GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Sulfate_transp - Sulfate transporter family
Pfam: PF00916 (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: CL0062
Length: 280
Sequences: 7189
Seq/Len: 25.68
HH_delta: 0.46 (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
37_L72_G0.947124.529
109_L113_L0.58112.779
218_A223_S0.560142.679
7_G182_N0.532962.549
142_S145_L0.49662.375
171_I214_Y0.466952.233
74_V78_F0.452.152
76_L256_V0.44542.130
70_A74_V0.442982.118
213_N223_S0.432462.068
75_A252_A0.430272.058
226_I230_F0.418732.002
229_L233_L0.414271.981
195_S200_G0.411611.968
66_W70_A0.407151.947
171_I210_S0.39711.899
79_L103_V0.39171.873
110_L114_F0.390781.869
65_N68_T0.383491.834
194_V198_F0.366551.753
102_I106_L0.363661.739
105_V109_L0.361011.726
67_P70_A0.359831.721
26_A258_G0.354341.695
76_L252_A0.349751.673
107_G249_V0.345181.651
19_S263_D0.31111.488
68_T72_G0.308221.474
107_G111_S0.300981.439
110_L113_L0.299541.432
16_P20_G0.29421.407
78_F106_L0.288861.381
193_I196_G0.288131.378
160_G202_P0.287381.374
163_E204_S0.287371.374
168_A184_E0.28691.372
172_A179_I0.285071.363
79_L253_I0.281781.348
82_I102_I0.279551.337
186_I190_L0.278871.334
100_P253_I0.277291.326
123_I126_E0.276361.322
111_S116_L0.276071.320
112_W244_Y0.274541.313
70_A73_L0.273821.309
109_L112_W0.273491.308
175_T214_Y0.272931.305
77_V81_I0.272091.301
108_T111_S0.270561.294
131_L134_P0.26941.288
120_G124_V0.269111.287
147_L150_L0.268341.283
74_V110_L0.266991.277
143_W146_I0.265421.269
148_D151_P0.265121.268
134_P137_P0.26471.266
102_I105_V0.264061.263
233_L237_F0.26361.261
141_I197_L0.261841.252
37_L251_A0.261211.249
106_L110_L0.261021.248
194_V197_L0.259651.242
68_T248_A0.256381.226
163_E167_I0.256351.226
82_I99_A0.256291.226
183_Q186_I0.254021.215
78_F82_I0.253711.213
213_N218_A0.252451.207
103_V253_I0.25081.199
144_S147_L0.250441.198
126_E129_S0.249471.193
225_L229_L0.249381.193
69_L73_L0.247461.183
74_V107_G0.247271.182
95_P98_P0.246981.181
149_L152_T0.245791.175
229_L232_L0.245351.173
120_G123_I0.24461.170
108_T244_Y0.244551.169
30_I255_I0.243981.167
25_I204_S0.243221.163
101_L105_V0.242891.162
15_R19_S0.242751.161
74_V106_L0.2421.157
209_R212_V0.240791.152
18_I169_K0.240091.148
189_G193_I0.239851.147
36_N247_K0.239841.147
180_D183_Q0.239311.144
71_I107_G0.238871.142
206_S209_R0.236951.133
234_V238_L0.234561.122
147_L151_P0.234461.121
72_G252_A0.234121.120
223_S227_S0.234041.119
108_T245_I0.232551.112
119_Y123_I0.229241.096
191_A194_V0.227961.090
23_A26_A0.227141.086
190_L193_I0.2261.081
33_Q255_I0.224561.074
80_L256_V0.223641.069
164_S188_L0.222651.065
207_F210_S0.221951.061
153_A157_A0.22051.054
65_N69_L0.220471.054
167_I207_F0.21981.051
20_G24_G0.219041.047
36_N251_A0.218241.044
75_A107_G0.217711.041
122_A125_G0.217291.039
208_S211_A0.217271.039
71_I111_S0.216951.037
115_L118_K0.216441.035
125_G128_P0.216071.033
187_A190_L0.21571.032
234_V242_L0.214381.025
212_V216_A0.214081.024
204_S208_S0.214031.024
78_F103_V0.212331.015
235_L239_A0.211871.013
69_L72_G0.210891.009
164_S168_A0.209711.003
160_G204_S0.209271.001
246_P249_V0.208960.999
167_I206_S0.20890.999
75_A103_V0.208180.996
256_V259_I0.207730.993
76_L80_L0.207520.992
195_S203_G0.207460.992
256_V260_S0.206970.990
26_A262_I0.20640.987
31_F35_P0.204340.977
227_S234_V0.203820.975
104_V253_I0.202720.969
103_V107_G0.20250.968
77_V80_L0.202180.967
226_I229_L0.20210.966
121_V124_V0.201520.964
37_L255_I0.200730.960
108_T112_W0.198780.951
67_P116_L0.198370.949
168_A188_L0.197670.945
193_I197_L0.196820.941
122_A126_E0.196480.940
237_F240_P0.194060.928
222_L226_I0.19370.926
165_L171_I0.193210.924
145_L148_D0.192110.919
71_I75_A0.191660.917
174_K215_R0.189430.906
106_L109_L0.189360.906
208_S212_V0.188880.903
142_S146_I0.187680.898
79_L100_P0.18720.895
143_W147_L0.185950.889
73_L77_V0.185690.888
30_I258_G0.184930.884
172_A178_R0.183710.879
160_G189_G0.182920.875
186_I193_I0.182840.874
160_G192_N0.181970.870
144_S229_L0.181880.870
137_P140_D0.181780.869
157_A161_F0.18170.869
117_D120_G0.18010.861
105_V108_T0.179270.857
75_A249_V0.178740.855
25_I166_L0.178480.854
190_L194_V0.178190.852
151_P154_L0.177150.847
34_L38_L0.176910.846
210_S213_N0.176520.844
119_Y122_A0.175670.840
26_A33_Q0.175560.840
207_F211_A0.175350.839
118_K125_G0.175290.838
119_Y124_V0.175140.838
173_K186_I0.174610.835
230_F234_V0.174470.834
158_I165_L0.17430.834
220_T223_S0.174290.833
216_A223_S0.173910.832
211_A215_R0.173660.830
34_L255_I0.173470.830
209_R213_N0.173320.829
21_F207_F0.172980.827
144_S148_D0.172630.826
167_I205_G0.172290.824
222_L225_L0.172070.823
217_G220_T0.171920.822
160_G164_S0.171870.822
83_R99_A0.171440.820
240_P244_Y0.171070.818
210_S218_A0.170970.818
99_A103_V0.169910.813
66_W69_L0.169610.811
37_L73_L0.169050.808
152_T155_A0.168610.806
188_L192_N0.168530.806
19_S173_K0.168390.805
71_I249_V0.16830.805
208_S257_V0.168190.804
17_V23_A0.167640.802
8_F14_P0.167570.801
166_L207_F0.166560.797
163_E257_V0.166280.795
241_L244_Y0.165420.791
134_P198_F0.164890.789
22_L254_L0.163390.781
207_F227_S0.163210.781
71_I116_L0.16310.780
114_F117_D0.163010.780
19_S23_A0.162610.778
182_N192_N0.162020.775
169_K173_K0.161780.774
22_L209_R0.16150.772
259_I263_D0.16030.767
8_F12_F0.159660.764
71_I103_V0.159370.762
98_P102_I0.159160.761
38_L69_L0.158890.760
13_I18_I0.158770.759
39_G137_P0.158760.759
206_S210_S0.158670.759
71_I110_L0.158560.758
154_L157_A0.158180.756
122_A247_K0.158170.756
249_V252_A0.15810.756
124_V127_I0.158010.756
233_L236_L0.157990.756
174_K214_Y0.157160.752
191_A195_S0.156990.751
136_L197_L0.156840.750
221_R224_G0.156720.749
192_N204_S0.156590.749
22_L167_I0.156370.748
228_A232_L0.156270.747
189_G192_N0.156240.747
245_I249_V0.156210.747
140_D144_S0.156180.747
184_E192_N0.156140.747
97_I102_I0.156040.746
110_L116_L0.155910.746
108_T249_V0.155570.744
30_I227_S0.155460.743
38_L41_P0.155150.742
209_R254_L0.155080.742
101_L246_P0.15410.737
78_F81_I0.153970.736
24_G28_L0.153680.735
140_D143_W0.15350.734
120_G125_G0.153320.733
161_F188_L0.153130.732
94_W98_P0.152290.728
189_G250_L0.152060.727
109_L244_Y0.151670.725
103_V252_A0.151520.725
105_V241_L0.151230.723
67_P114_F0.150560.720
75_A199_G0.150390.719
36_N40_I0.150260.719
33_Q187_A0.150190.718
170_S174_K0.149530.715
22_L261_L0.14910.713
116_L120_G0.148960.712
82_I106_L0.14890.712
185_L204_S0.148390.710
135_S140_D0.148190.709
208_S213_N0.147660.706
149_L153_A0.14760.706
126_E243_A0.147360.705
113_L116_L0.147080.703
10_V13_I0.147030.703
163_E187_A0.146940.703
25_I185_L0.146880.702
79_L83_R0.146820.702
136_L141_I0.146760.702
254_L258_G0.146580.701
118_K126_E0.145860.698
29_I213_N0.145050.694
184_E188_L0.144560.691
23_A262_I0.144380.690
71_I118_K0.14420.690
225_L228_A0.144130.689
240_P255_I0.143710.687
35_P38_L0.143320.685
151_P155_A0.142770.683
26_A29_I0.142720.683
164_S189_G0.142610.682
22_L170_S0.142450.681
112_W116_L0.142320.681
103_V256_V0.142310.681
164_S171_I0.141630.677
163_E208_S0.141120.675
79_L256_V0.140930.674
158_I162_I0.140760.673
240_P243_A0.140740.673
137_P142_S0.140680.673
186_I189_G0.140680.673
25_I208_S0.140540.672
8_F11_R0.140380.671
24_G225_L0.140260.671
177_Y180_D0.140060.670
48_G66_W0.139770.668
172_A176_G0.139720.668
162_I169_K0.138920.664
206_S212_V0.13890.664
164_S205_G0.138670.663
26_A111_S0.138620.663
158_I202_P0.138610.663
159_V201_M0.138390.662
160_G191_A0.13820.661
69_L251_A0.13810.660
143_W182_N0.1380.660
20_G30_I0.137360.657
104_V239_A0.137040.655
30_I261_L0.136790.654
31_F34_L0.136650.653
78_F110_L0.136240.652
191_A203_G0.135540.648
211_A260_S0.135510.648
209_R221_R0.135470.648
205_G212_V0.135440.648
34_L146_I0.135410.648
206_S254_L0.13510.646
146_I149_L0.134860.645
26_A231_V0.134840.645
164_S185_L0.134780.645
18_I21_F0.134620.644
10_V162_I0.134610.644
218_A221_R0.133720.639
67_P71_I0.133690.639
19_S107_G0.133570.639
17_V163_E0.133380.638
78_F96_P0.133250.637
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
3qe7A0.88931000.46
1btsA0.0929120.954
3j01B0.41075.80.96
4gc0A0.66074.80.962
2a65A0.94292.70.966
3ipvA0.21072.20.967
4huqS0.40362.10.968
2zxeA0.29291.90.968
3tuiA0.31071.80.969
3ixzA0.28211.80.969

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