GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FGE-sulfatase - Sulfatase-modifying factor enzyme 1
Pfam: PF03781 (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. )
Length: 260
Sequences: 2868
Seq/Len: 11.03
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
117_R123_E1.215825.348
12_T33_T0.780683.434
7_L38_Y0.678442.984
39_I259_V0.64682.845
10_G36_P0.645512.839
91_H171_T0.568552.501
175_G186_D0.550542.422
40_D258_C0.530292.333
12_T31_T0.50872.238
42_Y175_G0.507952.234
198_W220_R0.50762.233
52_F107_W0.491532.162
14_L29_P0.491352.161
105_C258_C0.491112.160
4_E41_K0.478532.105
7_L36_P0.47412.085
47_A89_D0.464332.042
47_A90_N0.452821.992
40_D44_V0.447761.970
50_R89_D0.447311.968
22_G27_N0.435611.916
121_E241_R0.412891.816
40_D110_K0.410421.805
52_F58_Y0.410171.804
8_I184_L0.4071.790
102_Q106_N0.39751.748
14_L31_T0.397351.748
96_V256_F0.391321.721
48_Q104_Y0.390811.719
105_C109_G0.388661.710
102_Q196_A0.386671.701
172_A177_F0.38391.689
130_G182_F0.382591.683
13_F126_Y0.369971.627
6_V41_K0.355491.564
52_F103_A0.355191.562
5_M40_D0.353951.557
34_L37_F0.352261.549
93_V96_V0.347431.528
39_I184_L0.34491.517
41_K175_G0.341321.501
50_R54_N0.339151.492
43_E193_E0.338041.487
98_W220_R0.336231.479
46_N94_V0.335081.474
202_Y223_R0.334061.469
198_W217_G0.333311.466
184_L187_M0.330891.455
126_Y182_F0.329261.448
138_P188_A0.328141.443
53_L107_W0.326421.436
39_I119_P0.323871.425
222_V254_V0.315491.388
52_F56_G0.312721.376
101_A105_C0.311051.368
53_L56_G0.307721.354
5_M110_K0.30771.353
136_P141_D0.304711.340
220_R247_P0.304021.337
45_T174_V0.302581.331
98_W102_Q0.299931.319
110_K258_C0.299071.315
128_A238_C0.292091.285
46_N93_V0.290291.277
9_P36_P0.289971.275
26_E237_R0.289971.275
132_P135_R0.280971.236
180_N184_L0.275751.213
15_M122_A0.275421.211
99_Y247_P0.275381.211
117_R259_V0.272951.201
53_L58_Y0.272421.198
17_S22_G0.271971.196
41_K185_Y0.266831.174
124_W128_A0.265271.167
132_P181_P0.265171.166
90_N173_P0.258581.137
179_P185_Y0.25831.136
195_T223_R0.256131.127
10_G34_L0.255851.125
246_P249_Q0.254451.119
191_V255_G0.251121.105
122_A197_D0.246951.086
210_N213_D0.245641.080
15_M30_H0.24521.079
49_Y52_F0.244561.076
43_E191_V0.238631.050
140_G143_F0.23721.043
8_I39_I0.23691.042
46_N88_P0.236331.040
32_V122_A0.236151.039
233_P236_C0.235551.036
25_D199_Y0.233721.028
108_L258_C0.23341.027
49_Y256_F0.232711.024
203_P206_P0.230911.016
30_H202_Y0.22791.002
43_E172_A0.227381.000
137_Y140_G0.226580.997
46_N91_H0.225960.994
203_P207_P0.224680.988
56_G100_D0.224220.986
109_G258_C0.224120.986
104_Y108_L0.222390.978
123_E259_V0.22160.975
15_M126_Y0.220.968
53_L57_G0.21910.964
45_T48_Q0.218920.963
94_V191_V0.218160.960
117_R196_A0.217340.956
39_I127_A0.216760.953
126_Y180_N0.21590.950
121_E223_R0.215880.950
199_Y221_V0.21580.949
128_A187_M0.215270.947
213_D217_G0.215140.946
55_D107_W0.213950.941
127_A184_L0.213920.941
226_S253_N0.213750.940
127_A187_M0.213420.939
130_G188_A0.212740.936
79_S88_P0.212080.933
97_S100_D0.212060.933
43_E186_D0.211950.932
100_D250_R0.211520.930
39_I187_M0.211180.929
42_Y48_Q0.210370.925
85_K88_P0.210340.925
103_A107_W0.210050.924
228_A253_N0.209750.923
40_D108_L0.209160.920
52_F55_D0.206240.907
52_F104_Y0.205770.905
43_E190_N0.203420.895
49_Y58_Y0.202770.892
206_P209_D0.202530.891
91_H170_E0.202310.890
46_N107_W0.201190.885
211_P217_G0.200770.883
45_T186_D0.200670.883
8_I182_F0.200540.882
130_G181_P0.200490.882
172_A186_D0.197530.869
159_N163_N0.197210.867
172_A176_S0.194940.857
161_Y167_R0.194160.854
198_W211_P0.194090.854
58_Y103_A0.193740.852
138_P181_P0.192690.848
210_N214_D0.192460.847
139_W188_A0.192280.846
214_D217_G0.188610.830
46_N52_F0.186790.822
17_S20_D0.1840.809
188_A238_C0.183790.808
17_S239_A0.183710.808
139_W142_E0.182150.801
159_N162_S0.182080.801
94_V107_W0.181860.800
17_S29_P0.180510.794
125_E129_R0.180270.793
119_P259_V0.179140.788
88_P91_H0.178810.787
139_W143_F0.178040.783
198_W247_P0.17760.781
174_V186_D0.177270.780
130_G180_N0.17680.778
49_Y105_C0.176760.777
125_E223_R0.175690.773
49_Y101_A0.175080.770
47_A51_A0.174810.769
11_G126_Y0.173420.763
235_S253_N0.173410.763
17_S23_W0.17320.762
227_W252_P0.17290.761
106_N196_A0.172640.759
7_L10_G0.172540.759
55_D58_Y0.172090.757
129_R238_C0.17190.756
104_Y107_W0.171760.756
37_F126_Y0.170770.751
168_S172_A0.17070.751
96_V194_W0.170040.748
210_N217_G0.169650.746
36_P126_Y0.169220.744
177_F186_D0.169040.744
8_I37_F0.168270.740
42_Y174_V0.167640.737
46_N50_R0.167240.736
102_Q105_C0.167170.735
195_T198_W0.166260.731
52_F57_G0.165490.728
101_A256_F0.16440.723
49_Y103_A0.163570.719
8_I36_P0.16340.719
132_P182_F0.163310.718
5_M258_C0.162910.717
91_H173_P0.162880.716
16_G129_R0.162620.715
171_T190_N0.16250.715
135_R138_P0.162060.713
21_N25_D0.161890.712
45_T175_G0.161410.710
98_W194_W0.161190.709
168_S177_F0.160880.708
101_A109_G0.160020.704
124_W187_M0.159390.701
190_N193_E0.159260.701
180_N185_Y0.158480.697
58_Y100_D0.158310.696
85_K91_H0.158040.695
126_Y131_G0.157770.694
51_A55_D0.157620.693
49_Y107_W0.157510.693
43_E176_S0.156820.690
176_S186_D0.156070.686
15_M32_V0.155480.684
6_V184_L0.154530.680
21_N24_D0.154260.679
35_S210_N0.153820.677
86_P91_H0.153190.674
57_G107_W0.152310.670
210_N215_S0.151650.667
105_C108_L0.151490.666
54_N57_G0.150970.664
229_S236_C0.149910.659
49_Y96_V0.149530.658
16_G125_E0.149490.658
23_W27_N0.149460.657
244_F254_V0.149430.657
43_E222_V0.149240.656
213_D216_D0.148940.655
49_Y53_L0.148760.654
9_P182_F0.148720.654
10_G126_Y0.148040.651
37_F127_A0.147760.650
52_F94_V0.147710.650
40_D109_G0.147080.647
56_G107_W0.146560.645
218_G246_P0.14630.644
139_W182_F0.145990.642
192_W222_V0.145990.642
208_D211_P0.14590.642
130_G133_D0.145850.642
204_P208_D0.145710.641
226_S229_S0.145650.641
166_S172_A0.145580.640
195_T259_V0.144850.637
130_G135_R0.144260.635
211_P214_D0.144010.633
201_G204_P0.143880.633
223_R241_R0.142840.628
53_L100_D0.14260.627
223_R238_C0.142590.627
102_Q109_G0.142360.626
4_E42_Y0.142120.625
48_Q108_L0.139820.615
87_G91_H0.139820.615
101_A118_L0.139810.615
177_F182_F0.139270.613
208_D212_N0.139170.612
139_W177_F0.139130.612
121_E125_E0.139020.611
5_M259_V0.138820.611
43_E192_W0.138710.610
46_N87_G0.138410.609
200_S205_D0.138270.608
90_N175_G0.137920.607
46_N86_P0.137320.604
200_S212_N0.137050.603
17_S27_N0.136790.602
8_I126_Y0.136410.600
54_N107_W0.135850.598
44_V104_Y0.135650.597
229_S240_Y0.135390.596
175_G185_Y0.134990.594
44_V256_F0.134690.592
205_D209_D0.134550.592
203_P211_P0.134530.592
229_S235_S0.134270.591
85_K89_D0.133840.589
192_W229_S0.13360.588
26_E239_A0.132940.585
38_Y43_E0.132710.584
92_P190_N0.132220.582
16_G32_V0.132060.581
212_N215_S0.132010.581
224_G255_G0.131630.579
198_W214_D0.131620.579
8_I38_Y0.131560.579
243_S246_P0.131350.578
15_M223_R0.131240.577
251_S254_V0.130880.576
243_S251_S0.130450.574
4_E7_L0.13040.574
235_S251_S0.130010.572
235_S250_R0.129920.571
197_D220_R0.129820.571
229_S233_P0.129790.571
55_D104_Y0.129460.569
50_R88_P0.129430.569
166_S176_S0.12910.568
221_V241_R0.128520.565
26_E192_W0.128270.564
128_A188_A0.127460.561
104_Y128_A0.127390.560
34_L122_A0.12730.560
230_D240_Y0.126250.555
51_A108_L0.126220.555
192_W253_N0.126180.555
135_R188_A0.126120.555
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
1z70X0.951000.117
2q17A0.951000.119
1y4jA0.89621000.139
2y3cA0.85771000.186
1yu0A0.73081000.454
1vr3A0.23088.60.966
1o7bT0.36926.60.968
2o3lA0.27694.30.97
4eplA0.22313.20.972
2i45A0.13852.90.973

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