GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PfkB - pfkB family carbohydrate kinase
Pfam: PF00294 (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: CL0118
Length: 301
Sequences: 10265
Seq/Len: 34.1
HH_delta: 0.156 (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
51_A266_Y1.18593.066
273_S276_E1.084812.804
233_Y278_L1.055582.729
46_L51_A1.006742.603
61_D86_G0.976282.524
5_L128_A0.962912.489
69_L84_R0.956772.473
231_A260_F0.937662.424
54_A78_D0.936412.421
66_E84_R0.932492.411
267_G272_M0.918862.375
48_R75_R0.910962.355
226_L232_L0.867132.242
203_D206_D0.857912.218
259_A284_A0.82612.136
267_G280_F0.810432.095
190_E226_L0.77081.993
263_G284_A0.757641.959
6_V43_A0.757361.958
272_M276_E0.755671.954
184_D220_K0.740641.915
275_E279_K0.738861.910
58_K119_E0.738561.909
264_F277_A0.705741.824
240_Y275_E0.696991.802
70_E74_E0.696011.799
45_A262_A0.694581.796
252_D293_G0.681681.762
285_A289_V0.673671.742
73_K79_T0.671951.737
58_K85_D0.670861.734
44_I75_R0.669081.730
61_D66_E0.660341.707
4_V46_L0.657131.699
226_L241_H0.641431.658
231_A282_N0.64081.657
10_V57_G0.629041.626
187_K261_A0.626571.620
46_L266_Y0.626361.619
223_I264_F0.624261.614
256_A289_V0.623831.613
69_L73_K0.61951.602
183_A186_L0.617251.596
66_E70_E0.615321.591
71_E74_E0.612941.585
148_E152_K0.610171.577
264_F281_A0.607361.570
194_E200_K0.602711.558
248_V290_Q0.601031.554
185_I221_I0.600551.553
130_I265_I0.600371.552
149_A152_K0.59541.539
35_P68_I0.592981.533
164_F265_I0.592941.533
264_F268_L0.571171.477
263_G281_A0.57091.476
263_G280_F0.566911.466
231_A278_L0.561291.451
33_R67_I0.561211.451
193_A224_V0.556091.438
232_L241_H0.555331.436
69_L82_I0.54811.417
151_A154_A0.54471.408
226_L229_D0.542111.401
221_I235_T0.537441.389
47_A77_V0.533891.380
233_Y240_Y0.531451.374
187_K225_T0.529831.370
152_K182_Y0.5281.365
14_I31_V0.526381.361
46_L262_A0.521621.348
235_T238_E0.520441.345
154_A158_G0.516321.335
154_A157_N0.514821.331
44_I48_R0.514441.330
246_P283_A0.513311.327
242_V278_L0.512121.324
153_A157_N0.50761.312
19_D29_S0.503541.302
266_Y270_S0.502281.298
226_L230_G0.49851.289
221_I274_L0.495941.282
71_E75_R0.493731.276
267_G277_A0.49341.276
221_I264_F0.491951.272
250_V289_V0.491291.270
45_A259_A0.489741.266
287_L291_Q0.489131.265
46_L53_V0.486211.257
59_V65_G0.484041.251
40_A72_L0.48281.248
49_L263_G0.481741.245
233_Y274_L0.481561.245
276_E279_K0.48121.244
12_I67_I0.481021.244
70_E73_K0.479881.241
61_D87_D0.478741.238
149_A153_A0.478681.237
151_A163_V0.476921.233
10_V68_I0.476261.231
43_A53_V0.474021.225
208_L212_R0.467891.210
190_E229_D0.467191.208
177_K217_R0.4671.207
180_L183_A0.463441.198
7_I131_L0.461151.192
52_D78_D0.456791.181
5_L56_I0.456011.179
282_N285_A0.454781.176
212_R234_Y0.453481.172
61_D84_R0.452281.169
189_N192_E0.447731.157
62_D90_T0.447091.156
51_A269_L0.445871.153
59_V82_I0.444461.149
221_I268_L0.443671.147
279_K283_A0.441031.140
277_A281_A0.440871.140
209_A213_E0.439071.135
206_D209_A0.438981.135
59_V69_L0.438721.134
123_E126_D0.437161.130
264_F274_L0.434831.124
225_T260_F0.430791.114
17_Y30_S0.428771.108
65_G90_T0.427841.106
132_H261_A0.427561.105
35_P71_E0.426021.101
287_L290_Q0.425231.099
242_V282_N0.424681.098
67_I70_E0.423611.095
85_D88_E0.421861.091
148_E178_E0.420471.087
187_K264_F0.415481.074
151_A182_Y0.414411.071
132_H265_I0.414321.071
47_A52_D0.413671.069
185_I264_F0.412651.067
151_A155_K0.412181.066
152_K156_K0.411631.064
49_L284_A0.411331.063
268_L277_A0.410081.060
66_E69_L0.408741.057
116_T119_E0.40791.055
10_V55_L0.407571.054
153_A156_K0.403541.043
285_A288_K0.401471.038
63_F66_E0.40071.036
273_S277_A0.39811.029
14_I33_R0.396921.026
13_D36_G0.394311.019
248_V289_V0.394271.019
221_I233_Y0.394141.019
244_P282_N0.388551.004
199_S206_D0.386921.000
157_N161_D0.386410.999
259_A263_G0.38570.997
155_K182_Y0.383480.991
185_I268_L0.383420.991
148_E151_A0.382220.988
42_V132_H0.382140.988
5_L54_A0.380.982
213_E217_R0.379690.982
238_E275_E0.379490.981
223_I233_Y0.378890.980
19_D99_P0.37880.979
11_N91_G0.377870.977
69_L79_T0.377150.975
88_E114_D0.376570.974
259_A288_K0.376370.973
40_A295_R0.37330.965
47_A53_V0.373080.964
14_I92_R0.372340.963
283_A287_L0.371950.962
133_L163_V0.371770.961
155_K184_D0.369060.954
211_L234_Y0.366980.949
54_A124_A0.363820.941
199_S213_E0.363380.939
47_A76_G0.362280.937
14_I64_F0.362040.936
85_D114_D0.361640.935
166_D225_T0.360190.931
250_V290_Q0.360120.931
190_E194_E0.358180.926
126_D157_N0.354260.916
272_M280_F0.353920.915
15_I34_S0.353130.913
79_T82_I0.352270.911
266_Y280_F0.352210.911
59_V84_R0.351330.908
282_N286_A0.350810.907
125_I128_A0.348940.902
4_V130_I0.348430.901
234_Y239_S0.348190.900
250_V253_T0.347640.899
263_G267_G0.347580.899
209_A212_R0.34720.898
40_A55_L0.346370.895
17_Y32_K0.345160.892
246_P279_K0.344940.892
153_A158_G0.343450.888
260_F282_N0.343430.888
122_E156_K0.342090.884
54_A81_Y0.340390.880
163_V166_D0.340250.880
4_V269_L0.340160.879
95_I105_F0.340090.879
193_A222_V0.339160.877
60_G90_T0.338720.876
12_I33_R0.337740.873
204_P241_H0.33740.872
259_A285_A0.336650.870
51_A270_S0.33290.861
267_G270_S0.332320.859
69_L83_P0.331890.858
44_I295_R0.331620.857
36_G41_N0.329210.851
43_A77_V0.329150.851
208_L239_S0.326790.845
42_V261_A0.326360.844
278_L282_N0.325630.842
35_P67_I0.325520.842
54_A128_A0.323520.836
10_V40_A0.321870.832
249_N290_Q0.320480.829
186_L222_V0.320170.828
228_E247_P0.319220.825
122_E153_A0.318520.823
230_G244_P0.317890.822
67_I71_E0.317440.821
6_V39_G0.317280.820
173_R177_K0.316630.819
16_G94_L0.31580.816
272_M277_A0.314040.812
43_A55_L0.312390.808
133_L151_A0.311960.806
131_L154_A0.309740.801
286_A290_Q0.309560.800
227_G253_T0.30910.799
10_V72_L0.309080.799
130_I269_L0.30670.793
62_D65_G0.305740.790
131_L161_D0.304380.787
260_F281_A0.304210.786
83_P119_E0.304190.786
231_A242_V0.303960.786
205_E209_A0.303070.783
162_P184_D0.302120.781
188_P193_A0.298120.771
162_P185_I0.29450.761
260_F278_L0.294350.761
6_V46_L0.292780.757
144_E148_E0.291240.753
220_K236_N0.289310.748
246_P282_N0.289210.748
205_E208_L0.288720.746
64_F92_R0.288640.746
49_L266_Y0.287380.743
93_C107_F0.287180.742
33_R64_F0.287090.742
260_F285_A0.284840.736
151_A158_G0.284030.734
42_V262_A0.283030.732
145_D149_A0.282520.730
54_A80_S0.281110.727
38_A42_V0.27990.724
276_E280_F0.279090.722
12_I64_F0.277170.717
28_V106_V0.276110.714
227_G230_G0.275320.712
106_V109_P0.274850.711
68_I90_T0.27470.710
58_K83_P0.274640.710
130_I164_F0.272640.705
248_V286_A0.270610.700
223_I260_F0.269490.697
165_R183_A0.269240.696
80_S124_A0.268690.695
52_D129_D0.268630.694
50_G53_V0.267570.692
155_K158_G0.267380.691
246_P286_A0.266890.690
204_P229_D0.266870.690
46_L263_G0.266830.690
242_V275_E0.266270.688
286_A289_V0.265110.685
187_K265_I0.264790.685
57_G82_I0.264520.684
96_I104_T0.264310.683
71_E295_R0.2640.682
12_I68_I0.263990.682
229_D241_H0.263150.680
165_R168_S0.263090.680
32_K292_P0.26070.674
49_L280_F0.260460.673
265_I269_L0.260020.672
219_V222_V0.258470.668
39_G43_A0.256940.664
256_A288_K0.256240.662
146_L150_L0.256020.662
5_L124_A0.255840.661
243_P246_P0.252710.653
124_A127_E0.252280.652
274_L278_L0.251830.651
117_P149_A0.251710.651
165_R169_W0.251040.649
183_A219_V0.251030.649
44_I77_V0.249870.646
184_D221_I0.249330.645
275_E278_L0.248810.643
63_F67_I0.248490.642
72_L77_V0.248490.642
46_L265_I0.24840.642
166_D169_W0.248310.642
211_L224_V0.248150.642
27_R109_P0.247960.641
126_D156_K0.247620.640
232_L239_S0.245870.636
122_E126_D0.24530.634
151_A157_N0.244750.633
251_V292_P0.24390.631
49_L262_A0.243780.630
235_T274_L0.243740.630
240_Y278_L0.243530.630
145_D148_E0.243330.629
6_V55_L0.24260.627
167_P188_P0.241390.624
25_L38_A0.240960.623
199_S210_A0.240860.623
66_E73_K0.240580.622
95_I254_T0.24020.621
11_N112_N0.239350.619
166_D188_P0.238520.617
262_A266_Y0.237670.614
38_A103_R0.237260.613
150_L154_A0.236450.611
38_A192_E0.235730.609
255_G258_D0.235120.608
177_K181_P0.234080.605
149_A154_A0.233420.603
175_D178_E0.232830.602
130_I185_I0.232130.600
20_R24_D0.231870.599
14_I94_L0.231840.599
197_T210_A0.23180.599
117_P145_D0.231110.597
81_Y84_R0.230860.597
134_S169_W0.230810.597
147_L178_E0.23070.596
227_G257_G0.230670.596
280_F284_A0.230620.596
103_R106_V0.23050.596
131_L150_L0.230320.595
130_I268_L0.230140.595
68_I72_L0.228620.591
31_V64_F0.228050.590
53_V56_I0.22760.588
17_Y99_P0.227560.588
101_G253_T0.227540.588
4_V51_A0.227370.588
47_A75_R0.227270.588
11_N38_A0.227090.587
42_V134_S0.227080.587
192_E261_A0.226750.586
123_E128_A0.226730.586
147_L151_A0.226120.585
161_D165_R0.225620.583
38_A105_F0.225590.583
13_D93_C0.225030.582
152_K155_K0.22490.581
206_D210_A0.224590.581
93_C105_F0.224280.580
162_P165_R0.224120.579
166_D187_K0.224030.579
263_G266_Y0.223770.578
143_P175_D0.223260.577
210_A213_E0.222970.576
218_G222_V0.222690.576
193_A197_T0.222450.575
61_D65_G0.222130.574
268_L271_G0.222030.574
45_A284_A0.221990.574
79_T83_P0.221780.573
151_A178_E0.221630.573
42_V46_L0.221620.573
56_I121_D0.221230.572
193_A234_Y0.221010.571
254_T294_P0.220510.570
225_T261_A0.220330.570
5_L125_I0.219610.568
193_A207_A0.219050.566
91_G107_F0.218470.565
178_E181_P0.218420.565
96_I106_V0.217690.563
104_T107_F0.217440.562
191_E195_A0.217340.562
228_E250_V0.21730.562
253_T289_V0.217240.562
274_L277_A0.217020.561
34_S296_S0.216930.561
225_T258_D0.215990.558
181_P218_G0.215950.558
270_S280_F0.215420.557
91_G112_N0.215110.556
17_Y97_V0.214940.556
98_D102_E0.213920.553
174_E178_E0.213920.553
223_I231_A0.213590.552
9_E38_A0.213190.551
242_V279_K0.212520.549
244_P286_A0.212420.549
7_I56_I0.211710.547
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
3ry7A0.96681000.156
3ljsA0.97011000.166
3hj6A0.96351000.172
3iq0A0.97011000.177
3kzhA0.96351000.178
3vasA0.98011000.181
1rkdA0.96681000.183
4jksA0.97341000.183
4e3aA0.97341000.183
4k8kA0.97341000.183

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