GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1057 - Alphabeta hydrolase of unknown function (DUF1057)
Pfam: PF06342 (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: 297
Sequences: 14123
Seq/Len: 47.55
HH_delta: 0.238 (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
107_I129_G2.027735.144
71_P92_F1.631164.138
27_D64_R1.255513.185
221_G274_A1.232713.127
108_F118_A1.039482.637
54_I289_A1.0052.550
122_A130_L0.990232.512
94_N121_L0.94152.389
94_N125_H0.931912.364
271_V291_A0.885082.245
94_N98_D0.870122.207
87_E124_T0.849922.156
115_C135_P0.845252.144
132_L135_P0.837422.125
107_I128_H0.819182.078
134_N223_D0.790572.006
105_K128_H0.788372.000
235_A268_G0.775871.968
97_L106_L0.764071.938
284_R287_L0.76011.928
290_E294_K0.72491.839
130_L215_V0.717971.821
107_I131_V0.716671.818
37_T64_R0.714271.812
91_N124_T0.709091.799
133_I288_I0.707961.796
93_V121_L0.698211.771
118_A130_L0.683511.734
131_V292_I0.66861.696
121_L125_H0.650931.651
37_T66_I0.642961.631
221_G272_F0.639971.624
42_H73_F0.63971.623
232_F236_M0.617151.566
41_F118_A0.61381.557
228_E232_F0.611161.551
207_K210_K0.610411.549
120_Q123_V0.607731.542
215_V238_F0.607151.540
273_F291_A0.606861.540
291_A294_K0.60571.537
43_G112_S0.604331.533
41_F68_I0.601441.526
219_Y231_S0.600881.524
48_H69_N0.598511.518
41_F70_Y0.591421.500
232_F272_F0.585481.485
273_F276_D0.584861.484
38_V109_L0.583471.480
42_H70_Y0.581581.475
96_L100_L0.580711.473
288_I292_I0.572321.452
38_V63_I0.559061.418
129_G214_K0.558781.418
228_E272_F0.553251.404
34_P37_T0.544121.380
131_V216_L0.543531.379
184_E188_N0.542391.376
25_Y96_L0.54191.375
61_A293_K0.54181.375
90_Q117_N0.537731.364
68_I96_L0.534461.356
55_R65_F0.532851.352
120_Q124_T0.529721.344
269_A291_A0.525151.332
40_A65_F0.523611.328
95_A98_D0.523231.327
90_Q120_Q0.52111.322
63_I107_I0.517061.312
69_N74_G0.516761.311
39_V93_V0.515071.307
40_A109_L0.514581.305
39_V97_L0.510251.294
68_I93_V0.509761.293
55_R67_G0.506731.286
233_E237_K0.506511.285
276_D284_R0.506271.284
119_L132_L0.505431.282
42_H68_I0.502981.276
110_G118_A0.501041.271
287_L290_E0.4971.261
66_I96_L0.496891.261
112_S278_H0.49221.249
41_F93_V0.48811.238
109_L133_I0.486731.235
57_P289_A0.484521.229
232_F270_S0.479141.216
219_Y228_E0.478671.214
97_L102_I0.475781.207
216_L271_V0.474951.205
221_G228_E0.471731.197
94_N124_T0.46261.174
110_G114_G0.458661.164
95_A99_E0.458051.162
44_S113_R0.457821.161
70_Y117_N0.457561.161
109_L131_V0.456421.158
118_A122_A0.45611.157
222_K275_K0.454441.153
221_G275_K0.449921.141
57_P60_E0.449621.141
85_T88_E0.447051.134
38_V65_F0.446731.133
62_G293_K0.442971.124
134_N220_G0.439611.115
218_A291_A0.438911.114
45_P112_S0.438631.113
287_L291_A0.438481.112
108_F121_L0.438181.112
55_R59_D0.434631.103
121_L127_L0.432331.097
286_D290_E0.431861.096
91_N95_A0.431551.095
48_H75_F0.431251.094
69_N76_T0.430951.093
109_L292_I0.428011.086
70_Y113_R0.426851.083
235_A270_S0.425521.080
108_F127_L0.425291.079
276_D280_Q0.424831.078
96_L99_E0.424631.077
217_I235_A0.418281.061
111_H133_I0.416421.056
45_P113_R0.416111.056
46_G50_D0.416031.055
59_D65_F0.411821.045
88_E91_N0.40871.037
217_I234_F0.404981.027
37_T106_L0.40391.025
27_D66_I0.400421.016
98_D125_H0.399761.014
38_V58_L0.395781.004
87_E91_N0.394871.002
104_G128_H0.392790.997
97_L121_L0.390460.991
56_P60_E0.38370.973
57_P286_D0.380790.966
41_F108_F0.38040.965
106_L127_L0.379580.963
110_G115_C0.378890.961
92_F99_E0.371430.942
219_Y270_S0.368740.935
132_L217_I0.366940.931
280_Q283_F0.364020.924
240_G268_G0.363350.922
289_A293_K0.361880.918
40_A51_F0.360850.915
91_N94_N0.358080.908
123_V207_K0.356190.904
28_S67_G0.356080.903
187_I191_R0.355150.901
102_I106_L0.35330.896
39_V66_I0.352640.895
70_Y73_F0.348930.885
129_G216_L0.347860.883
57_P61_A0.346590.879
270_S274_A0.346280.879
223_D278_H0.345710.877
238_F268_G0.345170.876
53_Y56_P0.3450.875
233_E236_M0.344770.875
129_G132_L0.342220.868
94_N97_L0.341960.868
90_Q94_N0.340240.863
111_H134_N0.338470.859
285_A289_A0.336780.854
37_T63_I0.336130.853
232_F235_A0.335630.851
42_H47_S0.335590.851
216_L269_A0.334560.849
123_V211_K0.333960.847
88_E92_F0.331030.840
32_G64_R0.330590.839
223_D226_I0.329820.837
166_N170_Y0.327570.831
206_D209_N0.324390.823
40_A67_G0.324110.822
33_S64_R0.320310.813
219_Y272_F0.318540.808
273_F287_L0.316010.802
217_I268_G0.314930.799
89_R117_N0.312570.793
276_D283_F0.311670.791
231_S270_S0.311320.790
57_P293_K0.310620.788
38_V107_I0.308940.784
39_V106_L0.307340.780
277_G283_F0.306480.778
150_M154_N0.305670.775
269_A294_K0.303990.771
122_A127_L0.303340.770
218_A288_I0.302550.768
209_N237_K0.302210.767
42_H67_G0.301370.765
91_N125_H0.299940.761
231_S235_A0.299780.761
186_A189_A0.299460.760
66_I100_L0.299230.759
49_N52_K0.298420.757
31_S34_P0.297310.754
231_S234_F0.297180.754
25_Y28_S0.29590.751
154_N158_D0.293990.746
92_F95_A0.292930.743
48_H67_G0.289140.734
111_H279_F0.288310.731
58_L65_F0.287710.730
92_F96_L0.287060.728
37_T102_I0.286460.727
44_S70_Y0.286190.726
239_K268_G0.285610.725
188_N191_R0.283710.720
26_E48_H0.280760.712
102_I105_K0.280570.712
229_E232_F0.278250.706
39_V108_F0.278050.705
97_L127_L0.276460.701
234_F238_F0.276260.701
290_E293_K0.275590.699
217_I270_S0.275560.699
128_H131_V0.275380.699
113_R117_N0.274870.697
70_Y93_V0.273860.695
115_C132_L0.273480.694
45_P73_F0.273430.694
111_H281_Q0.273410.694
274_A287_L0.272660.692
286_D289_A0.27250.691
122_A213_I0.272090.690
112_S134_N0.27170.689
26_E64_R0.271340.688
71_P89_R0.271150.688
40_A58_L0.271070.688
106_L128_H0.270910.687
182_D185_E0.270050.685
273_F284_R0.269270.683
86_N89_R0.268950.682
70_Y89_R0.267040.677
120_Q207_K0.266930.677
203_E206_D0.26560.674
208_L211_K0.265330.673
99_E103_K0.264450.671
218_A273_F0.263940.670
66_I102_I0.26390.670
87_E120_Q0.263830.669
138_L233_E0.262830.667
205_I237_K0.262730.667
170_Y174_R0.26230.665
48_H68_I0.261680.664
110_G132_L0.261550.664
51_F54_I0.260830.662
280_Q288_I0.260730.661
131_V218_A0.259980.660
123_V210_K0.259560.659
112_S115_C0.258890.657
63_I293_K0.258670.656
185_E188_N0.258490.656
271_V287_L0.258490.656
45_P72_G0.258260.655
217_I231_S0.258160.655
43_G113_R0.256830.652
115_C119_L0.254870.647
79_Y84_Y0.253910.644
108_F130_L0.253880.644
44_S111_H0.253010.642
33_S37_T0.252290.640
25_Y100_L0.251610.638
115_C226_I0.25090.637
113_R116_E0.250870.636
58_L63_I0.250710.636
90_Q124_T0.248080.629
31_S64_R0.247710.628
228_E270_S0.246890.626
92_F100_L0.246410.625
90_Q121_L0.245730.623
115_C134_N0.245570.623
60_E293_K0.245490.623
47_S50_D0.245070.622
50_D281_Q0.244980.622
175_M180_V0.244320.620
27_D31_S0.244070.619
269_A273_F0.243670.618
219_Y226_I0.242490.615
37_T107_I0.237660.603
222_K276_D0.236450.600
59_D62_G0.236210.599
236_M239_K0.235990.599
40_A54_I0.235330.597
76_T80_P0.235180.597
275_K284_R0.235160.597
132_L215_V0.234960.596
39_V68_I0.234470.595
128_H135_P0.234330.594
41_F114_G0.233880.593
196_C199_E0.233470.592
122_A211_K0.231150.586
171_F175_M0.230190.584
163_F166_N0.229980.583
130_L213_I0.229920.583
116_E119_L0.229490.582
37_T104_G0.229320.582
211_K238_F0.229070.581
119_L135_P0.228370.579
289_A292_I0.227730.578
191_R194_Q0.227390.577
84_Y88_E0.225850.573
49_N112_S0.225420.572
155_Y158_D0.225410.572
93_V117_N0.225330.572
149_R156_L0.225240.571
124_T207_K0.224850.570
149_R153_I0.224650.570
133_I218_A0.224030.568
184_E187_I0.223880.568
114_G118_A0.223680.567
50_D111_H0.223170.566
271_V294_K0.221420.562
281_Q289_A0.220480.559
183_G186_A0.220150.559
44_S112_S0.219760.558
89_R113_R0.21860.555
127_L130_L0.218470.554
134_N219_Y0.218440.554
205_I209_N0.218240.554
169_M172_Y0.21790.553
82_Q85_T0.217150.551
153_I157_Y0.21710.551
235_A238_F0.216960.550
211_K215_V0.216920.550
134_N279_F0.216490.549
101_G104_G0.216330.549
198_F201_Q0.215750.547
230_I233_E0.215450.547
78_G81_D0.215330.546
73_F77_P0.215060.546
229_E233_E0.214520.544
39_V127_L0.214390.544
220_G275_K0.213570.542
126_P212_P0.213170.541
99_E102_I0.211680.537
88_E95_A0.210210.533
64_R102_I0.209380.531
151_E155_Y0.206990.525
73_F113_R0.206360.524
146_P149_R0.206140.523
114_G278_H0.20590.522
111_H280_Q0.205880.522
107_I111_H0.204850.520
215_V268_G0.204570.519
43_G70_Y0.203960.517
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
3v48A0.82831000.238
3om8A0.84851000.238
1b6gA0.88221000.243
3afiE0.87881000.244
2yysA0.84511000.244
3fobA0.87541000.245
1brtA0.85861000.25
2xt0A0.87541000.254
2pujA0.87211000.257
2wueA0.87881000.258

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