GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Peptidase_S8 - Subtilase family
Pfam: PF00082 (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: 282
Sequences: 7728
Seq/Len: 27.4
HH_delta: 0.114 (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
231_A277_A1.286033.042
169_G197_A1.247752.951
82_F87_G1.151132.723
256_D276_N1.135082.685
170_A178_A1.098842.599
2_V56_I1.092632.584
51_H223_F1.080162.555
109_N225_A1.03322.444
231_A275_I0.990382.342
207_V216_T0.955162.259
170_A180_Y0.935192.212
178_A201_G0.915222.165
55_I227_V0.909472.151
170_A200_G0.896462.120
52_V226_P0.861942.039
180_Y201_G0.851422.014
140_L166_I0.842721.993
243_T246_E0.841371.990
160_A167_T0.836471.978
52_V109_N0.820121.940
54_G205_S0.79841.888
79_Y98_Y0.79571.882
54_G206_A0.794951.880
1_K75_K0.768191.817
140_L232_A0.762381.803
79_Y95_A0.761931.802
45_D84_N0.758891.795
225_A229_A0.75571.787
44_D47_G0.741331.753
70_V230_G0.734761.738
106_D236_L0.725251.715
4_V56_I0.721971.708
239_Y242_L0.716571.695
142_V232_A0.71021.680
207_V218_F0.701151.658
77_Y105_V0.673241.592
53_A76_L0.671661.589
51_H205_S0.66831.581
3_A105_V0.6661.575
57_A76_L0.66531.574
5_I81_I0.660611.562
109_N229_A0.660421.562
125_D129_E0.656491.553
2_V233_A0.6511.540
97_E133_Y0.643631.522
132_D136_K0.639271.512
236_L247_I0.638891.511
132_D164_N0.635021.502
218_F223_F0.634421.501
142_V228_V0.631031.492
142_V225_A0.628381.486
143_F165_V0.624991.478
172_D176_Q0.620121.467
51_H218_F0.617181.460
248_K252_I0.616561.458
3_A99_A0.612781.449
58_G206_A0.612311.448
170_A201_G0.610041.443
144_A225_A0.60091.421
232_A247_I0.600851.421
249_A253_N0.59741.413
71_A74_A0.595361.408
242_L250_L0.592621.402
4_V52_V0.585711.385
196_I251_L0.584961.384
100_V134_A0.580151.372
172_D201_G0.574551.359
169_G181_S0.574481.359
175_G274_L0.569061.346
177_P181_S0.566661.340
1_K77_Y0.563881.334
71_A233_A0.56321.332
55_I223_F0.561891.329
100_V139_I0.56021.325
177_P197_A0.559141.322
168_V196_I0.549311.299
32_F98_Y0.548731.298
107_V229_A0.547131.294
171_V197_A0.545321.290
88_T91_D0.54081.279
228_V275_I0.535381.266
196_I275_I0.534351.264
171_V274_L0.533271.261
2_V74_A0.532261.259
9_I78_S0.531851.258
57_A74_A0.529731.253
133_Y137_K0.528811.251
60_G68_N0.526831.246
81_I112_F0.526191.245
232_A251_L0.521521.233
53_A78_S0.520761.232
145_A167_T0.516721.222
128_E132_D0.514261.216
9_I53_A0.510521.207
110_L141_I0.507791.201
223_F226_P0.500131.183
149_G177_P0.496291.174
250_L254_T0.496251.174
96_I134_A0.490331.160
204_L217_S0.489461.158
134_A141_I0.488711.156
10_D208_P0.488681.156
48_H222_S0.487551.153
51_H55_I0.485781.149
201_G219_S0.484821.147
31_N36_N0.483941.145
92_L112_F0.477651.130
239_Y250_L0.472791.118
252_I272_W0.471521.115
198_A228_V0.471491.115
257_D267_D0.466231.103
110_L143_F0.466161.103
108_I139_I0.463471.096
96_I110_L0.449781.064
166_I248_K0.448311.060
48_H147_N0.448041.060
168_V228_V0.446211.055
236_L240_P0.445641.054
135_E164_N0.443061.048
6_D48_H0.442851.047
148_N182_N0.438791.038
13_H215_Y0.438341.037
144_A224_A0.437661.035
265_G270_Y0.434221.027
232_A235_L0.427121.010
153_D186_P0.426751.009
111_S226_P0.424711.005
222_S226_P0.423321.001
81_I95_A0.421480.997
22_I77_Y0.420290.994
235_L242_L0.417640.988
98_Y103_D0.415920.984
140_L244_P0.415780.983
158_F162_S0.414390.980
58_G69_G0.412180.975
128_E161_S0.409190.968
9_I76_L0.409020.967
11_P21_F0.406860.962
234_L277_A0.40530.959
199_P203_I0.40370.955
31_N34_D0.402850.953
52_V223_F0.401770.950
133_Y136_K0.398550.943
15_D60_G0.397880.941
184_G187_S0.396570.938
257_D265_G0.396180.937
7_T44_D0.394720.934
131_I165_V0.393740.931
177_P183_Y0.392790.929
102_N133_Y0.392630.929
138_G236_L0.391820.927
5_I95_A0.39130.925
171_V175_G0.390490.924
231_A251_L0.390290.923
258_L274_L0.389970.922
58_G67_I0.384970.911
109_N226_P0.383470.907
199_P227_V0.383410.907
70_V227_V0.383120.906
132_D163_P0.382480.905
108_I141_I0.382220.904
22_I75_K0.381570.902
256_D274_L0.37930.897
266_Y272_W0.376620.891
147_N222_S0.376390.890
224_A227_V0.375350.888
140_L247_I0.374470.886
99_A105_V0.373190.883
93_I130_A0.372580.881
183_Y269_S0.368010.870
234_L237_S0.367460.869
20_N59_N0.367390.869
93_I126_I0.360460.853
267_D272_W0.360280.852
79_Y103_D0.360170.852
13_H54_G0.359510.850
107_V232_A0.359480.850
4_V53_A0.359390.850
235_L247_I0.356620.843
127_L131_I0.352250.833
113_G144_A0.352120.833
32_F79_Y0.350690.829
125_D128_E0.350410.829
87_G91_D0.350220.828
226_P229_A0.34920.826
74_A233_A0.34820.824
44_D80_K0.347670.822
96_I108_I0.346770.820
267_D270_Y0.345440.817
128_E162_S0.343490.812
89_S127_L0.340910.806
11_P43_D0.340820.806
99_A108_I0.340060.804
9_I16_F0.339110.802
162_S165_V0.338820.801
19_G59_N0.337570.798
255_A273_G0.337340.798
100_V133_Y0.336730.796
148_N157_S0.335980.795
17_S59_N0.335250.793
170_A221_T0.33470.792
10_D211_D0.334450.791
142_V229_A0.334290.791
177_P269_S0.334010.790
196_I255_A0.33360.789
107_V233_A0.331650.784
112_F143_F0.331390.784
31_N80_K0.331190.783
169_G187_S0.328170.776
5_I110_L0.327670.775
79_Y99_A0.327370.774
97_E102_N0.32650.772
15_D206_A0.326340.772
92_L110_L0.325440.770
15_D215_Y0.321350.760
77_Y103_D0.320170.757
158_F161_S0.31980.756
94_E97_E0.319620.756
107_V142_V0.319240.755
107_V140_L0.318230.753
16_F21_F0.3180.752
23_W29_G0.317470.751
141_I165_V0.317070.750
89_S114_S0.317010.750
99_A134_A0.316230.748
69_G230_G0.316110.748
13_H206_A0.31470.744
236_L244_P0.312890.740
135_E248_K0.312840.740
98_Y102_N0.30960.732
150_P183_Y0.308670.730
180_Y219_S0.308220.729
208_P211_D0.307470.727
235_L239_Y0.305880.723
202_N219_S0.304770.721
135_E245_A0.304640.721
108_I134_A0.30430.720
5_I108_I0.303650.718
147_N226_P0.303120.717
81_I92_L0.302960.717
71_A234_L0.302340.715
244_P248_K0.300680.711
140_L236_L0.299920.709
249_A252_I0.29970.709
100_V137_K0.295560.699
6_D222_S0.294430.696
5_I79_Y0.293480.694
91_D94_E0.293250.694
195_D252_I0.291990.691
83_D86_G0.291230.689
181_S184_G0.290790.688
11_P22_I0.290560.687
105_V139_I0.289990.686
3_A77_Y0.289090.684
82_F91_D0.289090.684
202_N217_S0.288510.682
149_G183_Y0.28810.681
145_A169_G0.288080.681
82_F112_F0.286690.678
235_L250_L0.28640.677
170_A219_S0.286220.677
205_S223_F0.285720.676
166_I232_A0.285530.675
73_N237_S0.284480.673
166_I251_L0.284270.672
196_I252_I0.284260.672
56_I230_G0.283960.672
245_A249_A0.283810.671
239_Y246_E0.27940.661
13_H16_F0.278860.660
246_E249_A0.276250.653
242_L246_E0.276040.653
111_S144_A0.274130.648
10_D14_P0.274060.648
259_G270_Y0.273070.646
178_A181_S0.27290.645
109_N142_V0.272580.645
138_G244_P0.271860.643
231_A234_L0.269730.638
135_E162_S0.269130.637
3_A79_Y0.269060.636
123_Y128_E0.267530.633
142_V166_I0.267490.633
6_D147_N0.266690.631
90_S94_E0.266650.631
149_G182_N0.266520.630
257_D270_Y0.266280.630
220_G226_P0.265090.627
140_L248_K0.264520.626
223_F227_V0.264130.625
156_I185_G0.262950.622
8_G80_K0.262380.621
197_A271_G0.260710.617
12_N43_D0.259860.615
236_L239_Y0.25860.612
23_W30_Y0.257540.609
228_V251_L0.256250.606
89_S92_L0.255860.605
29_G78_S0.254310.601
14_P65_P0.253910.601
135_E141_I0.253310.599
144_A147_N0.252980.598
103_D106_D0.252750.598
132_D162_S0.252630.598
7_T46_N0.252390.597
97_E100_V0.252380.597
95_A99_A0.252280.597
10_D209_G0.251660.595
129_E133_Y0.251310.594
15_D67_I0.250420.592
175_G256_D0.250180.592
52_V225_A0.248610.588
196_I231_A0.248180.587
46_N218_F0.248030.587
20_N23_W0.246910.584
71_A237_S0.246820.584
15_D58_G0.246210.582
171_V199_P0.245490.581
143_F167_T0.244650.579
54_G58_G0.243940.577
177_P270_Y0.243850.577
130_A133_Y0.243470.576
14_P17_S0.243210.575
127_L130_A0.242780.574
30_Y98_Y0.242260.573
70_V231_A0.242040.572
74_A237_S0.241970.572
235_L254_T0.241020.570
48_H52_V0.241010.570
207_V211_D0.239670.567
131_I141_I0.238620.564
47_G207_V0.238420.564
111_S147_N0.236440.559
7_T80_K0.235420.557
157_S182_N0.234690.555
173_N202_N0.233920.553
265_G269_S0.233830.553
111_S222_S0.233310.552
30_Y36_N0.233010.551
258_L270_Y0.232410.550
144_A226_P0.23220.549
167_T195_D0.231890.548
245_A248_K0.231590.548
166_I252_I0.231180.547
96_I141_I0.230730.546
81_I110_L0.229850.544
184_G195_D0.229720.543
15_D59_N0.229430.543
126_I130_A0.228590.541
147_N221_T0.228280.540
164_N245_A0.228180.540
136_K164_N0.227710.539
135_E244_P0.227690.539
235_L251_L0.226880.537
4_V78_S0.226060.535
157_S160_A0.224840.532
255_A271_G0.223660.529
203_I219_S0.223640.529
221_T226_P0.223540.529
21_F78_S0.22330.528
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
3afgA0.94331000.114
1r6vA0.90431000.124
4i0wB0.96811000.138
4j94A0.91491000.146
2z2zA0.88651000.147
3i6sA0.97161000.149
2x8jA0.89721000.15
3t41A0.92911000.15
1xf1A0.9611000.151
4kg7A0.91131000.152

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