 (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
67_G181_I0.577633.524
27_P30_R0.489352.986
46_I138_I0.475472.901
74_A174_G0.430092.624
76_K79_H0.416042.538
28_E32_K0.351732.146
44_L117_L0.344012.099
40_G113_E0.327792.000
72_Y76_K0.319121.947
36_W40_G0.302591.846
6_L130_I0.30031.832
3_L127_A0.299381.827
76_K80_E0.295371.802
72_Y75_I0.2931.788
135_F139_T0.29011.770
46_I50_F0.279811.707
171_A175_F0.272361.662
31_R153_F0.26881.640
75_I79_H0.257181.569
31_R35_F0.256281.564
29_Q32_K0.255961.562
4_V143_I0.25451.553
7_E11_S0.251561.535
51_L54_W0.245021.495
32_K35_F0.235871.439
15_A152_S0.234691.432
74_A177_G0.231411.412
33_A37_G0.22931.399
40_G44_L0.221311.350
33_A112_I0.21691.323
153_F157_K0.21641.320
67_G177_G0.214361.308
78_L167_Y0.214041.306
45_R127_A0.213551.303
157_K161_R0.211581.291
42_I146_L0.208051.269
178_V182_L0.205841.256
4_V8_I0.205221.252
25_L33_A0.203481.241
39_I43_V0.20251.236
26_P29_Q0.201451.229
25_L104_S0.201331.228
74_A182_L0.199911.220
47_I51_L0.198271.210
51_L55_L0.1981.208
68_L72_Y0.195991.196
78_L170_A0.192861.177
23_R160_E0.190691.163
38_I149_R0.190651.163
6_L176_I0.189551.157
3_L7_E0.189361.155
147_L151_L0.18811.148
66_G125_L0.187681.145
45_R123_S0.185391.131
79_H83_D0.184551.126
52_A117_L0.183731.121
13_D122_D0.183391.119
106_W110_I0.182841.116
13_D16_F0.182191.112
14_N145_I0.181771.109
32_K36_W0.181631.108
110_I114_L0.18161.108
110_I113_E0.181141.105
74_A170_A0.178851.091
167_Y171_A0.178331.088
128_V131_T0.177871.085
104_S107_L0.177571.083
47_I124_V0.175471.071
35_F39_I0.174871.067
107_L110_I0.174721.066
27_P31_R0.174641.066
17_V126_A0.172861.055
36_W39_I0.170671.041
14_N45_R0.169731.036
71_L174_G0.169381.033
50_F138_I0.16851.028
74_A155_L0.167491.022
159_L166_K0.167251.020
39_I106_W0.165341.009
68_L83_D0.164351.003
15_A174_G0.163770.999
14_N123_S0.162590.992
20_M24_K0.161880.988
22_F156_A0.160280.978
118_V121_L0.15940.973
14_N41_A0.159130.971
96_K99_P0.1590.970
155_L158_L0.157830.963
43_V47_I0.157790.963
11_S151_L0.15750.961
100_V103_S0.157010.958
32_K105_L0.156760.956
19_A159_L0.156630.956
9_V68_L0.155920.951
103_S106_W0.154840.945
59_F62_I0.154770.944
5_L56_L0.154410.942
63_L176_I0.153990.940
25_L108_A0.153910.939
106_W109_V0.152820.932
24_K170_A0.152220.929
5_L68_L0.152090.928
95_K103_S0.152050.928
103_S107_L0.151420.924
3_L139_T0.151160.922
7_E119_F0.151060.922
101_S106_W0.150960.921
78_L128_V0.150730.920
131_T135_F0.149680.913
81_E84_E0.149360.911
82_R85_D0.149020.909
53_S135_F0.147930.903
64_L181_I0.146410.893
77_L170_A0.146030.891
55_L62_I0.145480.888
81_E167_Y0.145420.887
52_A147_L0.145410.887
175_F179_K0.145380.887
38_I146_L0.144610.882
172_I179_K0.14460.882
165_L168_L0.144130.879
46_I127_A0.14380.877
68_L163_P0.143660.877
34_L141_N0.143650.876
53_S132_D0.14360.876
83_D162_F0.143060.873
102_K107_L0.143020.873
5_L114_L0.141970.866
69_F73_I0.14120.862
66_G180_L0.140940.860
69_F177_G0.14070.858
61_W65_I0.140490.857
46_I141_N0.140430.857
10_L44_L0.140280.856
35_F38_I0.140160.855
13_D45_R0.139850.853
15_A18_I0.139440.851
13_D17_V0.139370.850
114_L117_L0.138960.848
139_T143_I0.138730.846
55_L100_V0.138340.844
19_A156_A0.138310.844
44_L120_S0.13750.839
45_R122_D0.137420.838
153_F156_A0.137340.838
111_Q114_L0.136280.831
61_W75_I0.136190.831
164_Y167_Y0.135880.829
108_A115_A0.134870.823
54_W142_I0.134810.823
51_L178_V0.133940.817
170_A174_G0.133930.817
145_I149_R0.13290.811
31_R154_L0.132270.807
41_A146_L0.131750.804
74_A173_L0.131590.803
49_I141_N0.131330.801
5_L9_V0.131150.800
68_L102_K0.13110.800
53_S57_S0.130930.799
137_V144_S0.130750.798
114_L118_V0.130540.796
98_F102_K0.130340.795
77_L121_L0.129830.792
6_L62_I0.129790.792
48_F120_S0.129680.791
24_K180_L0.129670.791
37_G124_V0.128930.787
79_H164_Y0.128770.786
11_S120_S0.128710.785
19_A23_R0.128640.785
77_L166_K0.128290.783
26_P32_K0.128250.782
57_S75_I0.128230.782
166_K169_A0.127870.780
27_P157_K0.127560.778
129_G180_L0.12740.777
80_E83_D0.126680.773
50_F134_F0.126570.772
84_E163_P0.126370.771
35_F121_L0.125970.769
83_D97_F0.125840.768
15_A19_A0.125630.767
60_P64_L0.125590.766
7_E149_R0.125510.766
14_N165_L0.125430.765
3_L142_I0.12530.764
16_F165_L0.125020.763
26_P30_R0.124810.762
14_N37_G0.124790.761
37_G41_A0.124610.760
75_I78_L0.124540.760
60_P73_I0.124480.759
35_F113_E0.124240.758
39_I109_V0.124110.757
70_L105_L0.124030.757
118_V172_I0.1240.757
37_G45_R0.123420.753
42_I142_I0.123210.752
109_V160_E0.122890.750
71_L75_I0.122510.747
146_L150_F0.122240.746
148_M152_S0.122210.746
13_D37_G0.122140.745
127_A137_V0.1220.744
56_L99_P0.121860.744
127_A130_I0.12170.743
32_K162_F0.121570.742
41_A48_F0.121490.741
16_F62_I0.121490.741
57_S100_V0.120980.738
109_V112_I0.120880.738
20_M166_K0.120460.735
61_W172_I0.120450.735
119_F123_S0.120030.732
65_I178_V0.119960.732
18_I159_L0.119510.729
11_S115_A0.119450.729
22_F112_I0.119430.729
144_S152_S0.119410.729
54_W57_S0.119280.728
131_T136_I0.119220.727
4_V15_A0.118940.726
133_D140_G0.118940.726
42_I182_L0.118570.723
10_L13_D0.118540.723
123_S126_A0.118440.723
46_I140_G0.11840.722
8_I50_F0.118250.721
50_F135_F0.117720.718
105_L108_A0.117650.718
75_I177_G0.117220.715
28_E106_W0.11680.713
9_V114_L0.116680.712
138_I141_N0.116570.711
78_L81_E0.116520.711
21_I24_K0.116350.710
53_S128_V0.116270.709
96_K133_D0.116220.709
66_G119_F0.11620.709
73_I77_L0.11610.708
57_S103_S0.116060.708
63_L180_L0.115580.705
68_L97_F0.115580.705
166_K170_A0.115440.704
125_L173_L0.115080.702
24_K108_A0.114710.700
3_L137_V0.114610.699
3_L66_G0.114330.698
81_E178_V0.114180.697
140_G144_S0.114050.696
61_W64_L0.1140.696
136_I148_M0.113850.695
75_I175_F0.113770.694
44_L113_E0.113690.694
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
2gfpA0.978164.50.905
3o7qA0.989156.10.909
4j05A0.584740.80.917
1pw4A0.5246400.918
4iu9B0.9672290.923
3qe7A0.524628.20.923
4apsA0.535523.60.926
2xutA0.546424.30.926
3l1lA0.502712.30.934
4jr9A0.967213.30.934
If you are interested in a protein containing this domain,
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