GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Aminotran_1_2 - Aminotransferase class I and II
Pfam: PF00155 (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: CL0061
Length: 363
Sequences: 51672
Seq/Len: 142.35
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
287_L357_E2.923663.537
287_L353_E2.672963.234
25_K29_R2.555593.092
52_A265_S2.416492.923
291_A360_L2.299312.782
166_S169_E2.238662.708
136_E179_E2.213732.678
358_E362_R2.194522.655
352_S355_D2.125672.572
283_E353_E2.109442.552
21_P25_K2.086172.524
95_T118_I2.053352.484
280_R284_N2.029372.455
95_T116_E1.978282.393
134_A137_E1.904392.304
323_E327_E1.867992.260
282_R286_D1.864822.256
291_A294_E1.834212.219
74_T80_A1.812852.193
235_A240_I1.77452.147
287_L291_A1.741622.107
291_A357_E1.69652.052
134_A138_A1.689072.043
286_D290_E1.616161.955
289_R293_E1.609391.947
95_T140_D1.588061.921
323_E326_E1.575981.907
132_P172_E1.547791.872
177_A182_I1.546781.871
94_D150_K1.54231.866
136_E180_Y1.53871.861
167_L171_R1.536971.859
358_E361_E1.530631.852
136_E140_D1.506191.822
217_G232_Y1.500871.816
100_D121_P1.489581.802
169_E172_E1.47631.786
276_E279_E1.473021.782
22_A26_A1.46761.775
319_E323_E1.444491.747
131_D134_A1.435921.737
262_A265_S1.423591.722
48_E261_A1.417061.714
51_E55_D1.411461.708
279_E283_E1.401071.695
52_A55_D1.389161.681
316_D319_E1.389121.680
291_A295_I1.380651.670
177_A184_I1.375771.664
280_R283_E1.370511.658
121_P134_A1.370121.657
95_T148_R1.363281.649
253_S256_M1.358651.644
90_I115_A1.354751.639
284_N353_E1.35361.638
290_E294_E1.342231.624
47_P51_E1.334661.615
327_E362_R1.307641.582
353_E357_E1.301521.575
151_A185_I1.299451.572
322_Q326_E1.297351.569
53_I232_Y1.296611.569
95_T149_P1.288521.559
291_A361_E1.277221.545
68_E237_P1.276881.545
262_A266_D1.253481.516
168_E172_E1.253161.516
70_N237_P1.252641.515
82_F86_R1.242241.503
298_T311_R1.233531.492
168_E171_R1.200491.452
133_E137_E1.192811.443
139_L182_I1.18591.435
52_A261_A1.180931.429
185_I216_V1.180741.428
25_K28_I1.170061.415
330_I362_R1.156221.399
52_A268_E1.155221.398
75_S79_A1.152111.394
22_A25_K1.151971.394
290_E293_E1.142131.382
100_D119_P1.138231.377
171_R184_I1.13481.373
285_R289_R1.133651.371
140_D180_Y1.122221.358
205_S208_D1.121061.356
346_I359_A1.109381.342
26_A29_R1.096251.326
152_V177_A1.091481.320
107_I111_R1.090181.319
287_L290_E1.081381.308
319_E322_Q1.080221.307
324_L332_V1.079751.306
284_N287_L1.079091.305
136_E172_E1.078881.305
133_E136_E1.07661.302
357_E361_E1.067811.292
330_I359_A1.065541.289
188_E215_V1.063681.287
118_I138_A1.037861.256
152_V182_I1.028591.244
284_N356_L1.027091.243
156_N191_S1.021871.236
237_P241_E1.018771.232
280_R353_E1.01341.226
230_V260_A1.013131.226
24_I28_I1.012191.224
57_L234_V1.008931.221
48_E52_A1.008661.220
355_D358_E1.003571.214
120_V138_A1.00221.212
51_E67_P1.000421.210
137_E141_E0.990361.198
295_I360_L0.98121.187
261_A265_S0.980091.186
84_L214_I0.979521.185
140_D149_P0.975151.180
48_E265_S0.973021.177
54_A67_P0.962371.164
110_A117_V0.960851.162
275_E279_E0.957811.159
139_L180_Y0.957421.158
283_E287_L0.957291.158
140_D148_R0.949871.149
94_D148_R0.949751.149
279_E282_R0.930561.126
129_H169_E0.927311.122
178_R210_D0.927141.122
330_I358_E0.925771.120
110_A115_A0.923921.118
107_I119_P0.919291.112
293_E299_V0.918631.111
132_P169_E0.917431.110
96_V110_A0.915731.108
318_E322_Q0.915271.107
276_E280_R0.911691.103
132_P136_E0.908291.099
171_R178_R0.899381.088
108_E111_R0.896561.085
132_P173_L0.891231.078
153_L185_I0.884351.070
77_A216_V0.883221.068
97_L138_A0.882861.068
289_R301_P0.881481.066
123_D131_D0.871891.055
26_A262_A0.865591.047
354_E357_E0.855081.034
241_E245_R0.852751.032
98_V117_V0.847231.025
321_A332_V0.847211.025
233_I243_L0.84691.025
123_D127_D0.845251.023
277_L281_L0.842291.019
181_N212_N0.835741.011
322_Q325_L0.834891.010
97_L149_P0.833181.008
283_E286_D0.830861.005
321_A334_P0.830471.005
307_F311_R0.82811.002
123_D134_A0.824060.997
21_P24_I0.821980.994
154_I170_L0.814760.986
51_E54_A0.811180.981
52_A56_F0.804120.973
91_N94_D0.803210.972
189_A218_S0.802880.971
178_R212_N0.799960.968
177_A180_Y0.795580.962
277_L280_R0.793450.960
275_E278_R0.792740.959
278_R282_R0.784580.949
288_L291_A0.779570.943
139_L149_P0.779340.943
354_E358_E0.778310.942
50_R54_A0.775490.938
332_V344_I0.772680.935
48_E51_E0.766410.927
84_L185_I0.757410.916
351_H355_D0.755540.914
266_D269_L0.755140.914
324_L362_R0.748330.905
295_I361_E0.742720.899
206_L209_E0.742140.898
273_W276_E0.741470.897
289_R308_L0.740840.896
287_L356_L0.740420.896
57_L232_Y0.736280.891
258_A262_A0.732750.886
289_R299_V0.729470.882
321_A325_L0.72040.872
183_I239_L0.717860.868
258_A261_A0.717260.868
54_A71_I0.716540.867
320_L324_L0.714920.865
238_E241_E0.713980.864
133_E172_E0.712890.862
288_L360_L0.710750.860
177_A181_N0.706970.855
21_P28_I0.704580.852
140_D179_E0.702430.850
273_W277_L0.701330.848
242_R245_R0.700640.848
359_A362_R0.699660.846
77_A80_A0.699160.846
214_I235_A0.698120.845
49_L260_A0.696690.843
265_S269_L0.696270.842
171_R209_E0.695760.842
249_S252_S0.695470.841
138_A141_E0.694940.841
71_I234_V0.693140.839
257_Q260_A0.692070.837
27_A259_A0.691680.837
286_D289_R0.690370.835
92_P114_G0.687490.832
259_A262_A0.687230.831
135_L173_L0.686190.830
288_L359_A0.684770.828
74_T231_G0.684220.828
141_E148_R0.682490.826
288_L292_L0.680750.824
44_Q50_R0.678630.821
102_C155_C0.675570.817
154_I184_I0.673010.814
123_D129_H0.672190.813
288_L356_L0.671490.812
136_E173_L0.669630.810
332_V346_I0.669280.810
97_L120_V0.669180.810
55_D265_S0.667080.807
188_E191_S0.666790.807
324_L363_L0.666720.807
265_S268_E0.665690.805
316_D341_P0.661450.800
359_A363_L0.659680.798
141_E149_P0.65890.797
240_I244_R0.657210.795
204_R207_L0.657010.795
247_Q251_L0.65680.795
74_T233_I0.653190.790
219_L260_A0.652440.789
85_L110_A0.649210.785
80_A216_V0.648960.785
50_R73_V0.647940.784
137_E140_D0.646990.783
183_I214_I0.645650.781
317_A336_S0.64190.777
351_H356_L0.640520.775
236_P239_L0.637690.771
254_S258_A0.636130.770
325_L331_L0.635970.769
169_E173_L0.63580.769
96_V151_A0.632340.765
85_L153_L0.630860.763
22_A266_D0.625560.757
54_A70_N0.625230.756
318_E334_P0.624250.755
81_L85_L0.623590.754
259_A263_A0.623070.754
118_I140_D0.622550.753
219_L232_Y0.622120.753
135_L152_V0.621680.752
88_L183_I0.620920.751
70_N234_V0.619380.749
284_N288_L0.616730.746
133_E169_E0.614350.743
357_E360_L0.611990.740
304_A307_F0.610660.739
356_L359_A0.609690.738
151_A183_I0.60820.736
47_P50_R0.606380.734
90_I94_D0.606110.733
49_L73_V0.604250.731
287_L360_L0.603520.730
111_R117_V0.602310.729
165_L170_L0.598630.724
317_A342_G0.59810.724
23_A26_A0.595480.720
281_L284_N0.595320.720
56_F192_D0.594660.719
53_I73_V0.594110.719
172_E179_E0.593860.718
79_A247_Q0.593690.718
136_E169_E0.591750.716
306_F309_W0.587760.711
211_D215_V0.583840.706
77_A189_A0.583560.706
261_A264_L0.582020.704
306_F310_V0.581920.704
278_R281_L0.580120.702
324_L330_I0.579070.701
23_A27_A0.578890.700
291_A356_L0.578680.700
77_A81_L0.578250.700
241_E244_R0.577410.699
154_I158_N0.577060.698
255_P258_A0.575480.696
90_I96_V0.575220.696
256_M259_A0.574790.695
281_L285_R0.574790.695
88_L151_A0.573340.694
263_A266_D0.572040.692
149_P182_I0.570360.690
209_E212_N0.569750.689
305_G309_W0.568380.688
178_R211_D0.568230.687
81_L105_S0.566620.685
214_I233_I0.565920.685
21_P29_R0.565560.684
23_A28_I0.563270.681
293_E301_P0.562660.681
109_A113_L0.561070.679
80_A233_I0.560760.678
274_L277_L0.560220.678
81_L185_I0.55910.676
320_L344_I0.559060.676
52_A264_L0.558740.676
106_Y110_A0.556620.673
97_L135_L0.556580.673
288_L348_L0.556410.673
178_R184_I0.556280.673
29_R262_A0.556210.673
22_A262_A0.555640.672
49_L261_A0.554120.670
311_R314_P0.553720.670
309_W312_L0.553190.669
192_D222_S0.54960.665
52_A269_L0.549180.664
93_G116_E0.547620.662
216_V233_I0.547560.662
95_T150_K0.547110.662
20_P23_A0.54630.661
288_L346_I0.54330.657
46_Y258_A0.541660.655
254_S257_Q0.541580.655
48_E258_A0.540460.654
205_S215_V0.540250.654
120_V134_A0.539250.652
264_L268_E0.539020.652
151_A154_I0.5390.652
214_I239_L0.538360.651
263_A267_P0.537060.650
298_T313_D0.536650.649
307_F314_P0.535380.648
98_V119_P0.532510.644
86_R246_F0.529660.641
205_S209_E0.528750.640
79_A83_L0.527820.639
130_L135_L0.525460.636
102_C105_S0.522470.632
264_L267_P0.521690.631
311_R343_Y0.521380.631
257_Q261_A0.520840.630
248_R251_L0.519380.628
290_E357_E0.51760.626
211_D236_P0.516380.625
308_L311_R0.515260.623
321_A344_I0.515080.623
320_L363_L0.514270.622
85_L90_I0.512850.620
206_L210_D0.511470.619
190_Y345_R0.511460.619
121_P131_D0.511320.619
98_V102_C0.511260.618
22_A29_R0.510690.618
123_D169_E0.510390.617
49_L53_I0.510010.617
49_L52_A0.509880.617
286_D301_P0.507670.614
130_L165_L0.506870.613
121_P138_A0.504390.610
171_R210_D0.503910.610
282_R285_R0.500740.606
235_A239_L0.500580.606
320_L323_E0.500130.605
167_L206_L0.498950.604
178_R181_N0.498590.603
317_A334_P0.498060.603
70_N240_I0.49790.602
75_S253_S0.496660.601
53_I217_G0.494290.598
356_L360_L0.494270.598
324_L359_A0.493650.597
97_L118_I0.493130.597
77_A84_L0.492540.596
248_R252_S0.492490.596
86_R113_L0.492380.596
154_I186_V0.491350.594
84_L88_L0.491340.594
309_W335_G0.490060.593
136_E139_L0.488560.591
135_L139_L0.487830.590
42_P47_P0.487190.589
238_E242_R0.486870.589
157_P304_A0.486390.588
150_K183_I0.486230.588
245_R249_S0.485020.587
318_E336_S0.483850.585
207_L210_D0.483250.585
132_P135_L0.482480.584
54_A57_L0.481920.583
183_I212_N0.481440.582
58_G205_S0.480770.582
317_A321_A0.478460.579
165_L169_E0.476450.576
44_Q244_R0.474310.574
288_L308_L0.473860.573
212_N236_P0.473690.573
289_R303_E0.472650.572
55_D58_G0.471880.571
118_I149_P0.471120.570
285_R348_L0.468980.567
152_V173_L0.468820.567
76_G231_G0.467990.566
311_R342_G0.467230.565
156_N188_E0.465610.563
46_Y257_Q0.463760.561
79_A251_L0.463210.560
23_A262_A0.462670.560
208_D211_D0.462170.559
230_V256_M0.46120.558
141_E180_Y0.461070.558
158_N161_T0.460950.558
50_R244_R0.460850.558
56_F223_F0.45820.554
189_A221_K0.457750.554
196_G303_E0.457370.553
109_A112_L0.456620.552
73_V82_F0.456480.552
78_Q105_S0.455620.551
318_E321_A0.454730.550
155_C159_N0.454580.550
258_A265_S0.453760.549
168_E208_D0.453260.548
120_V135_L0.451840.547
106_Y109_A0.449780.544
207_L212_N0.449530.544
129_H165_L0.448370.542
130_L169_E0.448230.542
192_D217_G0.448220.542
170_L186_V0.447570.541
205_S212_N0.447430.541
104_P108_E0.446690.540
305_G311_R0.445090.538
292_L360_L0.44490.538
90_I151_A0.444840.538
173_L177_A0.444590.538
258_A263_A0.443350.536
310_V346_I0.443040.536
164_V195_F0.442910.536
307_F312_L0.442820.536
22_A273_W0.442130.535
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
1b5pA0.93941000.123
3dydA0.96141000.129
3b46A0.95321000.13
3fvsA0.96421000.14
3g0tA0.96141000.143
2x5dA0.95041000.145
4fl0A0.96421000.148
3e2yA0.96141000.149
2o1bA0.94771000.15
1j32A0.94771000.151

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