GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Ins134_P3_kin - Inositol 1 3 4-trisphosphate 56-kinase
Pfam: PF05770 (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: CL0179
Length: 307
Sequences: 4793
Seq/Len: 15.61
HH_delta: 0.246 (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
117_K177_E1.210125.622
252_K256_E0.833663.873
162_N165_G0.661143.072
249_L252_K0.597072.774
243_E246_P0.591972.750
114_R279_R0.591782.750
133_K163_E0.550972.560
273_E279_R0.522572.428
113_I282_V0.485432.255
248_E251_E0.469332.181
39_V53_F0.443082.059
179_V281_Y0.441752.052
114_R253_L0.432542.010
142_I178_F0.421871.960
257_L282_V0.41961.950
186_F272_R0.415541.931
180_N274_N0.411441.912
143_C175_L0.409941.905
142_I159_I0.403191.873
139_F162_N0.402431.870
272_R280_Y0.401561.866
255_K259_R0.400991.863
246_P249_L0.400041.859
161_F165_G0.387361.800
268_F285_I0.38451.786
244_M248_E0.382831.779
266_F288_F0.380071.766
32_R35_G0.371651.727
28_I38_F0.362991.687
248_E252_K0.362281.683
247_D251_E0.361231.678
273_E281_Y0.35691.658
202_S205_N0.354611.648
190_V255_K0.347251.613
116_P179_V0.337061.566
116_P177_E0.333761.551
188_V270_V0.33031.535
30_L33_S0.327551.522
161_F216_I0.326811.518
133_K139_F0.326341.516
115_V118_F0.323861.505
139_F163_E0.320971.491
95_Q101_L0.318181.478
137_L141_L0.317911.477
246_P272_R0.311461.447
256_E259_R0.310241.441
249_L279_R0.308521.433
253_L270_V0.307981.431
188_V250_V0.305961.422
93_D287_Y0.304941.417
257_L260_A0.30271.406
140_P159_I0.293341.363
190_V254_A0.28861.341
194_K255_K0.288571.341
123_S127_S0.286741.332
98_L176_Q0.285881.328
242_V247_D0.284351.321
129_P167_K0.280681.304
261_L285_I0.278421.294
159_I178_F0.277761.291
60_L66_V0.277031.287
132_L141_L0.2771.287
119_V131_L0.276561.285
242_V246_P0.276351.284
138_K177_E0.275971.282
250_V280_Y0.272691.267
188_V254_A0.271241.260
28_I40_P0.270591.257
116_P281_Y0.267831.244
69_L72_Y0.267231.242
271_I283_I0.266521.238
251_E255_K0.266091.236
163_E167_K0.264691.230
118_F176_Q0.261711.216
146_L172_P0.259891.207
127_S130_E0.25551.187
130_E133_K0.254981.185
24_Q59_K0.25351.178
29_D33_S0.252081.171
177_E273_E0.25131.168
139_F166_L0.250331.163
27_F59_K0.248061.153
260_A263_L0.245411.140
141_L160_V0.244551.136
249_L253_L0.243111.130
177_E281_Y0.241641.123
147_V170_K0.239311.112
258_R268_F0.238561.108
91_L101_L0.236921.101
118_F174_V0.234931.092
165_G168_D0.234661.090
121_I128_L0.231841.077
68_Q81_V0.23151.076
252_K255_K0.230941.073
20_K23_I0.230151.069
254_A270_V0.229921.068
59_K288_F0.229061.064
102_S115_V0.227361.056
184_V272_R0.226031.050
113_I256_E0.225761.049
193_D259_R0.224371.042
186_F242_V0.222891.036
31_A38_F0.222811.035
142_I157_M0.222021.032
268_F282_V0.220041.022
100_V120_V0.219321.019
95_Q99_Q0.218721.016
100_V172_P0.217771.012
79_V263_L0.216861.008
141_L175_L0.215631.002
114_R249_L0.215421.001
58_H77_P0.215341.001
129_P163_E0.215070.999
67_Q70_E0.213360.991
132_L139_F0.212260.986
253_L256_E0.212210.986
92_L263_L0.211990.985
55_V77_P0.211630.983
99_Q103_E0.210830.980
130_E163_E0.210140.976
119_V137_L0.209010.971
94_R97_M0.20840.968
188_V251_E0.207990.966
28_I32_R0.207460.964
224_S267_G0.207210.963
18_K42_D0.206760.961
275_G279_R0.206350.959
114_R256_E0.204890.952
63_E67_Q0.204420.950
271_I281_Y0.203050.943
151_S154_S0.202870.943
164_E168_D0.202350.940
121_I131_L0.201190.935
187_K267_G0.199790.928
186_F205_N0.19860.923
103_E260_A0.198360.922
18_K22_F0.198140.921
116_P183_G0.197890.919
91_L95_Q0.197250.916
195_V255_K0.195410.908
53_F56_I0.192080.892
122_N172_P0.191630.890
204_P247_D0.190730.886
187_K205_N0.190630.886
258_R267_G0.189680.881
142_I217_F0.189540.881
58_H288_F0.188510.876
225_K229_S0.187820.873
160_V166_L0.187130.869
193_D255_K0.186590.867
241_Q247_D0.186430.866
96_S261_L0.186420.866
146_L174_V0.185610.862
258_R263_L0.185140.860
91_L94_R0.184620.858
154_S157_M0.184370.857
114_R281_Y0.184230.856
186_F250_V0.183460.852
23_I27_F0.181720.844
190_V258_R0.180730.840
227_E231_D0.179420.834
30_L284_D0.178870.831
246_P280_Y0.178390.829
96_S102_S0.177460.825
227_E230_S0.176310.819
185_L284_D0.175950.817
64_D67_Q0.175630.816
81_V94_R0.175430.815
22_F42_D0.174790.812
177_E279_R0.174450.811
179_V273_E0.173650.807
91_L287_Y0.173580.806
269_D286_N0.172790.803
184_V241_Q0.172450.801
19_Q22_F0.172270.800
103_E256_E0.171990.799
160_V165_G0.171230.796
205_N251_E0.170130.790
96_S258_R0.167810.780
256_E260_A0.167140.777
224_S227_E0.166560.774
202_S255_K0.166440.773
147_V172_P0.165680.770
65_W72_Y0.165580.769
245_P249_L0.164830.766
176_Q179_V0.164580.765
269_D290_G0.164430.764
98_L102_S0.163830.761
226_L229_S0.163140.758
127_S131_L0.162710.756
123_S171_P0.162440.755
55_V58_H0.16220.754
32_R36_I0.161640.751
138_K141_L0.161480.750
147_V171_P0.161390.750
144_K176_Q0.161270.749
186_F204_P0.160460.746
205_N240_S0.160060.744
139_F175_L0.159610.742
20_K24_Q0.159330.740
26_S30_L0.159250.740
32_R40_P0.158860.738
125_A130_E0.158840.738
102_S282_V0.157830.733
168_D279_R0.15740.731
121_I143_C0.157350.731
30_L34_R0.157050.730
257_L261_L0.15690.729
27_F57_L0.155660.723
187_K218_F0.155070.720
65_W81_V0.154930.720
117_K281_Y0.154260.717
263_L285_I0.154070.716
178_F271_I0.153770.714
164_E167_K0.15370.714
249_L280_Y0.153380.713
178_F183_G0.152940.711
144_K269_D0.15290.710
117_K138_K0.152460.708
59_K176_Q0.152440.708
250_V270_V0.152430.708
286_N289_P0.152390.708
248_E255_K0.15190.706
270_V282_V0.150710.700
96_S287_Y0.150130.698
245_P248_E0.150030.697
132_L166_L0.14960.695
103_E115_V0.149470.694
125_A167_K0.149460.694
58_H66_V0.149060.693
191_V196_F0.149050.693
80_V262_G0.148550.690
100_V146_L0.147740.686
122_N171_P0.147410.685
190_V268_F0.14740.685
132_L138_K0.147150.684
244_M247_D0.146930.683
229_S232_L0.146910.683
121_I127_S0.146060.679
137_L140_P0.146020.678
114_R252_K0.1460.678
196_F202_S0.145990.678
26_S29_D0.144740.672
29_D32_R0.144560.672
140_P161_F0.144150.670
180_N273_E0.143760.668
65_W68_Q0.143480.667
252_K259_R0.142980.664
119_V122_N0.142910.664
69_L73_I0.142870.664
64_D68_Q0.142780.663
226_L232_L0.142290.661
196_F205_N0.141910.659
274_N279_R0.141860.659
23_I26_S0.141840.659
113_I253_L0.141810.659
145_P158_A0.141770.659
98_L115_V0.140510.653
100_V118_F0.140340.652
75_K78_E0.140280.652
150_G290_G0.139260.647
270_V280_Y0.139030.646
129_P133_K0.138770.645
115_V281_Y0.138590.644
163_E248_E0.138110.642
25_P29_D0.138080.642
30_L35_G0.137860.641
196_F203_L0.137520.639
274_N281_Y0.13690.636
129_P166_L0.13670.635
129_P132_L0.136650.635
96_S99_Q0.136160.633
157_M217_F0.135790.631
253_L282_V0.135180.628
94_R187_K0.135150.628
193_D196_F0.135080.628
71_E81_V0.134470.625
187_K291_Y0.134450.625
188_V205_N0.134420.625
145_P157_M0.133850.622
122_N127_S0.133540.620
27_F31_A0.133450.620
103_E176_Q0.132490.616
70_E75_K0.132160.614
93_D150_G0.132050.614
128_L175_L0.132040.613
162_N166_L0.131860.613
103_E174_V0.131760.612
195_V259_R0.131660.612
147_V155_H0.131290.610
56_I66_V0.130930.608
184_V271_I0.130840.608
218_F292_K0.13070.607
95_Q122_N0.130480.606
150_G286_N0.129820.603
43_L60_L0.129780.603
145_P156_K0.129460.601
289_P292_K0.129250.601
249_L256_E0.129070.600
143_C166_L0.128850.599
195_V202_S0.12880.598
61_T64_D0.128620.598
48_E267_G0.128250.596
130_E167_K0.128040.595
120_V285_I0.128010.595
43_L66_V0.127860.594
205_N246_P0.127750.594
120_V146_L0.12770.593
243_E251_E0.127590.593
60_L289_P0.127360.592
133_K165_G0.127150.591
80_V96_S0.126820.589
142_I218_F0.126670.589
267_G286_N0.126520.588
63_E70_E0.126380.587
242_V250_V0.126330.587
159_I216_I0.12630.587
155_H218_F0.126240.587
189_Y288_F0.126190.586
124_D168_D0.125540.583
133_K164_E0.125540.583
247_D250_V0.125360.582
254_A257_L0.125230.582
80_V92_L0.12510.581
156_K173_C0.124760.580
70_E73_I0.124170.577
100_V157_M0.123920.576
71_E75_K0.123490.574
122_N125_A0.12330.573
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
2q7dA0.97721000.246
1z2nX0.91531000.401
3t7aA0.89581000.439
4iwxA0.86321000.445
4eg0A0.90231000.456
4fu0A0.8861000.465
3se7A0.8861000.466
3r5xA0.86971000.467
3k3pA0.90551000.467
3tqtA0.89251000.467

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