GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Aminotran_5 - Aminotransferase class-V
Pfam: PF00266 (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: 371
Sequences: 48190
Seq/Len: 129.89
HH_delta: 0.183 (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
162_A166_H2.524833.271
133_E167_E2.292.966
286_Y365_E2.271382.942
51_A266_K2.181992.827
90_E117_R2.129232.758
279_R283_L1.982722.568
13_K17_E1.906912.470
131_D134_E1.88712.445
129_L160_E1.880662.436
90_E115_E1.876342.431
17_E21_D1.859582.409
90_E137_N1.853662.401
286_Y290_A1.804712.338
281_R285_E1.797582.329
162_A172_L1.741382.256
160_E163_K1.699482.202
263_E266_K1.698472.200
290_A293_E1.691762.192
131_D135_A1.652212.140
157_P160_E1.63542.119
163_K167_E1.634312.117
327_Y331_R1.616472.094
90_E139_D1.611912.088
197_F210_F1.606882.082
285_E289_E1.595742.067
282_E365_E1.575962.042
165_A170_A1.550882.009
67_T73_A1.55032.008
254_N257_A1.540681.996
133_E164_L1.522971.973
327_Y330_E1.521661.971
90_E140_T1.520591.970
213_V218_I1.48491.924
159_E163_K1.484251.923
16_L20_S1.466751.900
89_D141_R1.447091.875
133_E168_Y1.438691.864
50_E54_K1.425131.846
51_A262_N1.411461.828
278_E282_E1.409551.826
288_R292_E1.406341.822
142_L173_V1.401141.815
129_L164_L1.386541.796
17_E20_S1.372171.778
95_S120_P1.366451.770
275_R278_E1.361191.763
14_S263_E1.354531.755
186_D189_E1.347621.746
63_E215_P1.325641.717
164_L168_Y1.321691.712
279_R282_E1.316821.706
133_E160_E1.316721.706
14_S267_L1.308481.695
120_P131_D1.284211.664
326_K330_E1.281431.660
320_D323_D1.255381.626
51_A269_E1.243481.611
85_L114_A1.242681.610
77_V194_F1.240661.607
289_E293_E1.23791.604
128_D131_D1.204331.560
18_A263_E1.2021.557
75_N79_S1.187691.539
323_D327_Y1.187521.538
130_E134_E1.178071.526
165_A172_L1.164771.509
68_S72_E1.159041.501
284_A288_R1.148831.488
95_S118_V1.144161.482
173_V196_V1.139451.476
133_E137_N1.122711.454
92_L140_T1.113311.442
290_A294_L1.110921.439
143_V165_A1.108321.436
147_H179_S1.107011.434
46_E50_E1.101321.427
86_K89_D1.057461.370
289_E292_E1.056081.368
176_A195_L1.052171.363
51_A54_K1.048281.358
43_E47_E1.041971.350
130_E133_E1.037351.344
19_I260_A1.031581.336
274_E278_E1.029291.333
262_N266_K1.029231.333
136_L164_L1.022521.325
77_V173_V1.017351.318
323_D326_K1.014441.314
14_S270_E1.014261.314
328_L335_V1.007511.305
136_L170_A1.007161.305
286_Y289_E1.001031.297
18_A21_D1.000751.296
283_L286_Y0.999741.295
166_H191_G0.993291.287
166_H193_D0.989781.282
47_E51_A0.985731.277
143_V170_A0.985151.276
47_E262_N0.977371.266
298_E315_N0.972681.260
16_L23_L0.964981.250
117_R135_A0.962951.247
52_L210_F0.954621.237
74_L196_V0.952631.234
315_N353_G0.949351.230
282_E286_Y0.938521.216
89_D139_D0.936441.213
144_S173_V0.935131.211
322_D326_K0.923171.196
130_E160_E0.919881.192
145_I172_L0.919871.192
288_R312_V0.919031.191
263_E267_L0.918781.190
163_K166_H0.918571.190
92_L135_A0.914991.185
145_I161_I0.912831.182
78_A144_S0.912461.182
119_I135_A0.90861.177
215_P219_E0.906581.174
132_L161_I0.901711.168
283_L365_E0.894531.159
64_V212_Y0.891231.155
275_R279_R0.879721.140
19_I23_L0.87881.138
199_S261_L0.873691.132
59_P215_P0.870221.127
54_K269_E0.859791.114
137_N140_T0.858261.112
136_L168_Y0.856641.110
278_E281_R0.852081.104
14_S17_E0.850591.102
81_L171_L0.848821.100
51_A55_L0.847751.098
287_L290_A0.83751.085
74_L100_S0.834551.081
314_F357_V0.834271.081
136_L140_T0.832961.079
73_A196_V0.824641.068
70_G196_V0.824181.068
277_R281_R0.82281.066
326_K329_E0.822221.065
171_L217_A0.819251.061
282_E285_E0.818661.060
47_E266_K0.816231.057
159_E189_E0.806531.045
129_L133_E0.79381.028
164_L170_A0.791731.026
287_L359_L0.789921.023
91_V142_L0.784431.016
50_E53_A0.78271.014
335_V355_I0.782351.013
47_E50_E0.779141.009
109_A114_A0.776831.006
20_S23_L0.770620.998
180_A183_V0.769650.997
58_A212_Y0.765450.992
174_V192_A0.76260.988
13_K16_L0.761440.986
137_N168_Y0.759460.984
325_V337_T0.758280.982
194_F213_V0.755170.978
49_R53_A0.75440.977
122_D126_S0.752340.975
117_R137_N0.746820.967
298_E317_P0.744530.964
164_L167_E0.740340.959
325_V335_V0.730540.946
176_A179_S0.729850.945
165_A168_Y0.722580.936
133_E163_K0.721180.934
67_T209_G0.718690.931
56_L212_Y0.713850.925
44_I47_E0.71290.923
193_D214_R0.712530.923
93_V116_V0.708860.918
274_E277_R0.703850.912
106_E109_A0.703540.911
324_V355_I0.699630.906
313_S354_V0.696260.902
162_A165_A0.695870.901
219_E223_P0.694460.900
165_A169_G0.693410.898
48_A262_N0.690620.895
287_L357_V0.688050.891
45_L49_R0.683120.885
132_L143_V0.68290.885
145_I158_I0.680050.881
143_V161_I0.677370.877
122_D128_D0.671130.869
319_S323_D0.665830.863
74_L173_V0.665650.862
79_S112_K0.658250.853
300_L315_N0.656560.851
177_A198_S0.655230.849
276_I280_I0.655220.849
272_G275_R0.655220.849
81_L194_F0.645120.836
53_A64_V0.643680.834
328_L333_I0.640060.829
271_I275_R0.639750.829
325_V329_E0.639750.829
288_R301_G0.63950.828
166_H172_L0.635910.824
272_G276_I0.634290.822
335_V357_V0.633580.821
276_I279_R0.62950.815
102_R118_V0.6260.811
287_L291_L0.619060.802
279_R365_E0.616830.799
171_L194_F0.616340.798
309_P313_S0.614110.796
59_P214_R0.613030.794
192_A195_L0.612950.794
255_V258_I0.612650.794
81_L142_L0.612430.793
48_A51_A0.61210.793
194_F217_A0.611280.792
216_E219_E0.610520.791
85_L89_D0.610180.790
74_L144_S0.609920.790
208_L261_L0.608130.788
92_L119_I0.607960.788
162_A191_G0.604490.783
324_V328_L0.604460.783
67_T211_L0.603070.781
49_R66_F0.602950.781
260_A263_E0.60.777
78_A85_L0.598320.775
42_A46_E0.597370.774
85_L91_V0.596470.773
93_V118_V0.593570.769
259_Y262_N0.590530.765
185_I188_D0.590250.765
18_A22_Y0.590170.765
283_L287_L0.589310.763
285_E288_R0.588770.763
211_L221_L0.588270.762
203_G207_G0.586590.760
133_E136_L0.586020.759
280_I283_L0.58370.756
160_E164_L0.582880.755
288_R307_R0.582140.754
140_T170_A0.581290.753
53_A59_P0.579270.750
93_V97_E0.577960.749
92_L132_L0.577810.748
253_P258_I0.576170.746
48_A261_L0.575660.746
161_I172_L0.575370.745
307_R311_I0.57520.745
194_F211_L0.574160.744
268_L271_I0.573510.743
147_H158_I0.57090.740
214_R217_A0.570350.739
79_S224_A0.569140.737
271_I274_E0.568760.737
132_L164_L0.563420.730
48_A66_F0.562840.729
87_P113_G0.562270.728
137_N167_E0.562140.728
280_I284_A0.559920.725
324_V327_Y0.555870.720
46_E49_R0.555560.720
142_L171_L0.553840.717
322_D337_T0.553660.717
122_D131_D0.551690.715
329_E334_A0.549440.712
57_G186_D0.5490.711
67_T76_A0.548790.711
220_R223_P0.547430.709
315_N354_V0.546950.709
180_A184_P0.545720.707
79_S226_P0.545160.706
145_I149_E0.54410.705
50_E60_P0.543680.704
19_I256_P0.54280.703
294_L297_I0.541850.702
85_L142_L0.539460.699
60_P215_P0.538150.697
80_S221_L0.537110.696
78_A142_L0.534560.692
295_P298_E0.533970.692
73_A211_L0.531770.689
97_E146_S0.527540.683
267_L270_E0.526070.681
159_E162_A0.523170.678
197_F212_Y0.52070.675
266_K270_E0.517980.671
59_P63_E0.517120.670
90_E138_P0.517020.670
266_K269_E0.515730.668
70_G177_A0.515460.668
148_V308_R0.514520.667
92_L117_R0.513970.666
120_P135_A0.512890.664
256_P259_Y0.51110.662
129_L132_L0.507970.658
77_V196_V0.507820.658
146_S150_N0.507570.658
147_H195_L0.507280.657
63_E218_I0.506290.656
260_A264_A0.501830.650
292_E295_P0.501440.650
321_A337_T0.501210.649
96_N156_N0.496710.643
52_L197_F0.496650.643
42_A45_L0.496370.643
86_K141_R0.493260.639
292_E299_V0.492690.638
258_I262_N0.492570.638
23_L256_P0.491460.637
52_L66_F0.489650.634
181_G184_P0.489480.634
44_I48_A0.487990.632
267_L271_I0.487920.632
132_L136_L0.487530.632
65_V218_I0.486590.630
316_L324_V0.484650.628
306_P309_P0.48460.628
191_G214_R0.483120.626
49_R64_V0.481040.623
158_I174_V0.480790.623
107_E226_P0.478810.620
253_P256_P0.478290.620
117_R140_T0.478120.619
149_E152_T0.476470.617
179_S183_V0.47510.615
93_V144_S0.474580.615
97_E102_R0.474330.614
145_I174_V0.474230.614
115_E137_N0.473890.614
106_E118_V0.473560.613
325_V355_I0.472480.612
70_G198_S0.471920.611
217_A220_R0.470880.610
199_S210_F0.470790.610
203_G206_P0.470070.609
53_A58_A0.468420.607
209_G213_V0.467420.605
22_Y259_Y0.46650.604
312_V315_N0.466030.604
77_V81_L0.465690.603
48_A52_L0.465150.603
162_A193_D0.464750.602
273_I277_R0.464710.602
98_H101_N0.464440.602
308_R311_I0.464060.601
273_I276_I0.463420.600
288_R299_V0.463360.600
203_G360_H0.463310.600
213_V217_A0.462910.600
56_L197_F0.462690.599
255_V259_Y0.462590.599
291_L314_F0.461660.598
198_S201_K0.461350.598
173_V194_F0.460790.597
18_A259_Y0.460450.596
90_E141_R0.460440.596
162_A190_L0.459710.596
107_E111_R0.457080.592
199_S202_L0.457010.592
264_A267_L0.456270.591
310_S313_S0.45580.590
310_S314_F0.454820.589
15_V263_E0.453070.587
186_D190_L0.451790.585
210_F213_V0.451170.584
88_G115_E0.449460.582
202_L207_G0.44830.581
208_L257_A0.447740.580
69_N209_G0.445260.577
296_G317_P0.444960.576
109_A116_V0.444570.576
18_A266_K0.443930.575
127_L132_L0.442760.574
63_E212_Y0.440510.571
37_R41_F0.440380.570
226_P229_G0.439680.570
311_I358_S0.438850.568
216_E220_R0.438360.568
184_P187_L0.438180.568
13_K20_S0.43810.568
219_E222_R0.438080.567
169_G192_A0.436060.565
72_E225_K0.435950.565
45_L258_I0.435630.564
44_I259_Y0.434160.562
268_L272_G0.434010.562
147_H174_V0.432680.560
204_G207_G0.427640.554
264_A268_L0.425830.552
16_L19_I0.42570.551
166_H170_A0.425230.551
292_E301_G0.425180.551
281_R284_A0.424750.550
336_S356_R0.423760.549
277_R280_I0.423410.548
14_S18_A0.423160.548
321_A353_G0.422610.547
15_V264_A0.4210.545
122_D125_G0.420390.545
187_L190_L0.419930.544
163_K191_G0.419720.544
53_A60_P0.419250.543
201_K356_R0.418060.542
21_D263_E0.41790.541
14_S272_G0.4170.540
146_S149_E0.414920.537
71_T100_S0.414350.537
44_I262_N0.41410.536
291_L294_L0.413850.536
76_A221_L0.413730.536
115_E139_D0.413510.536
85_L141_R0.413390.536
215_P218_I0.413290.535
258_I265_L0.412190.534
64_V67_T0.410950.532
140_T143_V0.410820.532
148_V309_P0.410530.532
41_F45_L0.410230.531
138_P168_Y0.410.531
58_A195_L0.409710.531
162_A192_A0.409410.530
178_Q356_R0.409280.530
63_E188_D0.409050.530
188_D191_G0.408960.530
222_R226_P0.408950.530
57_G188_D0.408880.530
54_K266_K0.408810.530
111_R114_A0.408790.530
184_P277_R0.408160.529
166_H169_G0.407960.528
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
1kmjA0.98921000.183
1t3iA0.99731000.19
3e9kA0.96231000.208
4hvkA0.93261000.221
3lvmA0.94611000.228
3caiA0.95421000.23
4eb5A0.94071000.234
3vaxA0.94071000.24
2z9vA0.92451000.245
1eluA0.95421000.247

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