GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FecCD - FecCD transport family
Pfam: PF01032 (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: CL0142
Length: 311
Sequences: 7677
Seq/Len: 24.68
HH_delta: -0.012 (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
200_D259_D1.341945.005
54_A268_A1.176794.389
215_N218_R0.935253.488
50_I272_A0.888953.316
90_A105_F0.829523.094
62_L223_L0.811733.028
48_A173_A0.791682.953
252_A270_I0.791192.951
55_A185_L0.771632.878
55_A230_L0.771112.876
49_A170_L0.767122.861
62_L192_L0.705892.633
206_D220_R0.705872.633
179_Y183_P0.671852.506
58_L268_A0.645592.408
61_A267_S0.637382.377
55_A234_A0.624312.329
52_V238_V0.615632.296
85_L143_F0.601232.243
256_F266_L0.586242.187
200_D260_H0.578232.157
50_I276_L0.569732.125
45_R279_D0.559872.088
85_L146_L0.556512.076
52_V234_A0.537522.005
63_L227_A0.52581.961
65_T260_H0.524381.956
218_R222_L0.517961.932
49_A275_L0.505081.884
58_L189_L0.492321.836
110_A232_A0.484651.808
51_L182_L0.481451.796
173_A177_Q0.466231.739
184_L233_A0.462391.725
195_L198_K0.458361.710
183_P187_I0.457151.705
281_I285_L0.456381.702
198_K219_V0.454081.694
187_I190_I0.451331.683
179_Y182_L0.450831.682
174_S177_Q0.446861.667
210_K217_K0.434881.622
248_A274_L0.428341.598
195_L222_L0.424471.583
47_L178_L0.424141.582
66_L223_L0.414031.544
281_I296_V0.40731.519
48_A237_L0.406231.515
244_V275_L0.403921.507
260_H263_L0.402441.501
252_A263_L0.395761.476
170_L275_L0.394851.473
252_A266_L0.387331.445
262_Y265_P0.38551.438
282_A293_V0.384321.433
88_V147_T0.38121.422
217_K220_R0.380321.419
115_L119_L0.379831.417
201_I214_V0.378561.412
86_G105_F0.376441.404
259_D262_Y0.373451.393
84_S147_T0.37081.383
61_A263_L0.369181.377
175_W178_L0.364341.359
195_L219_V0.361251.347
89_L93_L0.360161.343
218_R221_L0.359611.341
283_R290_E0.354861.324
191_L195_L0.351181.310
191_L226_L0.348271.299
48_A178_L0.345761.290
191_L222_L0.344531.285
57_A248_A0.343131.280
80_S231_T0.34051.270
46_I280_L0.338611.263
219_V222_L0.33781.260
86_G109_G0.337381.258
260_H265_P0.337141.257
51_L185_L0.334841.249
279_D283_R0.334561.248
54_A272_A0.334061.246
273_I277_L0.331471.236
252_A255_L0.327711.222
248_A252_A0.32761.222
114_L228_S0.323821.208
104_L108_I0.323751.208
265_P268_A0.32111.198
46_I276_L0.320161.194
80_S240_P0.319951.193
59_S230_L0.31831.187
195_L223_L0.317531.184
208_Q211_S0.316171.179
39_W43_L0.315661.177
262_Y266_L0.313551.170
188_G230_L0.312011.164
117_V139_I0.311551.162
61_A260_H0.311131.160
110_A228_S0.303831.133
51_L181_L0.301891.126
188_G226_L0.300651.121
199_L223_L0.299431.117
79_I110_A0.298991.115
142_L302_G0.297871.111
51_L178_L0.297291.109
113_A143_F0.297261.109
304_F307_Y0.297031.108
112_L116_L0.296861.107
188_G229_L0.294941.100
117_V121_S0.294611.099
107_F229_L0.29231.090
57_A61_A0.292131.090
244_V297_T0.291961.089
89_L150_L0.289641.080
85_L89_L0.287641.073
87_A106_A0.287551.073
221_L225_L0.286441.068
162_V166_L0.283711.058
217_K221_L0.282931.055
182_L186_L0.28251.054
241_I275_L0.281881.051
61_A264_L0.279061.041
81_S143_F0.277661.036
205_G209_A0.277261.034
266_L270_I0.276631.032
181_L185_L0.274581.024
186_L190_I0.273861.021
183_P186_L0.272391.016
299_L303_P0.270891.010
196_S261_R0.270011.007
190_I194_L0.269111.004
107_F111_L0.269111.004
268_A272_A0.267760.999
238_V241_I0.2670.996
263_L267_S0.266110.993
281_I284_T0.264840.988
45_R283_R0.264380.986
214_V219_V0.263310.982
47_L51_L0.263230.982
282_A292_P0.261050.974
209_A216_V0.260150.970
84_S166_L0.259450.968
180_I183_P0.25740.960
181_L237_L0.255380.953
252_A256_F0.255090.951
82_G109_G0.253790.947
54_A57_A0.253770.947
176_E179_Y0.253490.945
206_D216_V0.253380.945
58_L264_L0.253160.944
298_A303_P0.250490.934
274_L300_I0.250250.933
113_A117_V0.2490.929
163_Q166_L0.246580.920
206_D210_K0.246480.919
105_F109_G0.246120.918
54_A189_L0.245490.916
256_F262_Y0.24510.914
201_I212_L0.244110.911
234_A238_V0.242980.906
275_L297_T0.242890.906
55_A59_S0.241970.903
224_L228_S0.241660.901
83_A110_A0.241330.900
75_S80_S0.241050.899
111_L232_A0.240490.897
202_L216_V0.240050.895
160_Q163_Q0.239980.895
60_G249_P0.236740.883
286_F291_L0.235630.879
257_G262_Y0.234880.876
56_L244_V0.234460.875
200_D265_P0.233920.872
145_A298_A0.232710.868
124_R127_F0.230170.859
286_F289_Y0.228590.853
257_G263_L0.228370.852
277_L280_L0.228050.851
192_L226_L0.227810.850
47_L175_W0.226520.845
219_V223_L0.225690.842
82_G113_A0.22530.840
67_T70_P0.224920.839
85_L150_L0.224860.839
187_I191_L0.224510.837
102_L105_F0.224460.837
175_W179_Y0.22270.831
87_A102_L0.21840.815
155_N158_S0.218160.814
149_F153_L0.217860.813
73_D76_I0.217680.812
185_L234_A0.217410.811
85_L147_T0.216330.807
200_D261_R0.21530.803
282_A288_P0.214230.799
144_S166_L0.214090.799
199_L260_H0.213210.795
184_L188_G0.212490.793
159_L163_Q0.212310.792
191_L194_L0.211770.790
188_G233_A0.211690.790
255_L270_I0.211540.789
265_P269_L0.21110.787
251_I270_I0.210910.787
81_S84_S0.209090.780
274_L278_A0.208780.779
160_Q166_L0.208620.778
189_L193_L0.208460.778
101_G104_L0.207030.772
86_G90_A0.206920.772
198_K215_N0.206340.770
303_P307_Y0.206240.769
178_L181_L0.20620.769
84_S240_P0.205820.768
90_A102_L0.204920.764
282_A291_L0.204530.763
88_V162_V0.204440.763
92_L150_L0.204050.761
49_A276_L0.203650.760
120_L135_A0.203260.758
228_S232_A0.202450.755
45_R290_E0.202240.754
216_V220_R0.200950.750
58_L192_L0.200270.747
63_L228_S0.199660.745
63_L74_P0.199530.744
38_I43_L0.199430.744
73_D245_G0.198920.742
118_Y221_L0.198780.741
280_L284_T0.198650.741
193_L264_L0.198550.741
200_D203_S0.198370.740
135_A139_I0.198340.740
143_F146_L0.197860.738
118_Y217_K0.197520.737
159_L162_V0.197410.736
91_I102_L0.196990.735
114_L118_Y0.19670.734
185_L189_L0.196570.733
50_I170_L0.196540.733
158_S161_S0.196460.733
57_A268_A0.196080.731
100_Y104_L0.195670.730
79_I169_S0.195530.729
79_I117_V0.19480.727
307_Y311_R0.19410.724
79_I114_L0.19370.722
257_G266_L0.193580.722
170_L293_V0.193020.720
62_L226_L0.191450.714
178_L182_L0.191430.714
210_K216_V0.191420.714
77_L87_A0.191230.713
254_R308_L0.190990.712
43_L47_L0.190950.712
65_T203_S0.190040.709
235_V292_P0.189070.705
108_I112_L0.188230.702
194_L197_R0.18820.702
207_D210_K0.186630.696
91_I161_S0.186590.696
279_D290_E0.185660.692
109_G113_A0.185020.690
181_L184_L0.185010.690
198_K201_I0.184870.690
222_L226_L0.18470.689
248_A270_I0.18440.688
194_L198_K0.184020.686
140_S144_S0.183730.685
118_Y121_S0.183380.684
227_A232_A0.182660.681
123_R126_G0.18260.681
231_T235_V0.182520.681
184_L229_L0.182120.679
282_A285_L0.181980.679
284_T288_P0.181680.678
42_R283_R0.181570.677
253_R263_L0.181410.677
176_E180_I0.181240.676
156_P160_Q0.181120.676
59_S227_A0.180930.675
67_T133_I0.18090.675
141_A145_A0.180520.673
66_L69_N0.180430.673
246_L249_P0.180230.672
192_L196_S0.180170.672
113_A119_L0.178890.667
246_L250_H0.178820.667
280_L293_V0.178470.666
43_L175_W0.178270.665
54_A58_L0.178220.665
76_I80_S0.17810.664
83_A86_G0.177890.664
55_A189_L0.177760.663
157_E161_S0.177040.660
251_I255_L0.176820.660
80_S83_A0.176680.659
209_A214_V0.176460.658
94_F99_F0.175860.656
270_I274_L0.175450.654
282_A296_V0.175310.654
189_L268_A0.175210.654
87_A91_I0.174440.651
190_I193_L0.174040.649
241_I297_T0.173830.648
198_K214_V0.173160.646
67_T167_M0.172970.645
195_L226_L0.172580.644
64_Q69_N0.172290.643
248_A278_A0.172220.642
46_I284_T0.171790.641
61_A65_T0.171140.638
307_Y310_L0.171080.638
121_S132_L0.171070.638
151_L166_L0.171030.638
173_A237_L0.170810.637
261_R265_P0.170740.637
242_G247_I0.17050.636
292_P295_I0.170420.636
162_V167_M0.170310.635
63_L75_S0.17030.635
285_L288_P0.17020.635
108_I111_L0.169390.632
151_L162_V0.169110.631
182_L185_L0.168580.629
104_L107_F0.168530.629
187_I194_L0.168460.628
160_Q164_F0.168160.627
252_A267_S0.168160.627
222_L225_L0.167920.626
223_L227_A0.167880.626
257_G265_P0.167780.626
54_A185_L0.167120.623
227_A231_T0.16710.623
183_P188_G0.167090.623
258_S262_Y0.167090.623
250_H253_R0.166930.623
270_I273_I0.166450.621
76_I137_I0.165990.619
98_S101_G0.165920.619
114_L224_L0.165810.618
183_P190_I0.165430.617
81_S144_S0.164840.615
202_L219_V0.164750.614
73_D297_T0.164340.613
233_A236_A0.164310.613
67_T87_A0.16430.613
269_L273_I0.163730.611
192_L223_L0.163380.609
137_I309_L0.162520.606
65_T263_L0.162520.606
48_A170_L0.162280.605
146_L150_L0.162230.605
119_L221_L0.162230.605
75_S297_T0.162210.605
196_S260_H0.161580.603
63_L77_L0.161520.602
201_I208_Q0.161150.601
63_L79_I0.160870.600
152_L167_M0.160810.600
172_G278_A0.160340.598
48_A238_V0.160220.598
67_T131_R0.159760.596
111_L229_L0.159550.595
278_A296_V0.159520.595
99_F186_L0.159450.595
52_V56_L0.159170.594
192_L195_L0.158420.591
247_I305_F0.157930.589
57_A274_L0.157880.589
210_K218_R0.157790.589
111_L115_L0.157510.587
146_L151_L0.157430.587
72_A79_I0.156940.585
46_I273_I0.156890.585
198_K222_L0.156690.584
80_S148_S0.155550.580
151_L163_Q0.155550.580
277_L281_I0.155150.579
39_W46_I0.154820.577
148_S152_L0.153880.574
100_Y103_P0.153610.573
121_S135_A0.153480.572
203_S260_H0.153460.572
73_D294_G0.153370.572
88_V151_L0.15310.571
60_G250_H0.153050.571
194_L222_L0.152890.570
80_S165_W0.152220.568
167_M299_L0.152190.568
83_A106_A0.151780.566
151_L159_L0.151460.565
193_L197_R0.151280.564
76_I140_S0.151260.564
149_F295_I0.150930.563
69_N78_G0.150880.563
63_L67_T0.150610.562
52_V170_L0.150570.562
89_L94_F0.149570.558
118_Y224_L0.148640.554
66_L227_A0.148620.554
180_I237_L0.148230.553
135_A138_A0.148020.552
70_P250_H0.148010.552
246_L308_L0.147940.552
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
4g1uA0.9871100-0.012
2nq2A0.99041000.027
2qi9A0.96781000.046
1u7gA0.6109110.962
2k1kA0.12228.50.964
3tijA0.62740.969
4hzuS0.43733.60.969
3dh4A0.56273.20.97
4h44E0.09972.80.971
2xq2A0.65272.80.971

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