GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Pkinase_Tyr - Protein tyrosine kinase
Pfam: PF07714 (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: CL0016
Length: 259
Sequences: 56241
Seq/Len: 217.15
HH_delta: -0.182 (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
243_S248_K2.922243.509
109_A195_L2.6863.225
17_R30_P2.542653.053
135_L145_S2.512633.017
5_K17_R2.261922.716
6_Q14_K2.214722.659
117_S121_S1.980482.378
188_V241_C1.965362.360
20_W27_K1.946832.338
117_S253_Q1.931372.319
18_A33_V1.89122.271
6_Q9_E1.868632.244
59_R65_K1.86822.243
18_A31_V1.827442.194
102_E231_P1.808542.172
240_Q250_P1.778752.136
84_P138_S1.768422.123
89_D132_S1.756562.109
137_D141_Q1.751132.103
111_Q142_V1.732482.080
113_A191_F1.722472.068
111_Q141_Q1.713912.058
60_H118_Y1.712382.056
116_L191_F1.708822.052
112_I134_I1.664711.999
17_R82_Y1.582551.900
81_E143_K1.578391.895
245_D248_K1.5651.879
134_I142_V1.555691.868
19_E30_P1.542311.852
67_Y81_E1.514181.818
101_S104_Q1.511431.815
130_S168_P1.479391.776
192_G241_C1.447351.738
87_S90_D1.44011.729
113_A255_I1.432391.720
167_L172_L1.419631.705
173_A186_S1.364731.639
137_D143_K1.349751.621
129_L194_L1.34521.615
6_Q16_Y1.333481.601
65_K81_E1.330111.597
109_A198_I1.268621.523
105_R199_L1.257251.510
241_C255_I1.244571.494
188_V252_F1.237481.486
115_A144_L1.234981.483
33_V79_V1.229361.476
199_L234_I1.229171.476
171_Y197_E1.227391.474
109_A191_F1.214061.458
29_Q67_Y1.213331.457
110_I114_E1.205111.447
108_I142_V1.188751.427
116_L129_L1.174851.411
62_N114_E1.172361.408
116_L252_F1.168691.403
83_C137_D1.155351.387
62_N115_A1.153581.385
121_S253_Q1.152271.384
251_S254_E1.13951.368
19_E28_N1.125921.352
202_G205_P1.124731.351
134_I194_L1.109861.333
250_P255_I1.109771.333
86_G94_S1.103521.325
105_R198_I1.09871.319
124_I150_S1.096571.317
89_D93_K1.095731.316
9_E14_K1.095331.315
195_L237_L1.090081.309
83_C143_K1.07751.294
107_S111_Q1.074271.290
131_P194_L1.057421.270
219_K222_Q1.056741.269
131_P171_Y1.047681.258
237_L241_C1.041081.250
118_Y122_N1.039561.248
252_F255_I1.038751.247
128_N133_N1.034141.242
51_E54_I1.03311.240
15_V32_A1.021381.226
235_Y239_Q1.005581.207
31_V79_V0.994421.194
238_I242_W0.9911.190
214_I218_L0.9861.184
127_G182_Y0.976471.172
236_S240_Q0.97351.169
48_F51_E0.95761.150
16_Y35_I0.95211.143
35_I77_F0.943551.133
112_I142_V0.943361.133
64_V80_M0.942471.132
35_I75_P0.936141.124
173_A176_V0.933831.121
240_Q243_S0.933441.121
126_H129_L0.930481.117
237_L255_I0.928881.115
123_N184_K0.916161.100
30_P82_Y0.913481.097
89_D197_E0.912671.096
113_A252_F0.910841.094
185_K251_S0.909391.092
20_W29_Q0.907741.090
66_L69_F0.901951.083
107_S141_Q0.891091.070
70_C79_V0.889591.068
189_Y193_M0.882691.060
120_H252_F0.876931.053
191_F241_C0.875951.052
92_L197_E0.87321.048
193_M242_W0.871991.047
64_V145_S0.870231.045
95_K104_Q0.870181.045
64_V83_C0.866631.041
136_L142_V0.864281.038
85_G140_G0.863621.037
211_N214_I0.856151.028
116_L120_H0.852531.024
31_V67_Y0.850581.021
114_E117_S0.849561.020
57_K122_N0.841361.010
54_I150_S0.840241.009
57_K152_P0.838851.007
197_E204_F0.837831.006
63_I119_L0.833881.001
112_I194_L0.830610.997
91_Y100_L0.828440.995
131_P197_E0.821590.987
182_Y186_S0.819910.985
30_P84_P0.814850.978
191_F195_L0.810310.973
243_S250_P0.805550.967
240_Q254_E0.805480.967
66_L78_L0.804610.966
91_Y95_K0.803490.965
33_V77_F0.797730.958
10_G13_G0.790990.950
7_I82_Y0.790930.950
83_C135_L0.790820.950
133_N146_D0.790740.949
130_S133_N0.787380.945
117_S252_F0.783640.941
127_G166_Q0.783280.941
112_I129_L0.783170.940
196_Y200_T0.781970.939
176_V186_S0.781010.938
86_G90_D0.780850.938
149_L166_Q0.780380.937
124_I152_P0.78030.937
210_D213_E0.776850.933
104_Q107_S0.77670.933
41_S44_E0.775980.932
129_L144_L0.773230.928
119_L147_F0.764540.918
214_I217_K0.752960.904
165_Q172_L0.752810.904
70_C77_F0.751770.903
102_E105_R0.749670.900
100_L108_I0.747690.898
112_I115_A0.746380.896
193_M197_E0.744960.895
20_W31_V0.744610.894
221_G244_H0.742870.892
193_M204_F0.735940.884
91_Y136_L0.735410.883
168_P171_Y0.731660.879
49_L53_Q0.728790.875
118_Y121_S0.726820.873
216_E220_Q0.726690.873
213_E216_E0.721630.866
219_K223_R0.718220.862
66_L80_M0.717990.862
58_L124_I0.71290.856
175_E186_S0.712770.856
185_K247_E0.709210.852
59_R118_Y0.709080.851
119_L124_I0.708960.851
189_Y242_W0.707930.850
227_P230_C0.701850.843
55_L66_L0.700160.841
191_F252_F0.697690.838
237_L250_P0.696090.836
32_A82_Y0.695680.835
232_K235_Y0.692150.831
51_E58_L0.6890.827
62_N111_Q0.688950.827
192_G242_W0.687030.825
120_H187_D0.686730.825
52_I69_F0.67910.815
213_E217_K0.677130.813
208_D214_I0.677110.813
108_I136_L0.672720.808
60_H63_I0.671130.806
86_G145_S0.670550.805
87_S132_S0.664390.798
45_E49_L0.663250.796
83_C145_S0.662540.796
8_G15_V0.661650.794
250_P254_E0.66160.794
51_E55_L0.658440.791
125_I182_Y0.654260.786
193_M196_Y0.652560.784
89_D131_P0.64840.779
130_S146_D0.646930.777
92_L198_I0.646790.777
83_C136_L0.643770.773
62_N141_Q0.64340.773
40_S44_E0.641360.770
199_L230_C0.638860.767
102_E106_L0.635850.763
104_Q140_G0.63560.763
147_F150_S0.634230.762
232_K236_S0.633980.761
112_I191_F0.632760.760
188_V255_I0.632140.759
84_P137_D0.627010.753
65_K143_K0.626140.752
192_G238_I0.624740.750
189_Y218_L0.623370.749
106_L234_I0.623130.748
246_P249_R0.620370.745
212_E216_E0.61890.743
105_R195_L0.616450.740
208_D217_K0.615250.739
176_V182_Y0.614270.738
58_L118_Y0.610910.734
91_Y104_Q0.60950.732
60_H114_E0.609490.732
217_K221_G0.608970.731
224_L227_P0.606430.728
241_C250_P0.603910.725
221_G224_L0.601520.722
100_L105_R0.598410.719
61_P114_E0.597610.718
245_D249_R0.594410.714
231_P234_I0.59190.711
208_D213_E0.591890.711
63_I118_Y0.591780.711
125_I183_T0.589550.708
52_I56_R0.588920.707
58_L119_L0.587620.706
175_E246_P0.58750.705
113_A188_V0.586310.704
18_A79_V0.582730.700
222_Q225_P0.581440.698
120_H184_K0.579070.695
165_Q169_L0.577350.693
220_Q223_R0.576990.693
196_Y242_W0.574360.690
53_Q56_R0.574160.689
95_K98_E0.571210.686
226_I235_Y0.570220.685
82_Y86_G0.567830.682
186_S190_S0.56560.679
174_P189_Y0.56410.677
137_D140_G0.561610.674
206_F209_Y0.559420.672
166_Q172_L0.558110.670
203_K207_S0.555990.668
170_R204_F0.555770.667
53_Q57_K0.549830.660
211_N215_I0.547120.657
29_Q65_K0.546180.656
61_P141_Q0.544420.654
214_I221_G0.541990.651
50_N53_Q0.541390.650
128_N168_P0.540060.648
101_S105_R0.53970.648
68_G79_V0.538720.647
217_K220_Q0.536270.644
85_G137_D0.534850.642
52_I66_L0.532950.640
191_F255_I0.531910.639
172_L176_V0.530320.637
223_R226_I0.530150.637
88_L198_I0.529720.636
217_K222_Q0.528280.634
239_Q243_S0.5270.633
166_Q170_R0.524920.630
215_I218_L0.522180.627
72_E75_P0.520330.625
86_G91_Y0.519540.624
235_Y238_I0.51830.622
14_K35_I0.517930.622
160_K163_S0.51780.622
175_E189_Y0.517620.622
199_L238_I0.516550.620
71_I76_L0.513650.617
8_G32_A0.51140.614
212_E215_I0.508950.611
20_W28_N0.508850.611
209_Y213_E0.505870.607
188_V192_G0.505740.607
173_A177_L0.504890.606
188_V250_P0.50120.602
169_L172_L0.500910.601
175_E249_R0.500070.600
127_G151_R0.498360.598
49_L71_I0.495410.595
91_Y108_I0.494590.594
200_T203_K0.491080.590
219_K224_L0.490840.589
7_I15_V0.48960.588
103_Q106_L0.489490.588
108_I111_Q0.489210.587
38_P41_S0.488840.587
170_R189_Y0.488410.586
60_H115_A0.48730.585
172_L177_L0.485380.583
204_F207_S0.484310.582
105_R109_A0.482820.580
55_L80_M0.482510.579
196_Y206_F0.482350.579
200_T230_C0.481150.578
108_I140_G0.480020.576
54_I124_I0.4790.575
195_L238_I0.478510.575
125_I153_I0.476630.572
109_A113_A0.476170.572
102_E199_L0.475640.571
221_G226_I0.475470.571
214_I219_K0.473130.568
108_I198_I0.471320.566
28_N32_A0.470610.565
178_K244_H0.469110.563
223_R242_W0.468290.562
125_I184_K0.467110.561
195_L234_I0.466990.561
126_H133_N0.466880.561
230_C234_I0.465040.558
108_I112_I0.46420.557
126_H144_L0.462960.556
10_G15_V0.462610.555
106_L110_I0.462420.555
54_I152_P0.461740.554
199_L231_P0.461670.554
91_Y140_G0.461560.554
226_I230_C0.46010.552
233_D236_S0.459930.552
173_A246_P0.459920.552
31_V34_K0.459550.552
111_Q114_E0.458070.550
34_K146_D0.457930.550
209_Y214_I0.457130.549
196_Y238_I0.456150.548
88_L194_L0.455450.547
178_K181_E0.455140.547
168_P172_L0.454450.546
100_L104_Q0.454060.545
47_E50_N0.454050.545
178_K219_K0.450740.541
44_E47_E0.449570.540
222_Q226_I0.44820.538
83_C86_G0.448140.538
220_Q224_L0.448110.538
90_D93_K0.44670.536
20_W68_G0.446160.536
226_I229_N0.445310.535
19_E27_K0.445280.535
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
4gt4A1100-0.182
4aojA0.9961100-0.177
4fieA0.9575100-0.17
4fihA0.9575100-0.167
4g3fA0.9498100-0.162
3ubdA0.973100-0.139
3omvA0.9614100-0.139
4i4eA0.9846100-0.139
4fg7A0.9614100-0.133
4hzsA0.9884100-0.132

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