GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Sortase - Sortase family
Pfam: PF04203 (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: 128
Sequences: 2049
Seq/Len: 16.01
HH_delta: 0.075 (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
82_T126_K0.917393.671
57_N60_K0.815143.262
42_N105_T0.670372.683
101_D126_K0.586342.347
66_E78_E0.575422.303
2_Y9_D0.573542.295
104_L125_A0.571432.287
5_S65_D0.56612.266
55_F106_L0.561842.249
27_A45_I0.552612.212
2_Y70_T0.548852.197
4_P68_Y0.506042.025
48_H109_C0.487811.952
81_V123_V0.465961.865
67_I104_L0.458191.834
66_E80_R0.429431.719
80_R126_K0.424321.698
67_I125_A0.420471.683
43_T104_L0.409461.639
102_R127_L0.40351.615
83_S124_V0.388551.555
85_K124_V0.382541.531
103_R124_V0.381431.527
27_A47_G0.37861.515
77_Y127_L0.369791.480
69_L104_L0.364011.457
3_I6_I0.360251.442
3_I8_I0.35951.439
49_N59_N0.348711.396
88_D119_K0.341891.368
68_Y78_E0.332791.332
6_I61_L0.331161.325
84_V121_L0.327731.312
2_Y68_Y0.327311.310
10_Y54_M0.325371.302
44_V107_V0.322691.291
5_S61_L0.319491.279
43_T69_L0.315591.263
17_S20_N0.312431.250
20_N28_G0.305111.221
89_P120_R0.304861.220
85_K94_V0.298231.194
49_N56_S0.298041.193
23_N26_G0.293391.174
55_F58_L0.292171.169
87_V122_V0.290621.163
88_D91_D0.288311.154
21_L26_G0.287871.152
14_Q29_F0.285541.143
13_V20_N0.282611.131
5_S62_K0.278961.116
92_V95_L0.278751.116
15_G28_G0.276051.105
105_T124_V0.274541.099
34_A97_P0.272371.090
58_L61_L0.27191.088
18_N22_N0.265651.063
29_F33_S0.262281.050
82_T103_R0.258081.033
108_T121_L0.257721.031
47_G54_M0.25711.029
110_S119_K0.255871.024
13_V26_G0.254911.020
49_N112_F0.254031.017
12_V69_L0.253871.016
61_L65_D0.250881.004
67_I106_L0.248840.996
10_Y27_A0.248790.996
58_L123_V0.246570.987
89_P92_V0.24380.976
53_A57_N0.237740.951
27_A55_F0.236050.945
42_N124_V0.23490.940
16_L20_N0.233160.933
3_I61_L0.232480.930
94_V122_V0.231730.927
39_S102_R0.230520.923
16_L31_D0.229910.920
110_S117_T0.226640.907
18_N21_L0.225150.901
17_S21_L0.223970.896
68_Y76_T0.223880.896
92_V96_N0.221280.886
95_L105_T0.220910.884
61_L81_V0.22060.883
114_G118_D0.220410.882
40_G97_P0.21860.875
78_E127_L0.218330.874
70_T76_T0.2160.864
37_G43_T0.215960.864
45_I55_F0.215660.863
107_V122_V0.214120.857
6_I57_N0.211320.846
110_S121_L0.209380.838
11_P27_A0.207010.828
40_G100_G0.206070.825
58_L121_L0.203990.816
26_G120_R0.202460.810
111_P118_D0.200260.801
86_I119_K0.198050.793
43_T79_Y0.195760.783
12_V27_A0.194650.779
37_G40_G0.189960.760
47_G55_F0.189810.760
109_C120_R0.189680.759
82_T124_V0.188820.756
16_L21_L0.186540.747
1_L67_I0.185480.742
98_T103_R0.185210.741
12_V45_I0.184150.737
1_L10_Y0.181590.727
87_V91_D0.181320.726
34_A40_G0.180990.724
13_V27_A0.179690.719
81_V84_V0.17870.715
29_F35_K0.176150.705
42_N103_R0.176010.704
84_V123_V0.17490.700
34_A37_G0.17420.697
111_P121_L0.173750.695
55_F108_T0.172340.690
69_L79_Y0.171760.687
1_L45_I0.170220.681
30_Y43_T0.169560.679
79_Y125_A0.169420.678
110_S120_R0.167630.671
42_N120_R0.166150.665
98_T101_D0.166140.665
1_L28_G0.165970.664
42_N45_I0.164730.659
36_P71_T0.164680.659
14_Q31_D0.164550.659
11_P54_M0.162650.651
29_F43_T0.162360.650
33_S36_P0.160090.641
14_Q71_T0.157530.630
4_P66_E0.156260.625
71_T74_G0.15590.624
31_D34_A0.155670.623
86_I110_S0.154750.619
2_Y66_E0.154350.618
49_N111_P0.153860.616
75_K80_R0.153480.614
13_V19_D0.153190.613
79_Y105_T0.152970.612
34_A43_T0.149320.598
87_V107_V0.149310.598
61_L64_G0.14840.594
79_Y104_L0.147860.592
20_N23_N0.147780.591
19_D23_N0.147640.591
79_Y102_R0.147620.591
59_N112_F0.147430.590
30_Y95_L0.147420.590
71_T77_Y0.147280.589
113_D117_T0.146760.587
48_H120_R0.146580.587
85_K93_D0.145860.584
9_D70_T0.144750.579
26_G45_I0.143140.573
32_G35_K0.142560.571
33_S95_L0.142020.568
63_K82_T0.141210.565
35_K102_R0.140320.562
2_Y76_T0.139560.559
30_Y107_V0.13930.557
26_G54_M0.138560.555
43_T71_T0.138170.553
47_G78_E0.136790.547
21_L120_R0.136640.547
57_N65_D0.136140.545
37_G102_R0.135320.542
81_V125_A0.134760.539
87_V94_V0.134760.539
53_A56_S0.134050.536
11_P50_G0.132830.532
39_S100_G0.132820.532
63_K84_V0.132630.531
51_G54_M0.132540.530
51_G112_F0.132260.529
87_V124_V0.132250.529
88_D93_D0.132080.529
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
3g66A0.95311000.075
4g1jA0.95311000.077
4g1hA0.95311000.078
3o0pA0.95311000.08
2xwgA0.95311000.082
2w1jA0.95311000.083
3rbjA0.95311000.084
3fn5A0.94531000.09
3rccA0.94531000.096
2w1kA0.96091000.099

Page generated in 0.0147 seconds.