GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Glyco_hydro_10 - Glycosyl hydrolase family 10
Pfam: PF00331 (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: CL0058
Length: 320
Sequences: 5812
Seq/Len: 18.16
HH_delta: 0.194 (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
254_E311_P1.080784.052
62_D118_R1.075064.030
66_D124_R0.898043.367
58_F118_R0.824383.090
269_C277_V0.79772.990
113_K117_T0.78972.960
67_W70_E0.777032.913
309_P313_Y0.775552.907
62_D124_R0.763032.860
69_R124_R0.740932.778
268_A271_S0.6912.590
33_K71_N0.675582.533
74_K126_Y0.665992.497
211_S265_F0.662182.482
81_V115_V0.645952.422
262_Y282_W0.64042.401
260_E264_D0.633912.376
223_W271_S0.62892.358
50_E114_T0.620092.325
39_T281_T0.614252.303
67_W71_N0.591022.216
237_H278_E0.590782.215
88_D92_N0.589122.209
256_E311_P0.586322.198
113_K168_A0.571262.142
28_R67_W0.566442.124
113_K164_A0.561122.104
66_D69_R0.554222.078
16_V21_L0.552492.071
163_R167_E0.551972.069
304_D308_Q0.547092.051
14_A37_S0.540342.026
62_D119_Y0.537752.016
223_W227_D0.521651.956
50_E56_F0.511821.919
52_E55_R0.506161.898
109_E113_K0.491761.844
109_E164_A0.488591.832
68_A73_I0.487121.826
62_D66_D0.480751.802
165_A174_L0.478991.796
42_N65_L0.470891.765
164_A167_E0.468811.758
263_R267_T0.464851.743
120_K123_G0.463681.738
65_L69_R0.456021.710
109_E160_D0.444921.668
302_L316_I0.434331.628
264_D267_T0.431441.617
173_K235_P0.430071.612
166_R205_D0.429251.609
42_N64_I0.429171.609
66_D70_E0.426541.599
106_A160_D0.423931.589
169_D172_A0.423451.587
74_K127_A0.423181.586
27_Y30_L0.421931.582
220_E268_A0.421741.581
116_V165_A0.421371.580
235_P278_E0.420341.576
129_D206_G0.417881.567
162_F166_R0.41191.544
123_G169_D0.410181.538
220_E224_N0.40311.511
179_Y182_E0.394091.477
259_A315_A0.392771.472
179_Y183_S0.39211.470
104_L107_R0.389931.462
235_P276_A0.38961.461
44_M79_T0.389571.460
287_D310_K0.383351.437
28_R63_A0.382591.434
76_R281_T0.382011.432
256_E260_E0.377551.415
11_P39_T0.375281.407
65_L75_V0.375161.406
309_P314_D0.372181.395
50_E54_G0.369351.385
106_A109_E0.368951.383
241_L280_I0.366521.374
160_D163_R0.362691.360
105_R160_D0.359791.349
34_H309_P0.358531.344
165_A172_A0.357121.339
314_D317_V0.35551.333
120_K169_D0.355051.331
314_D318_D0.353341.325
211_S221_Q0.350911.316
65_L119_Y0.3481.305
106_A110_N0.347171.301
76_R237_H0.343821.289
175_F206_G0.339391.272
16_V42_N0.339341.272
34_H313_Y0.3361.260
100_E106_A0.331271.242
303_F309_P0.330911.241
263_R315_A0.329381.235
89_W93_L0.326821.225
113_K167_E0.32621.223
32_A37_S0.324451.216
223_W268_A0.320711.202
196_D200_R0.31931.197
126_Y171_N0.31871.195
68_A75_V0.317771.191
159_A200_R0.317621.191
260_E263_R0.31761.191
112_I116_V0.317511.190
65_L124_R0.31681.188
164_A168_A0.314961.181
96_G104_L0.311391.167
81_V108_L0.311271.167
39_T76_R0.309671.161
129_D208_G0.308521.157
125_I128_W0.307421.152
76_R127_A0.305141.144
114_T118_R0.303421.137
16_V40_P0.303331.137
115_V119_Y0.30241.134
100_E107_R0.302281.133
267_T271_S0.301081.129
58_F62_D0.300471.126
111_H115_V0.30041.126
93_L100_E0.297491.115
129_D175_F0.29671.112
42_N79_T0.294381.104
144_L148_P0.293811.101
186_K189_A0.292131.095
230_A276_A0.289021.083
31_F67_W0.288031.080
50_E110_N0.283751.064
227_D231_S0.283421.063
112_I164_A0.282021.057
188_D228_R0.281041.054
238_I241_L0.279311.047
105_R109_E0.278441.044
26_R47_G0.278261.043
88_D91_F0.276381.036
135_I177_N0.275971.035
300_P303_F0.275891.034
165_A169_D0.273051.024
160_D164_A0.271721.019
133_E240_E0.269181.009
178_D225_A0.26640.999
69_R75_V0.265010.993
211_S222_I0.259910.974
31_F64_I0.25890.971
44_M49_I0.25830.968
117_T168_A0.257870.967
35_F313_Y0.257030.964
98_P107_R0.256970.963
210_Q239_T0.255890.959
44_M115_V0.254660.955
246_D296_P0.2540.952
195_K198_K0.253480.950
311_P314_D0.252990.948
116_V161_A0.252730.947
117_T120_K0.250520.939
230_A233_G0.249680.936
266_L269_C0.248640.932
68_A71_N0.247870.929
253_E308_Q0.246820.925
270_F273_P0.246440.924
226_L269_C0.246290.923
159_A163_R0.246270.923
52_E89_W0.244410.916
53_P89_W0.243830.914
107_R110_N0.243130.911
123_G172_A0.242790.910
131_V134_A0.242050.907
114_T117_T0.241770.906
193_L197_L0.238990.896
58_F114_T0.237450.890
298_D301_L0.236550.887
110_N114_T0.235630.883
150_Y154_G0.2350.881
243_V257_A0.234190.878
76_R129_D0.233470.875
82_W86_T0.233340.875
255_E258_Q0.233020.874
229_F236_I0.232950.873
46_W90_V0.230420.864
290_S300_P0.23040.864
109_E163_R0.230380.864
99_D155_P0.230370.864
181_I190_Y0.230290.863
132_N240_E0.229040.859
75_V126_Y0.228320.856
146_D151_D0.228320.856
34_H317_V0.228230.856
49_I114_T0.227120.851
62_D123_G0.225960.847
86_T104_L0.225480.845
56_F114_T0.225220.844
82_W85_Q0.223860.839
227_D230_A0.223360.837
116_V168_A0.222540.834
188_D192_N0.222150.833
26_R29_E0.221850.832
163_R202_V0.221520.830
175_F182_E0.219340.822
136_D177_N0.218640.820
69_R126_Y0.218310.818
86_T95_N0.218270.818
153_L157_Y0.218250.818
14_A285_F0.218190.818
62_D65_L0.217120.814
17_N20_Q0.215980.810
134_A176_Y0.215940.810
97_S148_P0.21530.807
18_A22_E0.214220.803
298_D303_F0.213830.802
50_E53_P0.212350.796
93_L107_R0.212060.795
57_N60_S0.211050.791
17_N21_L0.210940.791
165_A170_P0.21070.790
244_R298_D0.210410.789
128_W169_D0.209760.786
45_K85_Q0.208930.783
11_P74_K0.20730.777
222_I277_V0.207260.777
282_W301_L0.207190.777
178_D209_L0.206850.775
109_E161_A0.206620.775
120_K124_R0.205170.769
62_D69_R0.204780.768
63_A67_W0.203890.764
89_W92_N0.203820.764
116_V172_A0.202970.761
222_I269_C0.202030.757
12_F38_V0.201280.755
64_I68_A0.201130.754
65_L79_T0.200630.752
227_D272_H0.200160.750
11_P76_R0.20.750
196_D199_A0.19940.748
195_K199_A0.198960.746
82_W137_D0.197740.741
12_F266_L0.197320.740
241_L265_F0.197250.739
287_D301_L0.197170.739
224_N227_D0.196280.736
50_E55_R0.194820.730
63_A66_D0.194260.728
166_R203_P0.19420.728
37_S285_F0.194150.728
259_A263_R0.193950.727
222_I238_I0.193870.727
116_V128_W0.193640.726
151_D154_G0.192550.722
166_R169_D0.191710.719
27_Y63_A0.190760.715
11_P38_V0.190370.714
89_W107_R0.189970.712
127_A237_H0.189620.711
176_Y190_Y0.188260.706
266_L282_W0.187890.704
239_T278_E0.187810.704
193_L196_D0.187320.702
129_D210_Q0.18620.698
35_F309_P0.186150.698
131_V137_D0.185680.696
180_N183_S0.185220.694
162_F165_A0.184990.694
32_A71_N0.184930.693
273_P277_V0.184370.691
162_F202_V0.183460.688
220_E271_S0.183460.688
304_D310_K0.18340.688
20_Q23_D0.182970.686
46_W50_E0.18230.683
162_F204_I0.181890.682
154_G157_Y0.181610.681
148_P152_A0.180710.677
108_L131_V0.180370.676
120_K168_A0.179930.675
15_A281_T0.179480.673
76_R239_T0.179390.673
237_H281_T0.179050.671
40_P64_I0.178460.669
136_D139_G0.178170.668
148_P151_D0.177480.665
69_R72_G0.177390.665
269_C273_P0.177210.664
127_A173_K0.176890.663
309_P317_V0.176780.663
291_W294_D0.176580.662
152_A156_D0.175760.659
226_L277_V0.175650.658
192_N196_D0.175060.656
187_R228_R0.174830.655
69_R74_K0.173810.652
180_N224_N0.173660.651
163_R203_P0.17360.651
259_A311_P0.173470.650
44_M119_Y0.173040.649
191_L228_R0.172820.648
21_L288_G0.172320.646
53_P93_L0.17210.645
51_P57_N0.171840.644
237_H279_G0.171380.642
20_Q41_E0.171270.642
81_V116_V0.170930.641
161_A164_A0.170590.640
242_D300_P0.170580.639
120_K172_A0.17020.638
209_L229_F0.169640.636
112_I115_V0.169580.636
109_E167_E0.169120.634
14_A32_A0.1690.634
91_F97_S0.16890.633
187_R191_L0.168450.631
266_L270_F0.167990.630
49_I115_V0.167270.627
293_P296_P0.166920.626
98_P104_L0.166480.624
26_R53_P0.166230.623
155_P158_I0.166190.623
175_F179_Y0.166040.622
175_F183_S0.165960.622
149_W152_A0.165350.620
205_D212_H0.165240.619
30_L303_F0.164720.618
289_Y295_T0.164620.617
299_R303_F0.163920.615
112_I161_A0.163880.614
223_W272_H0.163570.613
208_G239_T0.163370.612
266_L280_I0.162380.609
245_D257_A0.16220.608
163_R166_R0.162170.608
65_L115_V0.161770.606
138_D143_G0.161530.606
16_V31_F0.16140.605
220_E223_W0.161120.604
212_H242_D0.161010.604
192_N195_K0.160530.602
60_S64_I0.160230.601
182_E224_N0.160150.600
90_V104_L0.159990.600
236_I277_V0.159680.599
32_A302_L0.159590.598
212_H240_E0.159360.597
195_K271_S0.158880.596
185_A233_G0.158820.595
41_E132_N0.157650.591
17_N41_E0.157370.590
313_Y317_V0.157190.589
258_Q312_A0.157110.589
93_L97_S0.156570.587
113_K169_D0.156550.587
303_F313_Y0.15650.587
31_F68_A0.156250.586
15_A18_A0.15620.586
116_V164_A0.155950.585
185_A228_R0.155820.584
15_A20_Q0.155730.584
222_I268_A0.15540.583
97_S144_L0.155040.581
299_R304_D0.154770.580
11_P14_A0.154760.580
134_A158_I0.154490.579
110_N113_K0.15410.578
27_Y31_F0.154040.577
256_E259_A0.153850.577
108_L112_I0.153440.575
36_N41_E0.153220.574
186_K190_Y0.152260.571
30_L183_S0.152140.570
226_L236_I0.151580.568
272_H276_A0.151220.567
54_G107_R0.150910.566
76_R278_E0.150820.565
165_A168_A0.150370.564
52_E107_R0.150270.563
189_A192_N0.150150.563
293_P298_D0.149190.559
268_A272_H0.14910.559
178_D229_F0.148970.558
185_A234_L0.148730.558
118_R124_R0.148680.557
206_G212_H0.14850.557
139_G207_I0.148250.556
33_K72_G0.14820.556
301_L310_K0.147970.555
86_T91_F0.147930.555
149_W157_Y0.147610.553
16_V286_T0.147410.553
37_S316_I0.147340.552
28_R31_F0.147190.552
115_V128_W0.146930.551
176_Y207_I0.146780.550
194_V234_L0.146680.550
18_A45_K0.146620.550
21_L64_I0.14620.548
178_D208_G0.146060.548
16_V288_G0.145820.547
162_F203_P0.145790.547
31_F301_L0.145780.547
42_N75_V0.145750.546
187_R190_Y0.145550.546
50_E89_W0.145520.546
279_G283_W0.145060.544
283_W288_G0.14450.542
157_Y169_D0.144490.542
113_K116_V0.144460.542
17_N23_D0.144250.541
262_Y316_I0.144220.541
105_R108_L0.144130.540
209_L236_I0.144040.540
203_P234_L0.143280.537
21_L40_P0.14310.536
137_D156_D0.143050.536
90_V107_R0.142950.536
245_D248_N0.14270.535
187_R225_A0.14250.534
151_D155_P0.142460.534
299_R302_L0.142420.534
130_V174_L0.142020.532
132_N239_T0.141680.531
32_A73_I0.141450.530
263_R318_D0.141150.529
108_L161_A0.140720.528
117_T164_A0.140610.527
153_L156_D0.140450.527
21_L68_A0.140310.526
87_P90_V0.14020.526
244_R300_P0.139890.524
99_D104_L0.139840.524
39_T237_H0.139180.522
150_Y155_P0.139170.522
105_R153_L0.1390.521
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
3niyA0.96561000.194
3w25A0.97191000.209
1ur1A0.97811000.222
1xyzA0.96881000.227
3emzA0.9751000.228
3u7bA0.95311000.23
2depA0.97811000.231
3cuiA0.95631000.231
1n82A0.97191000.233
1us2A0.9751000.24

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