GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MFS_2 - MFSsugar transport protein
Pfam: PF13347 (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: CL0015
Length: 428
Sequences: 45155
Seq/Len: 105.5
HH_delta: 0.278 (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
88_L109_F1.487582.952
81_L116_A1.344872.668
299_L328_G1.329052.637
57_I119_F1.304882.589
90_F181_L1.296942.573
35_S38_L1.279792.539
132_T141_L1.237882.456
137_E140_R1.190152.361
139_T285_K1.185022.351
104_V108_V1.184742.351
272_A323_I1.145182.272
288_G291_K1.127482.237
49_W111_I1.121262.225
62_D357_G1.084052.151
289_K342_D1.06722.118
239_L374_A1.065942.115
276_G327_I1.065032.113
192_L196_F1.062292.108
306_L321_L1.042142.068
85_S109_F1.03322.050
83_A187_G1.013822.012
219_R223_R0.987651.960
133_P137_E0.980431.945
103_L107_F0.970271.925
70_R130_E0.937071.859
235_F370_G0.935311.856
181_L185_I0.931791.849
316_W320_I0.920031.826
53_T115_I0.901461.789
303_G328_G0.891811.770
344_I359_Y0.886171.758
78_G119_F0.883011.752
85_S112_L0.875061.736
49_W53_T0.874611.735
282_R286_R0.862331.711
281_G285_K0.843091.673
59_Y67_R0.821381.630
110_Y114_D0.819261.626
380_L384_L0.812311.612
53_T118_T0.811891.611
243_L378_V0.78961.567
279_L282_R0.789211.566
36_P383_A0.78681.561
303_G321_L0.784411.556
314_S317_L0.783111.554
85_S116_A0.773741.535
37_A383_A0.767541.523
45_V111_I0.760411.509
269_F326_G0.759231.506
105_W109_F0.752911.494
34_L38_L0.737291.463
110_Y113_F0.733331.455
296_G331_A0.732091.453
73_P76_L0.724141.437
104_V107_F0.72331.435
38_L103_L0.722021.433
58_G62_D0.718241.425
27_F30_D0.715441.420
280_W331_A0.710231.409
87_F184_A0.709551.408
61_S123_P0.707571.404
251_Y255_V0.707451.404
316_W319_L0.695051.379
290_K294_I0.689411.368
162_I166_W0.687841.365
60_L68_W0.684321.358
193_I197_F0.680891.351
92_P109_F0.677861.345
345_D354_R0.674341.338
282_R285_K0.672461.334
128_I145_R0.670871.331
92_P105_W0.669661.329
178_W181_L0.669161.328
222_F228_R0.668721.327
283_L287_F0.667371.324
53_T56_L0.666441.322
231_L366_F0.666411.322
69_G73_P0.662321.314
85_S113_F0.65941.308
220_S223_R0.658181.306
89_L109_F0.654791.299
135_P138_R0.653441.297
34_L103_L0.653221.296
70_R73_P0.651481.293
298_L302_L0.649241.288
167_F178_W0.64661.283
45_V107_F0.646511.283
133_P136_D0.646111.282
301_A305_L0.645521.281
72_R76_L0.639751.269
291_K295_I0.636431.263
272_A276_G0.633451.257
140_R144_W0.630641.251
130_E356_E0.629881.250
80_I191_F0.629071.248
188_L192_L0.628771.248
108_V111_I0.627441.245
303_G324_L0.623631.237
296_G328_G0.618371.227
291_K294_I0.618041.226
251_Y256_L0.617641.226
258_N261_L0.617431.225
62_D358_M0.617231.225
345_D355_R0.614161.219
81_L85_S0.606741.204
220_S355_R0.605321.201
276_G279_L0.602551.196
158_F162_I0.6021.194
82_L86_F0.600921.192
185_I189_V0.597411.185
27_F31_V0.596911.184
219_R222_F0.596121.183
214_L217_S0.595311.181
129_P138_R0.591111.173
28_Y31_V0.5911.173
215_R219_R0.59021.171
42_I106_L0.589061.169
225_R229_I0.587641.166
288_G292_V0.587261.165
194_T198_V0.585691.162
69_G72_R0.583811.158
315_P319_L0.582631.156
340_L344_I0.582561.156
225_R228_R0.580841.152
29_T39_A0.578071.147
216_D219_R0.574611.140
310_L321_L0.573611.138
242_A371_Q0.572221.135
341_A344_I0.569221.129
305_L309_F0.568781.129
234_F363_N0.568541.128
71_R75_I0.567511.126
379_G383_A0.566771.125
105_W108_V0.565871.123
299_L303_G0.565581.122
80_I84_L0.562451.116
303_G325_A0.559441.110
287_F292_V0.557491.106
287_F291_K0.555631.102
355_R358_M0.546541.084
56_L59_Y0.545431.082
114_D118_T0.543241.078
340_L343_V0.541631.075
177_R180_A0.541221.074
191_F195_F0.537881.067
196_F199_K0.537841.067
44_L376_A0.535641.063
295_I299_L0.535571.063
227_F231_L0.535111.062
41_L45_V0.534621.061
78_G116_A0.532631.057
75_I195_F0.531291.054
84_L88_L0.528041.048
68_W73_P0.526911.045
83_A191_F0.526711.045
261_L264_I0.52671.045
302_L306_L0.52521.042
77_I81_L0.525021.042
140_R285_K0.524771.041
46_G50_D0.524731.041
138_R342_D0.524121.040
275_V279_L0.523491.039
296_G332_F0.52291.038
72_R200_E0.521771.035
320_I324_L0.521521.035
158_F267_L0.521371.034
306_L309_F0.520411.033
228_R232_L0.515831.024
376_A380_L0.51531.022
35_S383_A0.514141.020
320_I323_I0.513171.018
273_S330_G0.512941.018
156_A160_A0.512261.016
181_L184_A0.510551.013
58_G357_G0.509281.011
83_A184_A0.508611.009
55_P59_Y0.505631.003
48_I372_G0.505521.003
68_W72_R0.504451.001
212_I215_R0.50290.998
40_G44_L0.501950.996
31_V177_R0.501490.995
278_P282_R0.501340.995
224_N228_R0.501230.995
88_L91_S0.500580.993
44_L372_G0.499310.991
295_I298_L0.497670.987
271_V275_V0.496960.986
184_A188_L0.495590.983
260_G264_I0.494420.981
108_V112_L0.494260.981
51_A372_G0.494230.981
178_W182_V0.493670.980
91_S181_L0.490540.973
37_A41_L0.490260.973
370_G374_A0.489120.971
38_L107_F0.4880.968
213_S216_D0.485590.964
252_F256_L0.483970.960
140_R282_R0.483870.960
164_V179_M0.483610.960
338_A342_D0.480430.953
294_I298_L0.478820.950
250_Y254_Y0.47780.948
29_T36_P0.474730.942
294_I297_L0.473530.940
177_R181_L0.47310.939
72_R75_I0.472590.938
71_R130_E0.472120.937
80_I83_A0.471280.935
317_L320_I0.469980.933
28_Y32_L0.467560.928
157_S160_A0.467230.927
136_D140_R0.466640.926
87_F91_S0.465950.925
70_R200_E0.464010.921
41_L376_A0.463790.920
147_I150_M0.460670.914
38_L41_L0.458840.910
157_S161_P0.45690.907
85_S88_L0.45670.906
380_L383_A0.456620.906
150_M273_S0.455790.904
253_T262_I0.455590.904
284_S335_I0.455460.904
54_D368_K0.455430.904
25_L28_Y0.45520.903
26_Y29_T0.455120.903
163_L178_W0.45510.903
361_S365_F0.453580.900
275_V278_P0.45310.899
209_E212_I0.452550.898
298_L301_A0.451990.897
369_I373_L0.451030.895
264_I268_I0.450640.894
46_G117_Y0.450430.894
85_S92_P0.450120.893
377_I380_L0.449710.892
340_L363_N0.447250.887
85_S89_L0.444270.882
46_G114_D0.443480.880
118_T122_I0.441960.877
43_L246_T0.441650.876
42_I103_L0.439780.873
226_P229_I0.439070.871
106_L110_Y0.437290.868
110_Y121_Q0.437120.867
49_W114_D0.435510.864
300_A328_G0.434090.861
127_L198_V0.43210.857
238_W241_F0.431890.857
87_F181_L0.431690.857
279_L283_L0.431420.856
79_A191_F0.431370.856
182_V185_I0.429230.852
83_A188_L0.429040.851
73_P77_I0.427190.848
159_L162_I0.426580.846
86_F90_F0.425120.844
162_I165_S0.425070.843
209_E214_L0.424570.842
305_L308_F0.421940.837
211_K214_L0.419190.832
51_A365_F0.419080.832
228_R231_L0.418760.831
54_D364_S0.418630.831
283_L292_V0.417790.829
86_F183_L0.417630.829
317_L321_L0.417140.828
75_I191_F0.416190.826
158_F161_P0.415760.825
111_I114_D0.415240.824
52_I56_L0.415220.824
192_L195_F0.415030.823
217_S220_S0.41410.822
252_F258_N0.413810.821
183_L186_V0.413720.821
25_L31_V0.413560.821
45_V49_W0.412960.819
129_P356_E0.410520.815
129_P142_S0.410430.814
111_I115_I0.410360.814
90_F177_R0.410270.814
90_F184_A0.408770.811
163_L167_F0.408190.810
26_Y30_D0.407710.809
34_L39_A0.406490.807
155_L158_F0.405220.804
224_N343_V0.404570.803
57_I60_L0.404470.803
238_W242_A0.404330.802
319_L323_I0.40140.796
306_L310_L0.400830.795
50_D53_T0.399580.793
160_A164_V0.399060.792
132_T137_E0.398640.791
252_F255_V0.398030.790
83_A87_F0.397680.789
36_P254_Y0.397010.788
365_F369_I0.396890.788
147_I278_P0.39670.787
213_S217_S0.395320.784
193_I196_F0.394960.784
139_T281_G0.394470.783
247_F379_G0.393980.782
52_I55_P0.393550.781
29_T34_L0.391750.777
57_I122_I0.391570.777
70_R126_A0.391080.776
89_L106_L0.390720.775
89_L92_P0.390180.774
210_K213_S0.390090.774
237_Q332_F0.389340.773
25_L39_A0.386210.766
185_I188_L0.386210.766
143_S277_S0.385750.765
149_S153_S0.385680.765
260_G263_S0.385550.765
247_F378_V0.383550.761
265_F319_L0.382690.759
276_G280_W0.382660.759
337_W341_A0.382110.758
153_S270_F0.38110.756
268_I272_A0.381090.756
82_L187_G0.380530.755
51_A368_K0.38050.755
77_I80_I0.379760.754
381_L384_L0.37930.753
272_A326_G0.378690.751
37_A380_L0.378610.751
42_I107_F0.378270.751
49_W115_I0.377670.749
121_Q125_N0.377180.748
268_I319_L0.376920.748
124_Y145_R0.376830.748
319_L322_F0.376780.748
180_A183_L0.376060.746
126_A130_E0.375880.746
252_F265_F0.375840.746
232_L236_L0.375520.745
292_V295_I0.375210.744
206_T209_E0.374960.744
142_S338_A0.372660.739
267_L271_V0.372330.739
246_T249_P0.371090.736
232_L235_F0.370520.735
25_L29_T0.369410.733
244_M248_L0.369020.732
216_D220_S0.368530.731
122_I126_A0.368380.731
323_I327_I0.367810.730
31_V176_Y0.367760.730
139_T143_S0.366990.728
144_W147_I0.366850.728
236_L240_A0.366160.727
263_S267_L0.366080.726
142_S146_M0.364970.724
150_M274_I0.364140.723
234_F367_I0.363920.722
323_I326_G0.363840.722
330_G334_V0.363570.721
61_S126_A0.363220.721
195_F199_K0.363050.720
209_E213_S0.361090.716
50_D368_K0.360620.716
377_I381_L0.359830.714
61_S70_R0.359150.713
161_P164_V0.359050.712
304_F308_F0.359020.712
44_L48_I0.358140.711
124_Y127_L0.358120.711
222_F225_R0.357860.710
89_L180_A0.357850.710
140_R143_S0.35770.710
154_L271_V0.357270.709
368_K372_G0.356940.708
62_D70_R0.356790.708
304_F325_A0.356720.708
183_L187_G0.356510.707
341_A360_F0.356490.707
163_L166_W0.356050.706
256_L259_E0.355280.705
284_S288_G0.355060.705
37_A376_A0.354870.704
249_P253_T0.354330.703
54_D365_F0.353870.702
54_D361_S0.353610.702
165_S260_G0.35340.701
182_V186_V0.353190.701
207_E210_K0.35260.700
250_Y253_T0.352570.700
38_L104_V0.351820.698
150_M153_S0.351760.698
47_R375_G0.351740.698
59_Y358_M0.35170.698
25_L32_L0.351120.697
76_L191_F0.351010.696
334_V337_W0.350910.696
324_L328_G0.350360.695
76_L80_I0.349660.694
276_G330_G0.349060.693
201_R204_E0.348690.692
217_S222_F0.348650.692
154_L267_L0.347660.690
119_F123_P0.347230.689
273_S277_S0.346860.688
61_S357_G0.346170.687
208_Q211_K0.346150.687
231_L363_N0.345950.686
109_F112_L0.34580.686
36_P382_L0.345250.685
83_A90_F0.344260.683
306_L317_L0.343970.683
362_V366_F0.343630.682
356_E360_F0.343450.681
60_L73_P0.343420.681
86_F184_A0.343080.681
47_R371_Q0.342840.680
55_P365_F0.342590.680
294_I301_A0.34250.680
141_L148_F0.342450.679
238_W367_I0.34190.678
283_L286_R0.341320.677
150_M277_S0.340870.676
74_W77_I0.340590.676
50_D117_Y0.339440.674
252_F318_V0.339140.673
41_L44_L0.33870.672
357_G361_S0.338470.672
227_F359_Y0.337870.670
302_L305_L0.336990.669
57_I118_T0.33620.667
50_D54_D0.335930.667
269_F322_F0.335720.666
27_F32_L0.335440.666
373_L377_I0.335320.665
78_G85_S0.33470.664
215_R218_L0.334040.663
78_G81_L0.3340.663
272_A275_V0.333810.662
253_T259_E0.33330.661
146_M277_S0.332770.660
338_A341_A0.332350.659
334_V338_A0.331110.657
162_I167_F0.330990.657
211_K215_R0.33060.656
40_G379_G0.329210.653
70_R74_W0.328850.653
122_I125_N0.328480.652
307_L322_F0.328360.652
299_L324_L0.327890.651
280_W283_L0.327810.650
285_K289_K0.327220.649
139_T338_A0.327180.649
187_G191_F0.326320.647
264_I267_L0.325490.646
337_W363_N0.325480.646
196_F200_E0.324840.645
235_F239_L0.32440.644
40_G247_F0.324250.643
79_A82_L0.32370.642
223_R226_P0.323520.642
287_F295_I0.323410.642
282_R287_F0.323160.641
109_F113_F0.322990.641
155_L159_L0.322780.640
142_S145_R0.321020.637
30_D33_G0.320860.637
366_F369_I0.320260.635
127_L131_L0.320210.635
154_L270_F0.319740.634
69_G200_E0.319060.633
44_L47_R0.318440.632
146_M150_M0.317870.631
88_L105_W0.317690.630
300_A303_G0.317120.629
128_I141_L0.316680.628
180_A184_A0.316180.627
71_R200_E0.3160.627
321_L328_G0.315720.626
176_Y180_A0.315320.626
296_G335_I0.313360.622
235_F366_F0.312970.621
230_L339_M0.312710.620
165_S259_E0.312370.620
326_G330_G0.312220.620
303_G306_L0.311740.619
28_Y39_A0.311440.618
143_S281_G0.311260.618
297_L332_F0.311180.617
279_L327_I0.311130.617
297_L301_A0.311010.617
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
1pw4A0.90421000.278
3o7qA0.89951000.281
4j05A0.92521000.295
2gfpA0.86681000.315
4jr9A0.91121000.349
4apsA0.90421000.353
4iu9B0.92991000.357
2cfqA0.90421000.365
2xutA0.92991000.415
4gc0A0.94161000.442

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