GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ketoacyl-synt - Beta-ketoacyl synthase N-terminal domain
Pfam: PF00109 (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: CL0046
Length: 254
Sequences: 10467
Seq/Len: 41.21
HH_delta: 0.054 (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
18_G21_E1.708633.745
24_E28_S1.607253.523
250_R253_H1.435493.146
98_A247_V1.278072.801
224_D235_D1.24652.732
112_E115_V1.245442.730
94_A243_A1.200322.631
190_I250_R1.142872.505
25_A32_G1.135322.488
25_A30_R1.117362.449
118_F189_A1.073562.353
119_V245_A1.073162.352
76_I84_M1.067392.340
116_G198_A1.051652.305
96_R100_E1.04572.292
121_S155_A1.030222.258
188_R192_S0.98062.149
95_A199_L0.964872.115
195_A198_A0.957932.100
52_V55_E0.946022.074
95_A159_I0.940772.062
160_A169_S0.912772.001
174_T177_A0.892911.957
201_G245_A0.892291.956
199_L247_V0.868111.903
120_G178_S0.86751.901
189_A195_A0.854951.874
8_G101_D0.821061.800
4_V248_L0.820011.797
91_A159_I0.798121.749
94_A245_A0.796931.747
91_A155_A0.788441.728
31_S226_P0.788411.728
10_G94_A0.778611.707
17_D21_E0.77851.706
96_R162_L0.776921.703
7_T249_E0.770391.689
105_D108_D0.764591.676
170_Y185_A0.758631.663
188_R194_E0.756021.657
4_V187_Y0.753051.651
9_M19_L0.752681.650
13_T244_G0.751791.648
156_A171_T0.74561.634
68_D71_A0.743721.630
183_L248_L0.743111.629
86_R90_L0.739361.621
187_Y191_R0.732471.605
95_A245_A0.730291.601
224_D228_R0.724241.587
222_S235_D0.721161.581
197_V247_V0.719771.578
24_E30_R0.713041.563
110_D164_G0.709121.554
228_R233_F0.708451.553
223_A235_D0.708421.553
116_G195_A0.70781.551
186_A200_V0.70171.538
116_G168_P0.694341.522
33_I54_G0.693061.519
188_R191_R0.69061.514
91_A119_V0.687651.507
228_R235_D0.682581.496
21_E24_E0.674611.479
189_A194_E0.673341.476
24_E27_L0.657771.442
140_R143_S0.655971.438
20_E101_D0.655911.438
41_D44_D0.654561.435
196_D250_R0.651811.429
99_L163_F0.647061.418
11_C22_F0.644851.413
91_A245_A0.644481.413
119_V201_G0.643241.410
115_V197_V0.635831.394
11_C19_L0.633681.389
98_A245_A0.616081.350
222_S228_R0.611791.341
183_L200_V0.60371.323
15_G32_G0.595681.306
35_P51_R0.584251.281
57_D216_S0.579771.271
190_I248_L0.572381.255
118_F198_A0.568951.247
9_M101_D0.568161.245
3_R251_L0.567051.243
196_D253_H0.565561.240
157_G169_S0.562791.234
186_A198_A0.558051.223
184_E194_E0.552231.210
212_L239_L0.549471.204
20_E24_E0.545351.195
3_R252_E0.540321.184
96_R163_F0.528981.159
124_G152_P0.514591.128
18_G97_E0.513751.126
94_A97_E0.506561.110
5_V251_L0.504011.105
197_V253_H0.502921.102
12_V97_E0.50221.101
190_I253_H0.501891.100
99_L165_L0.495681.086
99_L109_L0.493181.081
98_A199_L0.487761.069
91_A201_G0.484681.062
33_I238_V0.48381.060
197_V200_V0.480681.054
73_F96_R0.480341.053
37_P55_E0.479811.052
99_L247_V0.478071.048
10_G97_E0.477841.047
23_W27_L0.475861.043
185_A188_R0.465821.021
172_V185_A0.459181.006
36_I40_W0.458051.004
10_G98_A0.457531.003
203_V243_A0.456781.001
115_V165_L0.451750.990
117_V159_I0.450090.987
121_S152_P0.449360.985
15_G22_F0.448420.983
184_E188_R0.446470.979
90_L243_A0.446080.978
88_S154_S0.445510.976
34_R57_D0.44550.976
8_G98_A0.440160.965
215_F220_A0.438770.962
21_E25_A0.435750.955
77_P80_E0.432650.948
16_G25_A0.431570.946
200_V248_L0.430460.943
49_P217_A0.430130.943
97_E101_D0.426120.934
15_G25_A0.419690.920
49_P52_V0.419630.920
42_P51_R0.417710.916
16_G32_G0.415850.911
5_V254_A0.415140.910
220_A237_F0.413980.907
227_C237_F0.411650.902
99_L199_L0.407470.893
174_T181_A0.406650.891
165_L199_L0.404340.886
179_G202_G0.403680.885
95_A98_A0.400820.879
168_P195_A0.399890.876
118_F195_A0.394530.865
95_A163_F0.393720.863
157_G160_A0.392820.861
56_I212_L0.390380.856
142_V213_A0.389090.853
86_R89_R0.389070.853
129_Y133_D0.388970.853
121_S171_T0.38710.848
19_L101_D0.386240.847
92_L162_L0.386170.846
151_L154_S0.385730.845
189_A192_S0.38310.840
39_R86_R0.382940.839
118_F170_Y0.381550.836
122_S125_D0.380910.835
5_V249_E0.378270.829
67_F93_A0.375380.823
88_S158_R0.375380.823
118_F185_A0.374060.820
121_S124_G0.373950.820
102_A247_V0.369840.811
22_F26_L0.369430.810
12_V93_A0.36880.808
112_E166_R0.367280.805
153_N175_A0.365340.801
229_P237_F0.364750.799
36_I212_L0.358490.786
25_A28_S0.356110.781
168_P189_A0.355640.779
140_R144_P0.353930.776
93_A97_E0.353560.775
154_S157_G0.353210.774
123_S211_I0.352250.772
128_F131_A0.35010.767
178_S182_A0.349130.765
190_I193_G0.348520.764
185_A189_A0.34820.763
131_A135_D0.347490.762
170_Y174_T0.346850.760
6_I248_L0.344330.755
143_S148_P0.342920.752
183_L246_L0.342450.751
35_P42_P0.340980.747
109_L115_V0.340360.746
199_L245_A0.339250.744
104_L249_E0.334360.733
73_F163_F0.331890.727
117_V165_L0.331220.726
213_A216_S0.331210.726
119_V159_I0.330.723
57_D219_G0.329070.721
119_V203_V0.328870.721
50_S219_G0.328330.720
34_R55_E0.328280.720
197_V249_E0.328240.719
176_C215_F0.32750.718
181_A185_A0.327460.718
106_P109_L0.325650.714
19_L22_F0.323510.709
144_P148_P0.322790.707
251_L254_A0.321770.705
12_V94_A0.321160.704
88_S155_A0.321040.704
249_E253_H0.320720.703
50_S216_S0.319730.701
5_V8_G0.318630.698
200_V245_A0.318560.698
249_E254_A0.316970.695
7_T104_L0.316560.694
4_V250_R0.316250.693
98_A102_A0.314880.690
73_F100_E0.314310.689
157_G164_G0.314120.688
51_R219_G0.313990.688
143_S147_V0.311410.683
87_Q155_A0.310550.681
97_E100_E0.309710.679
56_I216_S0.309360.678
122_S151_L0.309070.677
4_V190_I0.305840.670
204_D239_L0.305310.669
119_V156_A0.30530.669
186_A248_L0.305150.669
143_S149_N0.304650.668
18_G22_F0.304640.668
221_L237_F0.304020.666
13_T22_F0.303480.665
189_A198_A0.302810.664
152_P171_T0.301760.661
17_D25_A0.301270.660
224_D238_V0.299460.656
120_G200_V0.296110.649
54_G240_G0.295480.648
141_D144_P0.294870.646
104_L197_V0.29360.644
14_P240_G0.293320.643
91_A95_A0.293240.643
13_T16_G0.293230.643
15_G34_R0.293220.643
111_G164_G0.292340.641
122_S152_P0.291790.640
126_Y211_I0.291270.638
3_R191_R0.291250.638
116_G189_A0.29030.636
122_S204_D0.290280.636
112_E196_D0.28990.635
14_P32_G0.289840.635
131_A134_E0.289010.633
205_A241_E0.288310.632
5_V253_H0.288020.631
7_T197_V0.287790.631
49_P216_S0.287240.630
132_L135_D0.287170.629
153_N157_G0.286490.628
69_F74_F0.284670.624
119_V200_V0.283890.622
187_Y200_V0.283270.621
227_C238_V0.282840.620
104_L108_D0.28090.616
135_D141_D0.279650.613
41_D45_Y0.279530.613
131_A141_D0.278870.611
187_Y248_L0.278870.611
177_A180_L0.275020.603
12_V90_L0.274630.602
49_P219_G0.273990.601
207_L241_E0.273940.600
100_E105_D0.273430.599
36_I53_A0.273320.599
7_T247_V0.272530.597
200_V246_L0.271860.596
5_V250_R0.271140.594
85_D125_D0.269990.592
144_P147_V0.269710.591
8_G247_V0.267840.587
10_G243_A0.267250.586
172_V182_A0.265420.582
155_A203_V0.263790.578
42_P55_E0.262880.576
125_D207_L0.261110.572
224_D233_F0.260810.572
159_I162_L0.260040.570
111_G166_R0.25980.569
87_Q126_Y0.259770.569
109_L197_V0.259580.569
40_W212_L0.259290.568
81_A89_R0.257680.565
237_F240_G0.257540.564
115_V199_L0.257410.564
118_F182_A0.256060.561
154_S215_F0.255770.561
123_S152_P0.255170.559
87_Q203_V0.255060.559
92_L163_F0.254310.557
156_A169_S0.254170.557
193_G250_R0.25410.557
53_A207_L0.254070.557
27_L30_R0.253590.556
56_I90_L0.253180.555
147_V151_L0.253120.555
212_L216_S0.252060.552
84_M89_R0.249320.546
36_I45_Y0.247990.544
95_A201_G0.24680.541
107_D111_G0.243730.534
45_Y56_I0.243720.534
226_P238_V0.242720.532
152_P173_S0.242280.531
214_G237_F0.241640.530
4_V200_V0.241570.529
146_F214_G0.241480.529
84_M88_S0.241210.529
169_S181_A0.240060.526
105_D111_G0.240040.526
11_C242_G0.23880.523
84_M158_R0.238370.522
6_I9_M0.237990.522
159_I163_F0.23780.521
218_L237_F0.237790.521
69_F81_A0.237760.521
69_F89_R0.236190.518
49_P55_E0.236130.518
175_A215_F0.235090.515
147_V214_G0.234060.513
45_Y213_A0.232970.511
7_T102_A0.232890.510
16_G21_E0.23280.510
146_F149_N0.231840.508
179_G200_V0.231770.508
106_P110_D0.231630.508
4_V191_R0.231490.507
90_L94_A0.23070.506
72_Y97_E0.230690.506
204_D237_F0.230280.505
90_L205_A0.229850.504
104_L247_V0.229760.504
37_P42_P0.229630.503
20_E97_E0.229540.503
50_S55_E0.227650.499
153_N173_S0.227650.499
211_I239_L0.227410.498
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
2vz8A0.9371000.054
3hhdA0.94091000.128
2qo3A0.97241000.143
2hg4A0.92911000.167
3kzuA0.95671000.176
2vbaA0.92911000.179
4ewgA0.92521000.185
1tqyA0.9371000.186
4jrmD0.92911000.188
3ho9A0.92911000.188

Page generated in 0.0252 seconds.