GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Abhydrolase_1 - alphabeta hydrolase fold
Pfam: PF00561 (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: CL0028
Length: 230
Sequences: 38972
Seq/Len: 169.44
HH_delta: 0.038 (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
47_N71_K3.890965.233
9_R33_D2.695993.626
184_E210_E2.441383.284
220_G223_E2.305083.100
48_L58_A2.08892.809
76_S186_D2.068832.782
47_N70_K2.062942.775
75_I224_F1.9852.670
45_K70_K1.9222.585
35_E61_Y1.895282.549
62_A72_L1.778822.392
61_Y65_Y1.733562.332
184_E208_L1.702332.290
198_A204_S1.671482.248
35_E68_R1.596172.147
35_E39_E1.58642.134
35_E65_Y1.579952.125
60_E64_Q1.573412.116
55_G77_P1.56132.100
178_T201_I1.535992.066
39_E68_R1.507362.027
47_N73_V1.478061.988
212_S220_G1.433561.928
38_R46_I1.423271.914
60_E63_A1.420531.911
179_L207_V1.401261.885
32_A64_Q1.398841.881
191_P208_L1.395411.877
58_A72_L1.315511.769
8_L57_L1.314521.768
49_V75_I1.300021.748
74_L77_P1.296761.744
170_A173_N1.259071.693
59_L74_L1.2571.691
182_W194_S1.210091.627
28_D64_Q1.196491.609
191_P195_E1.173831.579
179_L205_Q1.161291.562
7_D12_G1.157561.557
182_W208_L1.152931.551
65_Y68_R1.137811.530
201_I204_S1.132151.523
73_V179_L1.128321.518
1_F47_N1.126671.515
34_L61_Y1.124061.512
37_L41_L1.123621.511
182_W206_L1.121471.508
209_I212_S1.120391.507
196_Q200_L1.111081.494
6_F34_L1.103961.485
72_L178_T1.06621.434
50_G58_A1.062061.428
71_K177_P1.050231.412
181_I209_I1.045921.407
52_S214_H1.035121.392
4_I37_L1.0341.391
51_H217_F1.032591.389
195_E208_L1.029221.384
49_V73_V1.015271.365
71_K179_L1.010451.359
26_T29_D0.98661.327
31_A60_E0.963991.297
8_L11_F0.957571.288
36_A40_A0.955881.286
61_Y68_R0.95311.282
46_I69_V0.943951.270
8_L53_M0.940861.265
195_E206_L0.907921.221
4_I41_L0.897481.207
182_W191_P0.895371.204
172_S200_L0.892291.200
61_Y69_V0.88441.189
31_A64_Q0.883671.188
213_G219_E0.883461.188
43_I46_I0.875161.177
51_H215_F0.869031.169
48_L69_V0.868181.168
36_A39_E0.858851.155
196_Q199_K0.845441.137
212_S219_E0.83971.129
198_A206_L0.833521.121
180_I204_S0.828221.114
75_I217_F0.82411.108
63_A170_A0.804111.081
39_E65_Y0.802321.079
195_E199_K0.800761.077
52_S215_F0.794141.068
38_R43_I0.789551.062
29_D32_A0.787171.059
31_A57_L0.786831.058
6_F37_L0.777461.046
51_H76_S0.770621.036
185_D211_G0.766891.031
195_E198_A0.764361.028
192_E195_E0.759791.022
2_D43_I0.755671.016
212_S216_A0.752051.011
31_A35_E0.74981.008
29_D33_D0.743621.000
149_D152_D0.739460.995
51_H75_I0.738430.993
32_A35_E0.738080.993
32_A36_A0.736340.990
7_D14_S0.735730.990
209_I220_G0.73410.987
174_I201_I0.727950.979
184_E191_P0.723210.973
132_D135_K0.720870.970
63_A173_N0.720510.969
184_E211_G0.715170.962
42_G45_K0.713410.959
183_G216_A0.710290.955
46_I68_R0.707960.952
48_L61_Y0.707680.952
209_I223_E0.699750.941
30_L53_M0.699410.941
38_R68_R0.695710.936
74_L180_I0.689840.928
60_E170_A0.684410.920
73_V181_I0.6810.916
221_P225_N0.677270.911
186_D214_H0.675780.909
16_P20_P0.670460.902
38_R61_Y0.665580.895
28_D60_E0.651690.876
75_I216_A0.650630.875
4_I43_I0.643590.866
62_A176_V0.643060.865
24_D29_D0.640860.862
97_G101_D0.640430.861
50_G54_G0.640240.861
193_S196_Q0.640240.861
46_I70_K0.636210.856
7_D13_Y0.634130.853
70_K73_V0.632840.851
181_I224_F0.630830.848
30_L33_D0.628270.845
50_G55_G0.627630.844
75_I181_I0.622790.838
152_D156_W0.621210.835
33_D36_A0.608810.819
151_F154_M0.607910.818
62_A174_I0.60660.816
207_V223_E0.60640.816
11_F53_M0.60130.809
76_S183_G0.597540.804
194_S206_L0.59430.799
53_M57_L0.594260.799
58_A62_A0.594120.799
35_E64_Q0.59370.798
56_M59_L0.592490.797
180_I194_S0.591360.795
131_E134_L0.586890.789
31_A61_Y0.58150.782
72_L176_V0.579180.779
139_S143_A0.57450.773
62_A69_V0.573950.772
182_W189_V0.573180.771
181_I207_V0.57010.767
9_R29_D0.56190.756
55_G74_L0.561830.756
135_K138_Q0.561040.755
54_G58_A0.557240.749
37_L40_A0.554130.745
216_A219_E0.553590.745
133_F138_Q0.552460.743
217_F224_F0.552260.743
180_I198_A0.549730.739
9_R30_L0.548110.737
64_Q170_A0.547340.736
183_G211_G0.544130.732
160_G164_V0.54180.729
52_S76_S0.541490.728
59_L201_I0.541140.728
133_F136_Q0.54080.727
56_M78_P0.539990.726
47_N51_H0.539160.725
216_A224_F0.537440.723
33_D37_L0.537040.722
149_D153_N0.535260.720
175_K202_P0.533940.718
211_G220_G0.533530.718
141_Q144_R0.533270.717
161_Y164_V0.532630.716
74_L178_T0.532360.716
168_S200_L0.531280.715
150_A154_M0.531110.714
139_S142_Y0.530650.714
76_S182_W0.530340.713
35_E38_R0.528470.711
180_I201_I0.527340.709
59_L77_P0.526060.708
71_K74_L0.525880.707
169_P172_S0.525520.707
136_Q140_Q0.523390.704
76_S216_A0.522490.703
28_D32_A0.521970.702
179_L182_W0.520260.700
128_E131_E0.519560.699
123_F126_D0.518620.698
210_E223_E0.517780.696
100_L104_F0.517410.696
66_P69_V0.510790.687
6_F33_D0.508640.684
44_K68_R0.503250.677
46_I61_Y0.502730.676
52_S77_P0.502460.676
144_R147_E0.502440.676
58_A74_L0.501920.675
180_I206_L0.50110.674
186_D189_V0.500580.673
181_I216_A0.498620.671
183_G186_D0.497840.670
51_H216_A0.496640.668
75_I215_F0.490980.660
209_I216_A0.490880.660
50_G74_L0.490170.659
185_D212_S0.488480.657
159_L162_F0.48540.653
63_A174_I0.484360.651
27_T60_E0.4840.651
110_P113_P0.481330.647
197_L201_I0.480490.646
33_D41_L0.479370.645
51_H214_H0.477510.642
152_D155_F0.47740.642
14_S37_L0.47550.640
55_G189_V0.475070.639
134_L137_F0.47420.638
109_D113_P0.473660.637
69_V176_V0.473540.637
153_N156_W0.473020.636
140_Q144_R0.472720.636
174_I178_T0.471340.634
177_P203_N0.471120.634
87_N91_P0.470550.633
169_P173_N0.468780.630
185_D210_E0.467510.629
166_D169_P0.464680.625
8_L34_L0.464170.624
102_N105_N0.464150.624
194_S198_A0.463640.624
32_A65_Y0.462760.622
113_P117_R0.461160.620
217_F225_N0.458670.617
190_P193_S0.457650.616
116_G119_P0.456870.614
180_I197_L0.454040.611
189_V194_S0.453670.610
20_P23_P0.44880.604
53_M56_M0.448430.603
34_L38_R0.446770.601
198_A201_I0.44660.601
30_L57_L0.44630.600
30_L34_L0.44610.600
115_L119_P0.445620.599
6_F9_R0.444970.598
191_P194_S0.444040.597
213_G216_A0.443550.597
27_T33_D0.443150.596
130_V138_Q0.442550.595
101_D105_N0.442290.595
126_D129_F0.44050.592
26_T31_A0.43860.590
194_S197_L0.437660.589
175_K203_N0.436970.588
77_P186_D0.43660.587
78_P189_V0.435460.586
50_G62_A0.434030.584
69_V72_L0.433010.582
161_Y165_W0.432860.582
65_Y69_V0.431640.581
8_L30_L0.43130.580
87_N90_W0.430940.580
25_Y29_D0.430440.579
21_D25_Y0.430240.579
58_A69_V0.429210.577
147_E151_F0.429150.577
204_S207_V0.426140.573
131_E135_K0.426090.573
140_Q143_A0.425390.572
130_V133_F0.424390.571
216_A220_G0.424310.571
208_L211_G0.424110.570
66_P175_K0.423580.570
105_N109_D0.423510.570
23_P33_D0.422910.569
37_L43_I0.419760.565
192_E196_Q0.419420.564
26_T33_D0.417710.562
73_V76_S0.416250.560
94_N98_Q0.416220.560
45_K68_R0.416160.560
125_Y128_E0.415760.559
21_D24_D0.412820.555
148_T153_N0.412340.555
148_T152_D0.407660.548
220_G224_F0.407510.548
3_V6_F0.406350.547
40_A43_I0.403540.543
136_Q139_S0.403030.542
151_F155_F0.402710.542
10_G14_S0.402330.541
101_D104_F0.402280.541
113_P116_G0.400280.538
166_D171_L0.399060.537
159_L163_S0.392470.528
76_S188_L0.392280.528
150_A153_N0.392120.527
174_I177_P0.391480.527
39_E42_G0.391460.526
27_T53_M0.389410.524
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
3om8A0.908799.90.038
3v48A0.921799.90.041
3w06A0.947899.90.051
3afiE0.965299.90.055
2pujA0.943599.90.056
3nwoA0.978399.90.057
3fobA0.956599.90.063
3w04A0.943599.90.065
1iupA0.921799.90.069
2wueA0.939199.90.073

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