GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Inhibitor_I36 - Peptidase inhibitor family I36
Pfam: PF03995 (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: CL0333
Length: 98
Sequences: 1183
Seq/Len: 12.07
HH_delta: 0.167 (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
11_C24_Q0.303291.807
53_C66_Y0.295211.759
25_W89_H0.287621.714
42_R84_G0.270761.613
9_Y24_Q0.264781.578
15_G42_R0.264361.575
33_L89_H0.26361.570
54_L67_G0.263051.567
42_R83_N0.260411.551
31_P60_Y0.259061.543
54_L86_V0.248951.483
12_L41_A0.246721.470
53_C64_G0.246261.467
11_C47_N0.24351.451
15_G84_G0.243331.450
51_R66_Y0.240811.435
12_L25_W0.23731.414
38_N57_D0.235981.406
65_Y78_Y0.232091.383
46_N50_R0.230951.376
11_C22_R0.221431.319
56_Q63_R0.218261.300
18_Y67_G0.217531.296
55_Y64_G0.208451.242
60_Y91_F0.207351.235
39_N87_S0.203651.213
52_V91_F0.197291.175
15_G19_T0.196421.170
62_G88_S0.195181.163
51_R68_S0.194461.159
65_Y81_D0.191171.139
44_Y54_L0.190551.135
13_W82_L0.184831.101
14_S40_N0.183851.095
38_N87_S0.182851.089
11_C45_W0.180441.075
19_T86_V0.178751.065
56_Q85_T0.178111.061
39_N76_D0.174661.041
10_F46_N0.174161.038
15_G83_N0.169481.010
17_N41_A0.168861.006
57_D61_T0.16811.002
31_P59_N0.168041.001
29_S90_K0.167981.001
32_N35_A0.167220.996
57_D85_T0.166590.993
30_V60_Y0.166130.990
13_W46_N0.165610.987
53_C92_V0.163730.975
12_L23_I0.162140.966
84_G93_R0.160360.955
39_N84_G0.160230.955
58_A87_S0.160170.954
49_G69_A0.156720.934
52_V60_Y0.155910.929
39_N42_R0.155110.924
14_S24_Q0.154340.920
39_N85_T0.152460.908
10_F67_G0.151680.904
19_T85_T0.151550.903
53_C68_S0.150670.898
34_G54_L0.150190.895
41_A86_V0.149880.893
57_D63_R0.149660.892
52_V67_G0.147780.880
24_Q50_R0.147370.878
54_L68_S0.145920.869
11_C46_N0.145320.866
12_L89_H0.14510.864
74_R78_Y0.145020.864
38_N42_R0.144830.863
31_P34_G0.143920.857
16_T19_T0.143760.856
15_G39_N0.141280.842
60_Y88_S0.140620.838
10_F45_W0.140570.837
18_Y50_R0.140280.836
55_Y75_G0.139970.834
39_N57_D0.139680.832
15_G49_G0.139140.829
23_I37_M0.139020.828
58_A61_T0.138640.826
66_Y93_R0.138190.823
53_C71_P0.138060.823
52_V89_H0.13790.822
10_F89_H0.137510.819
13_W43_S0.136460.813
57_D87_S0.136380.813
72_V92_V0.136030.810
57_D64_G0.135970.810
28_N35_A0.134570.802
19_T84_G0.134250.800
19_T27_G0.133510.795
77_L91_F0.133060.793
28_N31_P0.132430.789
42_R75_G0.132180.788
75_G78_Y0.131820.785
35_A84_G0.131670.784
36_Y39_N0.130190.776
42_R78_Y0.129760.773
55_Y87_S0.128790.767
56_Q62_G0.128240.764
47_N69_A0.128230.764
43_S46_N0.128090.763
37_M41_A0.127590.760
40_N93_R0.12680.755
25_W46_N0.126390.753
15_G63_R0.126290.752
60_Y90_K0.125550.748
82_L86_V0.124960.744
52_V90_K0.123820.738
56_Q78_Y0.123780.737
51_R71_P0.123380.735
73_P77_L0.123270.734
75_G81_D0.122760.731
77_L81_D0.122570.730
74_R83_N0.122520.730
36_Y41_A0.121970.727
14_S21_R0.121970.727
34_G76_D0.121880.726
23_I36_Y0.121580.724
14_S18_Y0.121020.721
14_S42_R0.12050.718
38_N54_L0.120480.718
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
3hz2A0.857199.70.167
1ha4A0.877699.70.182
4fd9A0.887899.70.192
2bv2A0.836799.70.196
1h4aX0.887899.70.199
1zwmA0.918499.70.209
2jdgA0.89899.70.209
1bd7A0.908299.60.215
2dadA0.94999.60.218
1zwmA0.928699.60.219

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