GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PS-DH - Polyketide synthase dehydratase
Pfam: PF14765 (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: CL0050
Length: 295
Sequences: 3711
Seq/Len: 12.58
HH_delta: 0.117 (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
41_L45_A0.956615.349
236_R282_E0.787094.401
235_E283_G0.740514.141
106_S117_H0.668353.737
71_H116_L0.631153.529
102_F120_G0.629283.519
175_G210_A0.5963.333
270_V279_A0.45952.569
52_E56_Q0.450962.522
177_E189_R0.442172.473
32_D172_R0.421192.355
77_D80_E0.414252.316
32_D170_G0.408842.286
64_E236_R0.40382.258
232_V287_R0.387522.167
65_L68_L0.384572.150
178_S187_E0.379912.124
19_E83_E0.375142.098
33_H209_D0.363242.031
54_A122_V0.339981.901
44_A212_L0.333711.866
238_R280_E0.327661.832
37_G168_F0.321521.798
187_E251_Y0.320341.791
240_F280_E0.319641.787
50_A102_F0.319011.784
271_F277_V0.318771.783
64_E238_R0.317691.776
163_A168_F0.314281.757
103_E116_L0.312751.749
71_H119_S0.306191.712
272_D276_R0.304461.702
66_R123_S0.30411.700
89_D101_R0.303921.699
211_A270_V0.299561.675
167_L228_V0.29261.636
51_L55_R0.289531.619
47_L68_L0.288481.613
159_Y213_Q0.288311.612
159_Y174_R0.287071.605
186_A214_A0.285691.598
74_L117_H0.285631.597
86_V104_I0.2841.588
41_L46_Y0.280371.568
152_P178_S0.278351.556
46_Y74_L0.277541.552
116_L119_S0.27541.540
52_E55_R0.27341.529
187_E249_R0.272531.524
44_A208_L0.270541.513
50_A120_G0.265961.487
281_L284_L0.264561.479
31_R34_R0.262921.470
183_E253_Y0.260211.455
43_G70_F0.259341.450
67_D121_Q0.257771.441
46_Y104_I0.254221.422
83_E107_R0.252241.410
34_R168_F0.251271.405
263_T285_T0.251081.404
48_E201_F0.248471.389
32_D171_P0.247471.384
23_S26_E0.245131.371
169_Y175_G0.240011.342
237_I281_L0.239621.340
209_D213_Q0.236491.322
16_V57_L0.236081.320
66_R236_R0.234521.311
246_P250_L0.233031.303
19_E85_R0.231421.294
269_T280_E0.230821.291
35_V230_L0.23071.290
162_L169_Y0.230551.289
267_D282_E0.230021.286
70_F234_I0.227211.271
74_L84_L0.227031.270
35_V167_L0.225051.258
66_R121_Q0.22141.238
201_F205_P0.217731.218
158_F162_L0.216991.213
46_Y118_A0.215941.207
74_L82_R0.21531.204
15_S89_D0.21441.199
40_I73_P0.213091.192
86_V102_F0.212541.188
159_Y173_F0.212131.186
33_H43_G0.210351.176
173_F213_Q0.209271.170
188_V252_V0.208641.167
101_R121_Q0.206781.156
176_I213_Q0.202731.134
169_Y213_Q0.202161.130
253_Y269_T0.20181.128
163_A174_R0.201481.127
201_F204_H0.200491.121
48_E52_E0.199391.115
157_E160_E0.199321.115
47_L65_L0.19691.101
215_A266_G0.196351.098
47_L237_I0.196081.096
158_F176_I0.193621.083
255_R269_T0.191631.072
267_D283_G0.191591.071
189_R249_R0.191391.070
77_D81_P0.190651.066
15_S87_E0.19021.064
249_R273_E0.188621.055
255_R267_D0.188121.052
169_Y173_F0.187611.049
230_L289_V0.186711.044
47_L234_I0.186651.044
107_R114_W0.185341.036
239_I279_A0.183661.027
177_E187_E0.182431.020
194_P197_D0.181951.017
74_L106_S0.181281.014
24_P31_R0.180061.007
67_D235_E0.180051.007
269_T277_V0.179821.006
257_V267_D0.179111.002
34_R38_Q0.179081.001
183_E255_R0.178841.000
49_M86_V0.178190.996
24_P28_P0.177630.993
179_I217_L0.177210.991
44_A231_P0.177070.990
21_R81_P0.173470.970
44_A209_D0.172520.965
212_L284_L0.172420.964
43_G209_D0.172420.964
227_R288_R0.170920.956
24_P39_P0.170630.954
105_F116_L0.170320.952
85_R114_W0.170110.951
64_E123_S0.169160.946
102_F118_A0.167970.939
43_G232_V0.167850.939
140_L144_C0.165550.926
21_R83_E0.165330.924
252_V268_V0.164340.919
162_L213_Q0.163890.916
170_G174_R0.163270.913
233_S285_T0.163140.912
44_A47_L0.162930.911
195_A200_P0.162080.906
234_I237_I0.16190.905
153_L179_I0.1610.900
40_I46_Y0.159630.893
202_V239_I0.159470.892
267_D270_V0.158560.887
22_L41_L0.158450.886
159_Y169_Y0.158350.885
140_L145_P0.158310.885
29_F45_A0.158110.884
188_V250_L0.157690.882
232_V285_T0.157540.881
41_L74_L0.157430.880
203_L279_A0.157290.880
160_E164_E0.157110.879
250_L270_V0.156670.876
76_L82_R0.155030.867
33_H40_I0.154790.866
214_A254_A0.154540.864
154_D157_E0.15390.861
155_I177_E0.153350.858
136_D139_S0.153180.857
40_I167_L0.152760.854
77_D82_R0.152410.852
43_G47_L0.151750.849
32_D43_G0.151160.845
238_R282_E0.150710.843
44_A206_A0.150650.842
17_V87_E0.150460.841
64_E125_D0.150210.840
38_Q75_V0.14990.838
184_A214_A0.148960.833
229_F288_R0.148540.831
17_V85_R0.147740.826
42_P45_A0.147650.826
185_L251_Y0.147640.826
24_P27_H0.147460.825
30_L76_L0.146380.819
210_A213_Q0.146230.818
171_P174_R0.146150.817
22_L84_L0.146080.817
53_A120_G0.145250.812
247_G250_L0.14460.809
18_F57_L0.144180.806
87_E105_F0.14260.797
86_V120_G0.14240.796
229_F286_F0.142130.795
241_R276_R0.142010.794
158_F213_Q0.141960.794
50_A122_V0.141750.793
65_L237_I0.141230.790
169_Y209_D0.14110.789
235_E285_T0.141080.789
169_Y174_R0.140890.788
33_H173_F0.140720.787
73_P232_V0.140050.783
233_S283_G0.139080.778
36_Q289_V0.138780.776
209_D231_P0.138240.773
23_S81_P0.138230.773
51_L239_I0.137750.770
193_D198_P0.137470.769
54_A64_E0.137390.768
42_P46_Y0.137260.768
159_Y209_D0.136610.764
187_E273_E0.136350.762
42_P173_F0.135710.759
240_F279_A0.134820.754
70_F230_L0.134310.751
50_A65_L0.133780.748
69_R233_S0.133330.746
156_E160_E0.13320.745
266_G286_F0.133140.744
265_T283_G0.132880.743
43_G231_P0.132870.743
137_L271_F0.132660.742
234_I281_L0.132640.742
34_R39_P0.132540.741
70_F232_V0.131940.738
18_F53_A0.131530.735
18_F52_E0.13150.735
212_L281_L0.131240.734
40_I230_L0.131050.733
266_G284_L0.130940.732
91_E94_G0.130750.731
163_A169_Y0.130640.731
256_L261_D0.13040.729
50_A104_I0.130380.729
54_A63_V0.129530.724
72_R115_T0.129320.723
127_D273_E0.128830.720
139_S156_E0.128640.719
41_L49_M0.128060.716
184_A254_A0.127580.713
39_P44_A0.127420.713
233_S287_R0.12740.712
91_E101_R0.127220.711
140_L185_L0.126720.709
63_V122_V0.126180.706
144_C185_L0.12590.704
175_G206_A0.125850.704
101_R119_S0.12570.703
277_V280_E0.125620.702
176_I188_V0.125550.702
175_G191_P0.125370.701
197_D200_P0.124990.699
186_A252_V0.124760.698
44_A173_F0.124590.697
87_E103_E0.123990.693
29_F173_F0.123870.693
35_V40_I0.123410.690
34_R40_I0.122710.686
156_E174_R0.122640.686
235_E265_T0.122330.684
65_L122_V0.121870.681
36_Q165_R0.121730.681
282_E285_T0.121720.681
69_R232_V0.121590.680
268_V281_L0.121470.679
68_L102_F0.121410.679
38_Q77_D0.120660.675
62_V238_R0.120650.675
63_V124_L0.120080.671
41_L201_F0.119660.669
24_P76_L0.119510.668
43_G212_L0.119180.666
47_L118_A0.119140.666
252_V256_L0.119110.666
208_L281_L0.119020.666
155_I158_F0.11880.664
14_G90_P0.118540.663
246_P251_Y0.11840.662
189_R192_D0.118290.661
169_Y212_L0.118110.660
250_L278_V0.117750.658
180_R185_L0.116930.654
167_L213_Q0.115280.645
231_P284_L0.115060.643
84_L117_H0.114660.641
33_H231_P0.114640.641
247_G262_D0.114160.638
175_G213_Q0.113780.636
177_E239_I0.112670.630
137_L144_C0.112510.629
165_R228_V0.112310.628
87_E91_E0.112260.628
263_T287_R0.112220.628
206_A210_A0.111670.624
257_V265_T0.111370.623
42_P231_P0.111350.623
114_W117_H0.111310.622
162_L165_R0.111220.622
65_L121_Q0.11120.622
63_V125_D0.110980.621
163_A194_P0.110780.619
46_Y117_H0.110740.619
73_P169_Y0.109410.612
110_D138_E0.109280.611
18_F56_Q0.109160.610
158_F161_R0.109070.610
203_L208_L0.109030.610
34_R167_L0.109020.610
126_K164_E0.108720.608
224_D286_F0.108450.606
40_I75_V0.108420.606
272_D275_G0.108280.605
25_D31_R0.108140.605
44_A281_L0.107830.603
152_P155_I0.107360.600
212_L234_I0.107360.600
234_I284_L0.107160.599
14_G18_F0.107110.599
269_T282_E0.107060.599
162_L167_L0.106630.596
33_H170_G0.106460.595
214_A217_L0.106310.594
184_A266_G0.10610.593
85_R105_F0.105920.592
110_D223_D0.105650.591
241_R278_V0.105630.591
29_F204_H0.105430.590
28_P31_R0.105250.589
228_V289_V0.105170.588
166_G173_F0.105170.588
251_Y255_R0.104530.585
164_E168_F0.104520.584
68_L118_A0.104410.584
223_D226_G0.104340.583
129_P152_P0.104280.583
72_R117_H0.104060.582
18_F29_F0.103840.581
211_A252_V0.103640.580
173_F284_L0.103590.579
30_L173_F0.10330.578
203_L270_V0.103190.577
237_I279_A0.103190.577
169_Y284_L0.103110.577
256_L264_I0.10310.577
43_G210_A0.102890.575
237_I241_R0.102790.575
57_L62_V0.102410.573
67_D236_R0.101910.570
93_D139_S0.101450.567
172_R206_A0.101440.567
88_L102_F0.101420.567
262_D287_R0.101340.567
140_L187_E0.101270.566
252_V270_V0.101070.565
252_V255_R0.101010.565
260_D264_I0.100890.564
48_E205_P0.10070.563
35_V209_D0.100290.561
30_L42_P0.10020.560
175_G188_V0.099910.559
45_A48_E0.09970.558
13_P16_V0.099440.556
18_F88_L0.099380.556
44_A175_G0.099290.555
49_M84_L0.099020.554
185_L253_Y0.098960.553
42_P209_D0.098710.552
33_H159_Y0.098690.552
213_Q287_R0.098660.552
36_Q290_P0.098250.549
170_G173_F0.098130.549
179_I184_A0.09760.546
176_I179_I0.097590.546
89_D103_E0.097510.545
55_R202_V0.097490.545
125_D238_R0.097470.545
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
3kg9A0.94581000.117
3kg6A0.92881000.12
3kg8A0.94241000.122
3kg7A0.9221000.148
3el6A0.90171000.172
3hrqA0.97631000.215
2vz8A0.854299.90.439
3hhdA0.369599.50.662
2cf2C0.918698.10.818
3esiA0.416997.70.836

Page generated in 0.034 seconds.