GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Peptidase_M50 - Peptidase family M50
Pfam: PF02163 (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: CL0126
Length: 192
Sequences: 2025
Seq/Len: 10.55
HH_delta: 0.474 (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
26_D90_I1.141865.679
20_A89_L0.782473.892
82_R86_K0.671293.339
99_L137_A0.605263.010
19_L23_L0.554772.759
92_L96_L0.51042.539
83_S86_K0.489162.433
18_A49_W0.457222.274
88_I152_I0.453662.256
178_L182_L0.441612.196
15_L19_L0.437732.177
5_A125_F0.427792.128
91_A155_A0.427062.124
9_S136_L0.426362.121
24_Y86_K0.400641.993
151_R170_V0.397221.976
13_H17_H0.387031.925
88_I156_L0.34351.709
29_P63_F0.336581.674
22_R30_R0.336321.673
9_S133_N0.324771.615
12_L97_A0.322561.604
12_L101_L0.320831.596
105_A129_F0.318411.584
91_A152_I0.315441.569
38_N52_R0.31541.569
92_L95_P0.31431.563
43_R48_I0.311321.548
101_L105_A0.310031.542
84_R88_I0.309961.542
14_E17_H0.299971.492
24_Y89_L0.292431.454
95_P141_L0.291941.452
137_A141_L0.291681.451
92_L152_I0.288141.433
84_R159_M0.286921.427
106_L130_A0.283091.408
26_D62_G0.278751.386
36_G41_S0.275291.369
30_R50_S0.274081.363
35_F56_L0.272521.355
102_A134_F0.271461.350
88_I155_A0.268871.337
5_A129_F0.26581.322
42_H45_G0.265531.321
96_L100_L0.261021.298
40_F51_I0.256931.278
175_L179_V0.256921.278
161_R164_R0.256711.277
176_I180_L0.255361.270
20_A23_L0.254991.268
99_L103_I0.254431.265
108_L112_L0.253221.259
11_V15_L0.252491.256
38_N41_S0.249551.241
157_L165_I0.249391.240
157_L161_R0.248931.238
78_S81_K0.247611.232
20_A93_A0.244621.217
88_I159_M0.242861.208
29_P74_P0.242011.204
151_R174_L0.236351.176
166_N169_I0.229291.140
20_A24_Y0.228961.139
131_W135_I0.225241.120
15_L18_A0.222921.109
32_E52_R0.222661.107
41_S48_I0.221061.100
161_R165_I0.220751.098
21_A28_V0.220541.097
21_A62_G0.218971.089
134_F138_L0.217561.082
84_R152_I0.216591.077
75_I81_K0.211271.051
179_V183_L0.211141.050
91_A151_R0.210381.046
84_R155_A0.207611.033
170_V174_L0.207251.031
3_I7_L0.207041.030
138_L142_L0.206561.027
38_N48_I0.206231.026
105_A130_A0.206111.025
18_A28_V0.205271.021
172_I176_I0.204851.019
154_R173_I0.2031.010
29_P61_G0.202011.005
38_N42_H0.201781.004
11_V33_G0.201371.002
105_A126_L0.20080.999
87_R155_A0.199280.991
109_L123_A0.199260.991
161_R166_N0.199030.990
109_L127_F0.197340.982
168_R171_Q0.196670.978
152_I155_A0.196190.976
14_E148_D0.195440.972
170_V175_L0.195080.970
125_F129_F0.1930.960
46_F77_E0.192740.959
32_E36_G0.192640.958
41_S50_S0.191920.955
20_A96_L0.190870.949
15_L35_F0.189380.942
85_W89_L0.188780.939
171_Q175_L0.188570.938
88_I92_L0.188380.937
17_H94_G0.186630.928
35_F54_I0.186370.927
30_R48_I0.185740.924
173_I176_I0.185720.924
65_W80_R0.184810.919
24_Y83_S0.183850.914
179_V182_L0.181250.902
27_K31_F0.1810.900
71_F74_P0.180960.900
21_A80_R0.179190.891
165_I168_R0.178750.889
27_K79_F0.175550.873
91_A95_P0.175140.871
169_I172_I0.174790.869
17_H140_N0.174670.869
63_F78_S0.174410.867
13_H94_G0.174280.867
46_F49_W0.173890.865
124_E127_F0.172950.860
54_I145_P0.172740.859
79_F82_R0.172390.857
82_R90_I0.17130.852
14_E94_G0.170980.850
97_A101_L0.170510.848
89_L96_L0.170280.847
175_L182_L0.169630.844
108_L131_W0.169520.843
30_R35_F0.167680.834
74_P77_E0.166580.829
39_I53_L0.165890.825
30_R38_N0.165590.824
154_R174_L0.165030.821
84_R91_A0.164880.820
106_L110_Y0.16370.814
13_H140_N0.163560.814
107_L111_L0.163440.813
43_R46_F0.162360.808
153_L157_L0.162290.807
167_E170_V0.162180.807
30_R52_R0.161150.802
156_L160_I0.16040.798
164_R167_E0.160040.796
168_R172_I0.159840.795
77_E80_R0.159160.792
12_L15_L0.159020.791
13_H148_D0.158330.788
86_K89_L0.156950.781
151_R154_R0.155560.774
23_L89_L0.15550.773
150_G154_R0.153230.762
52_R59_Y0.151920.756
6_L132_L0.151550.754
63_F73_A0.151410.753
102_A106_L0.149690.745
145_P150_G0.148530.739
22_R47_T0.148510.739
139_F142_L0.148410.738
83_S87_R0.148240.737
94_G148_D0.147930.736
26_D82_R0.147280.733
120_S124_E0.146540.729
71_F76_S0.144730.720
45_G49_W0.144640.719
102_A130_A0.144320.718
95_P137_A0.144040.716
62_G65_W0.143020.711
107_L110_Y0.1430.711
175_L183_L0.142120.707
85_W88_I0.141970.706
24_Y85_W0.141860.706
17_H98_N0.141780.705
92_L141_L0.139960.696
14_E140_N0.139720.695
152_I156_L0.139610.694
108_L111_L0.139040.692
17_H148_D0.139020.691
72_P180_L0.137980.686
26_D39_I0.137450.684
64_G80_R0.137410.683
44_D49_W0.137180.682
118_W121_F0.137070.682
20_A97_A0.136910.681
22_R31_F0.136840.681
104_I165_I0.136770.680
22_R45_G0.13660.679
121_F128_F0.136490.679
5_A11_V0.13590.676
38_N50_S0.135830.676
85_W159_M0.13570.675
47_T62_G0.132780.660
87_R158_E0.132760.660
140_N148_D0.132570.659
9_S130_A0.132270.658
150_G166_N0.132010.657
19_L96_L0.131440.654
16_G97_A0.131170.652
19_L22_R0.130880.651
7_L11_V0.130720.650
104_I108_L0.129980.646
72_P76_S0.129950.646
31_F57_G0.129920.646
146_P170_V0.129460.644
36_G39_I0.129310.643
172_I179_V0.129270.643
63_F138_L0.128930.641
165_I169_I0.128680.640
15_L97_A0.128370.638
48_I52_R0.127560.634
154_R165_I0.127520.634
151_R155_A0.127260.633
37_L53_L0.127240.633
9_S134_F0.126980.632
126_L129_F0.126970.632
21_A90_I0.126650.630
58_G62_G0.126610.630
42_H46_F0.126080.627
28_V62_G0.125670.625
56_L182_L0.125190.623
72_P75_I0.125130.622
135_I139_F0.125130.622
118_W125_F0.124730.620
15_L20_A0.124430.619
173_I180_L0.12380.616
36_G52_R0.123070.612
167_E171_Q0.122880.611
7_L49_W0.122810.611
106_L115_S0.122730.610
27_K63_F0.122560.610
62_G150_G0.122070.607
113_S116_V0.121990.607
107_L112_L0.121660.605
171_Q174_L0.121640.605
116_V153_L0.121610.605
144_I150_G0.121180.603
62_G90_I0.120980.602
86_K122_F0.120930.601
155_A173_I0.120860.601
120_S179_V0.120360.599
84_R87_R0.120140.598
56_L109_L0.119310.593
32_E35_F0.118930.592
13_H16_G0.118490.589
32_E60_V0.117690.585
169_I174_L0.117610.585
95_P155_A0.117510.584
17_H93_A0.117480.584
33_G36_G0.117440.584
132_L181_L0.117260.583
73_A117_G0.117250.583
79_F92_L0.116360.579
32_E59_Y0.114940.572
128_F136_L0.114460.569
59_Y130_A0.114460.569
31_F79_F0.114090.567
123_A126_L0.114090.567
161_R168_R0.1140.567
153_L166_N0.113940.567
133_N136_L0.113820.566
111_L126_L0.113790.566
144_I180_L0.113040.562
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
3b4rA0.77699.90.474
2jsdA0.307337.10.939
2ovxA0.286530.40.942
1eakA0.322928.40.943
1cgeA0.317727.50.943
1hv5A0.307327.50.943
1rm8A0.307326.90.943
1i76A0.302124.10.944
2xs4A0.307322.50.945
1slmA0.34920.60.946

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