GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ABC-3 - ABC 3 transport family
Pfam: PF00950 (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: 257
Sequences: 8658
Seq/Len: 33.69
HH_delta: 0.123 (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
149_L209_S1.358794.303
17_L218_V1.195623.787
164_P167_L1.080093.421
11_A122_V0.920622.916
13_L222_L0.913272.892
49_A59_G0.847472.684
18_L134_A0.818672.593
12_G119_I0.801882.540
155_P169_D0.800962.537
25_F172_F0.79482.517
128_W132_V0.758822.403
18_L179_V0.732222.319
12_G225_S0.720442.282
25_F141_L0.711532.253
29_R32_S0.696282.205
202_T220_I0.695052.201
32_S35_G0.693982.198
24_V217_S0.64432.041
15_I187_V0.623961.976
44_A94_F0.618721.960
26_V176_I0.605291.917
167_L171_L0.60391.913
133_I182_L0.602251.907
18_L183_S0.600091.901
21_L218_V0.589991.869
149_L210_F0.584131.850
13_L226_V0.581821.843
14_L131_A0.571311.809
30_R35_G0.56011.774
21_L138_L0.558551.769
144_F147_E0.553831.754
147_E168_I0.544891.726
122_V126_D0.536871.700
15_I183_S0.532441.686
64_A181_V0.519361.645
159_R166_R0.509991.615
229_L233_Y0.509511.614
123_T126_D0.508681.611
30_R34_L0.507551.607
132_V136_V0.502471.591
209_S212_R0.501681.589
44_A97_G0.489011.549
202_T205_L0.488661.548
11_A186_A0.483421.531
144_F171_L0.468361.483
136_V139_L0.464091.470
198_I224_S0.457741.450
203_A207_S0.45681.447
29_R34_L0.454041.438
144_F168_I0.449871.425
206_L216_L0.448181.419
24_V213_M0.446231.413
231_L242_T0.44071.396
99_L102_S0.440331.395
167_L170_Y0.44011.394
166_R169_D0.439241.391
140_F175_L0.435611.380
119_I225_S0.430251.363
29_R35_G0.426681.351
31_M34_L0.426221.350
215_I218_V0.424521.344
140_F144_F0.419781.329
193_F225_S0.419221.328
69_L73_F0.417991.324
45_G59_G0.416171.318
210_F213_M0.415781.317
212_R215_I0.413771.310
140_F171_L0.411541.303
76_R166_R0.405091.283
39_S189_V0.400181.267
31_M35_G0.397511.259
128_W131_A0.394851.251
216_L220_I0.391521.240
27_V196_L0.390111.236
168_I171_L0.388091.229
58_L62_I0.387251.226
166_R170_Y0.386911.225
224_S246_I0.386441.224
150_L163_I0.378351.198
10_L127_L0.377111.194
124_R127_L0.375341.189
207_S216_L0.374441.186
11_A127_L0.3741.184
14_L134_A0.373511.183
212_R216_L0.370061.172
129_L132_V0.369721.171
196_L203_A0.365891.159
157_F160_A0.363291.151
40_H94_F0.362881.149
151_I165_V0.360071.140
137_V179_V0.355661.126
215_I219_L0.354721.123
99_L103_L0.353641.120
137_V175_L0.350351.110
111_L115_L0.349351.106
223_L227_L0.349251.106
14_L127_L0.345821.095
148_L172_F0.345731.095
68_A177_A0.345671.095
39_S180_V0.345311.094
224_S247_L0.345241.093
67_A94_F0.345121.093
45_G63_F0.345031.093
71_I90_F0.344191.090
24_V214_I0.343361.087
43_L98_V0.343241.087
207_S213_M0.342311.084
38_L64_A0.341451.081
61_I178_L0.339251.074
158_A165_V0.339061.074
93_S248_A0.335661.063
144_F172_F0.335111.061
23_G200_A0.33441.059
17_L222_L0.331371.049
145_Y211_R0.330381.046
36_D233_Y0.327251.036
28_L31_M0.327031.036
66_L70_L0.325891.032
27_V83_D0.325711.032
44_A48_L0.325351.030
139_L143_L0.324961.029
135_A139_L0.323451.024
208_R212_R0.322571.022
48_L52_L0.321521.018
203_A206_L0.321221.017
109_S112_E0.320131.014
227_L230_L0.320111.014
229_L232_S0.317461.005
155_P159_R0.316941.004
232_S239_P0.315741.000
132_V135_A0.315490.999
218_V222_L0.314930.997
22_L179_V0.314760.997
150_L161_S0.3120.988
131_A135_A0.308670.978
41_A67_A0.307750.975
137_V178_L0.307670.974
20_G218_V0.306420.970
24_V210_F0.306360.970
28_L32_S0.303690.962
29_R172_F0.301990.956
210_F215_I0.298010.944
237_L242_T0.297680.943
170_Y174_V0.296370.939
130_L186_A0.293610.930
155_P165_V0.29240.926
28_L35_G0.291750.924
14_L130_L0.290760.921
46_V60_A0.289530.917
198_I202_T0.289440.917
28_L210_F0.289220.916
43_L115_L0.28780.911
138_L142_L0.287060.909
202_T216_L0.286290.907
36_D194_A0.286040.906
183_S187_V0.283530.898
61_I65_L0.282920.896
193_F243_I0.282790.896
71_I75_S0.282020.893
112_E115_L0.281310.891
49_A56_P0.28120.891
41_A63_F0.281060.890
213_M217_S0.27950.885
173_L177_A0.277920.880
21_L214_I0.276560.876
130_L134_A0.27620.875
207_S212_R0.275260.872
202_T206_L0.274270.869
64_A177_A0.274210.868
124_R128_W0.274030.868
19_C193_F0.273580.866
224_S250_I0.273010.865
20_G24_V0.271660.860
200_A203_A0.271120.859
18_L22_L0.269310.853
40_H43_L0.26870.851
245_L249_L0.268530.850
17_L20_G0.26850.850
36_D196_L0.26740.847
16_A222_L0.266490.844
201_A204_R0.265780.842
42_A64_A0.264830.839
187_V190_L0.264040.836
154_D158_A0.263820.836
107_Y110_D0.262220.830
20_G198_I0.261690.829
168_I172_F0.259270.821
27_V32_S0.258980.820
150_L157_F0.256950.814
133_I137_V0.256580.813
92_F248_A0.255380.809
147_E164_P0.255330.809
59_G63_F0.254850.807
238_P241_P0.254420.806
141_L175_L0.254190.805
224_S228_G0.25340.803
43_L189_V0.252120.798
65_L181_V0.250480.793
211_R215_I0.250240.793
108_S111_L0.250020.792
72_G170_Y0.249430.790
108_S112_E0.249260.789
36_D82_E0.248610.787
143_L146_R0.247570.784
190_L225_S0.247480.784
16_A225_S0.245620.778
95_A115_L0.24510.776
163_I168_I0.2430.770
136_V140_F0.242080.767
125_S129_L0.240690.762
47_A98_V0.240310.761
32_S36_D0.239750.759
148_L210_F0.237990.754
100_L104_S0.237040.751
119_I239_P0.236950.750
91_S95_A0.236240.748
140_F143_L0.234020.741
225_S243_I0.233540.740
11_A126_D0.233370.739
51_L100_L0.233120.738
149_L215_I0.232920.738
157_F161_S0.232580.737
86_I90_F0.232150.735
134_A183_S0.231610.734
72_G173_L0.231380.733
149_L211_R0.231250.732
205_L220_I0.231170.732
203_A234_Y0.230820.731
143_L147_E0.230660.731
206_L212_R0.229860.728
38_L71_I0.228990.725
63_F67_A0.22880.725
111_L116_F0.228290.723
158_A163_I0.22790.722
26_V177_A0.227110.719
72_G166_R0.227050.719
172_F176_I0.22680.718
114_Y240_G0.225560.714
96_L244_V0.223970.709
109_S115_L0.223090.707
194_A232_S0.221990.703
202_T213_M0.221290.701
220_I224_S0.220230.697
165_V169_D0.220210.697
125_S128_W0.218210.691
233_Y236_D0.218110.691
203_A213_M0.217250.688
159_R165_V0.216950.687
171_L174_V0.21570.683
201_A205_L0.21570.683
28_L34_L0.215070.681
194_A244_V0.215040.681
10_L14_L0.214270.679
227_L246_I0.213920.678
99_L207_S0.212910.674
21_L141_L0.211760.671
50_L56_P0.211330.669
80_I83_D0.210560.667
11_A119_I0.210130.665
102_S105_P0.209940.665
171_L175_L0.209070.662
122_V186_A0.209020.662
60_A64_A0.208860.661
156_E159_R0.207910.658
244_V249_L0.207530.657
145_Y214_I0.207340.657
197_V251_F0.206460.654
73_F170_Y0.206250.653
62_I65_L0.206080.653
202_T247_L0.205070.649
240_G251_F0.204110.646
26_V33_F0.202910.643
134_A138_L0.202740.642
136_V143_L0.202720.642
227_L231_L0.202570.642
98_V102_S0.201980.640
65_L69_L0.201910.639
51_L104_S0.201660.639
72_G75_S0.20160.638
47_A111_L0.201170.637
22_L176_I0.200470.635
147_E150_L0.199920.633
120_L236_D0.199860.633
10_L124_R0.199460.632
176_I180_V0.199330.631
39_S42_A0.199170.631
45_G49_A0.198030.627
127_L130_L0.196450.622
149_L152_S0.196380.622
83_D105_P0.195650.620
229_L239_P0.194930.617
42_A184_V0.194840.617
141_L144_F0.194560.616
97_G102_S0.193960.614
203_A216_L0.193840.614
26_V38_L0.193760.614
84_A201_A0.19350.613
139_L142_L0.192230.609
99_L104_S0.19210.608
100_L103_L0.192070.608
133_I178_L0.192010.608
38_L68_A0.191990.608
156_E160_A0.191980.608
86_I89_V0.191730.607
231_L246_I0.191530.607
62_I66_L0.191360.606
141_L145_Y0.19110.605
159_R167_L0.190860.604
17_L138_L0.190780.604
23_G199_P0.190250.603
109_S113_S0.190240.603
23_G221_G0.190090.602
145_Y210_F0.189350.600
138_L218_V0.189210.599
241_P244_V0.188710.598
67_A73_F0.188590.597
224_S227_L0.188540.597
50_L110_D0.188090.596
11_A130_L0.187910.595
177_A181_V0.187540.594
147_E163_I0.187280.593
228_G232_S0.186640.591
230_L234_Y0.186370.590
203_A220_I0.185390.587
151_I168_I0.184820.585
130_L133_I0.184740.585
38_L118_S0.18410.583
216_L219_L0.184020.583
182_L185_K0.183550.581
92_F96_L0.183510.581
144_F167_L0.182710.579
36_D80_I0.182520.578
196_L201_A0.18250.578
190_L243_I0.181230.574
131_A134_A0.181160.574
142_L214_I0.180920.573
81_S196_L0.179890.570
127_L131_A0.179520.569
110_D113_S0.17920.568
16_A221_G0.179150.567
164_P171_L0.179120.567
45_G116_F0.177560.562
76_R170_Y0.177440.562
40_H95_A0.177390.562
190_L239_P0.177360.562
137_V182_L0.177320.562
68_A72_G0.176810.560
229_L236_D0.176550.559
25_F175_L0.17650.559
226_V230_L0.176480.559
82_E196_L0.176380.559
219_L223_L0.175610.556
202_T207_S0.17560.556
13_L119_I0.175560.556
92_F95_A0.175230.555
94_F173_L0.175210.555
12_G16_A0.174840.554
36_D46_V0.174660.553
108_S113_S0.174270.552
142_L146_R0.17420.552
100_L194_A0.174160.552
226_V229_L0.173990.551
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
2nq2A0.99611000.123
4g1uA0.99611000.13
2qi9A0.99221000.135
2zy9A0.385230.50.943
3rlbA0.517514.60.951
2k1kA0.14798.80.955
3dh4A0.61876.10.958
1scfA0.22965.50.959
3orgA0.67323.40.962
2c4wA0.22963.30.963

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