GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Abhydrolase_6 - Alphabeta hydrolase family
Pfam: PF12697 (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: 228
Sequences: 55040
Seq/Len: 241.4
HH_delta: 0.01 (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
69_I93_G4.090545.011
33_P55_D2.434162.982
185_E211_P2.307652.827
84_A94_L2.161222.648
70_L80_A2.075912.543
98_S187_D2.005732.457
69_I92_K1.93992.376
57_A83_L1.894372.321
67_K92_K1.880342.303
185_E209_V1.831472.244
199_A205_A1.767432.165
192_P209_V1.653042.025
77_G99_P1.557211.908
57_A61_D1.555931.906
83_L87_Y1.554451.904
180_L208_V1.546651.895
96_L99_P1.520261.862
69_I95_V1.510891.851
80_A94_L1.484651.819
57_A87_Y1.480531.814
82_R86_R1.458371.787
71_V97_L1.429291.751
60_L68_V1.424991.746
81_L96_L1.412721.731
192_P196_E1.359871.666
197_E201_K1.348281.652
54_E86_R1.339581.641
179_V202_L1.338591.640
59_L63_L1.336731.638
4_L32_L1.327281.626
57_A90_R1.311431.607
82_R85_A1.308471.603
3_F71_V1.30731.601
94_L179_V1.306221.600
183_H209_V1.304441.598
61_D90_R1.288321.578
183_H207_L1.278921.567
93_G180_L1.271891.558
180_L206_E1.24861.530
4_L80_A1.230651.508
6_G74_S1.207471.479
11_S31_D1.206461.478
171_A174_R1.195221.464
3_F14_W1.191921.460
11_S37_R1.187451.455
5_H32_L1.185611.452
95_V180_L1.183541.450
25_Y69_I1.180771.446
5_H35_H1.172231.436
210_I213_A1.171611.435
196_E200_D1.15141.410
32_L79_I1.146421.404
50_E86_R1.146071.404
1_V25_Y1.142221.399
18_A29_A1.141671.399
93_G178_P1.141371.398
20_A23_R1.137591.394
56_L83_L1.124261.377
9_G13_S1.104291.353
3_F27_V1.097571.345
48_S51_D1.083311.327
59_L62_A1.078071.321
4_L30_F1.07791.320
72_G80_A1.074541.316
87_Y90_R1.074411.316
74_S215_H1.069221.310
73_H98_S1.067811.308
58_E62_A1.058041.296
202_L205_A1.056891.295
1_V71_V1.050371.287
71_V95_V1.042251.277
197_E200_D1.029111.261
53_A82_R1.025951.257
183_H195_A1.01151.239
8_G74_S1.009131.236
4_L70_L1.007971.235
195_A199_A1.003591.229
182_I210_I0.984541.206
196_E209_V0.9821.203
96_L181_V0.96971.188
7_F75_M0.966271.184
185_E212_G0.955151.170
68_V91_V0.950451.164
58_E61_D0.948311.162
28_I59_L0.947671.161
173_P201_K0.939161.150
196_E199_A0.939161.150
61_D87_Y0.936661.147
186_D212_G0.921051.128
31_D36_G0.917021.123
4_L56_L0.911221.116
60_L83_L0.883211.082
183_H192_P0.880261.078
193_E196_E0.879621.078
11_S29_A0.876421.074
72_G76_G0.87061.067
30_F56_L0.869241.065
199_A207_L0.863041.057
213_A217_L0.858831.052
55_D62_A0.850471.042
54_E58_E0.8481.039
70_L91_V0.840231.029
57_A86_R0.839091.028
85_A174_R0.836981.025
18_A27_V0.836711.025
98_S184_G0.836651.025
55_D59_L0.827911.014
32_L75_M0.822971.008
2_V68_V0.817541.002
55_D58_E0.807840.990
83_L91_V0.805660.987
140_D143_E0.804240.985
182_I208_V0.804120.985
153_R157_E0.803180.984
196_E207_L0.799640.980
73_H97_L0.798930.979
181_V205_A0.796970.976
26_R65_I0.794840.974
13_S218_F0.790770.969
53_A57_A0.78770.965
1_V27_V0.78750.965
156_A160_R0.784030.960
85_A171_A0.780820.957
19_E22_A0.775890.950
73_H216_F0.766780.939
83_L90_R0.766370.939
60_L65_I0.765860.938
51_D54_E0.764910.937
3_F29_A0.763850.936
72_G77_G0.763460.935
16_P19_E0.761720.933
185_E192_P0.761670.933
199_A202_L0.747590.916
73_H218_F0.745540.913
53_A79_I0.744810.912
97_L218_F0.741450.908
54_E57_A0.73380.899
65_I68_V0.732810.898
17_L20_A0.728730.893
82_R171_A0.728020.892
95_V182_I0.727370.891
157_E160_R0.726230.890
5_H30_F0.723380.886
14_W73_H0.721230.884
51_D55_D0.717880.879
94_L177_V0.707310.866
184_G217_L0.705690.864
8_G75_M0.705460.864
181_V195_A0.703150.861
175_I202_L0.700730.858
53_A86_R0.700390.858
32_L35_H0.69420.850
183_H190_V0.693850.850
195_A207_L0.683540.837
15_D19_E0.676590.829
194_S202_L0.672630.824
14_W17_L0.671650.823
2_V28_I0.671180.822
6_G73_H0.67070.822
50_E82_R0.665380.815
28_I63_L0.664710.814
84_A177_V0.664230.814
146_D150_S0.659820.808
187_D190_V0.658480.807
78_M100_P0.657940.806
92_K95_V0.657840.806
68_V92_K0.652560.799
78_M81_L0.650920.797
62_A65_I0.648530.794
145_E149_R0.648270.794
31_D38_S0.644940.790
1_V69_I0.644480.790
30_F59_L0.644310.789
52_Y56_L0.642910.788
192_P195_A0.641210.786
15_D29_A0.640610.785
155_L158_Y0.639680.784
33_P52_Y0.637660.781
75_M79_I0.637640.781
55_D63_L0.63650.780
88_P91_V0.634540.777
2_V70_L0.630210.772
39_D42_P0.628460.770
1_V21_L0.628040.769
170_E173_P0.626910.768
8_G35_H0.623950.764
98_S183_H0.623370.764
210_I217_L0.622890.763
97_L217_L0.618470.758
72_G84_A0.611530.749
17_L21_L0.610530.748
53_A83_L0.603050.739
154_A157_E0.599470.734
80_A84_A0.597310.732
50_E54_E0.596270.730
46_P51_D0.595570.730
181_V207_L0.594180.728
52_Y75_M0.593930.728
4_L79_I0.588920.721
11_S30_F0.588060.720
206_E209_V0.58640.718
57_A60_L0.585980.718
169_S201_K0.585790.718
45_S48_S0.584850.716
167_D170_E0.584680.716
3_F18_A0.583870.715
167_D171_A0.583260.715
194_S197_E0.582440.714
52_Y55_D0.582380.713
2_V56_L0.580860.712
32_L52_Y0.580170.711
12_E15_D0.578520.709
81_L99_P0.577970.708
88_P176_K0.571350.700
145_E148_I0.568820.697
96_L179_V0.566690.694
147_L150_S0.566450.694
84_A175_I0.566280.694
153_R156_A0.566150.694
24_G27_V0.565150.692
70_L83_L0.562220.689
84_A91_V0.556490.682
205_A208_V0.55630.681
5_H10_S0.555280.680
47_Y51_D0.55380.678
80_A96_L0.551060.675
102_P197_E0.548650.672
76_G80_A0.547190.670
60_L90_R0.546890.670
68_V90_R0.546840.670
56_L60_L0.545880.669
187_D215_H0.545350.668
155_L159_L0.54350.666
195_A202_L0.542160.664
186_D213_A0.54180.664
99_P181_V0.541470.663
77_G96_L0.537820.659
113_P117_R0.537490.658
178_P204_N0.536080.657
195_A198_L0.535380.656
140_D147_L0.53370.654
97_L182_I0.532730.653
152_R156_A0.530510.650
74_S98_S0.5280.647
133_R136_Y0.527960.647
164_W167_D0.527890.647
14_W18_A0.521430.639
141_G144_P0.520910.638
142_D146_D0.520280.637
176_K203_P0.516360.633
144_P147_L0.516150.632
180_L183_H0.514730.631
116_I120_L0.513920.630
66_K90_R0.513510.629
6_G9_G0.512270.628
115_F118_R0.506920.621
193_E197_E0.506810.621
13_S73_H0.506430.620
74_S216_F0.504520.618
4_L83_L0.502680.616
17_L218_F0.501880.615
146_D149_R0.501650.615
81_L101_P0.501430.614
91_V177_V0.501280.614
86_R171_A0.500530.613
49_I52_Y0.499010.611
52_Y79_I0.498090.610
154_A158_Y0.498020.610
134_F137_R0.497030.609
134_F139_F0.494170.605
181_V199_A0.492960.604
75_M78_M0.491910.603
72_G96_L0.491710.602
118_R121_A0.491580.602
41_P47_Y0.491280.602
9_G216_F0.490460.601
35_H38_S0.488990.599
7_F35_H0.48890.599
22_A25_Y0.48890.599
85_A175_I0.488790.599
152_R155_L0.486720.596
141_G145_E0.486520.596
52_Y59_L0.486450.596
59_L65_I0.486010.595
8_G34_G0.485470.595
87_Y91_V0.484220.593
22_A27_V0.483260.592
186_D211_P0.481150.589
113_P116_I0.480370.588
114_S118_R0.478570.586
2_V60_L0.478390.586
123_R127_L0.477370.585
70_L94_L0.476050.583
77_G98_S0.47510.582
142_D145_E0.473360.580
50_E53_A0.472160.578
31_D37_R0.469880.576
3_F21_L0.469060.575
61_D65_I0.46680.572
99_P198_L0.466770.572
122_W125_R0.46580.571
151_S154_A0.464540.569
51_D58_E0.464340.569
10_S13_S0.462760.567
192_P207_L0.462060.566
60_L64_G0.46020.564
3_F17_L0.459510.563
9_G74_S0.458540.562
60_L63_L0.456310.559
184_G187_D0.455770.558
91_V94_L0.455320.558
115_F119_L0.454940.557
54_E87_Y0.454160.556
2_V30_F0.454110.556
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
3om8A0.96051000.01
3v48A0.98251000.013
3w06A0.99561000.028
3afiE0.99121000.03
2xuaA0.96931000.035
1brtA0.98251000.039
3w04A0.99561000.04
1b6gA0.98681000.043
1womA0.99561000.043
3fobA0.98681000.047

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