GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Inhibitor_I29 - Cathepsin propeptide inhibitor domain (I29)
Pfam: PF08246 (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: 58
Sequences: 2111
Seq/Len: 36.4
HH_delta: -0.086 (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
5_K18_E1.503083.595
47_L51_S1.319863.157
22_F26_K1.119332.677
25_F47_L0.958942.294
31_R45_L0.866992.074
12_Y52_D0.829791.985
29_L33_E0.828811.983
10_K52_D0.729691.745
4_F25_F0.724131.732
1_F5_K0.706831.691
35_H45_L0.702951.681
32_I51_S0.695391.663
24_I54_T0.65351.563
2_E18_E0.629271.505
17_E21_R0.628521.503
4_F47_L0.609641.458
54_T57_E0.60451.446
29_L47_L0.580041.387
53_M58_F0.56241.345
35_H43_Y0.554851.327
32_I36_N0.5541.325
50_F58_F0.514071.230
20_R24_I0.512291.225
1_F12_Y0.505431.209
35_H41_N0.499071.194
21_R57_E0.494561.183
24_I28_N0.487391.166
32_I47_L0.477111.141
21_R24_I0.428211.024
15_A19_A0.399550.956
30_R34_E0.398310.953
4_F8_Y0.361190.864
3_Q7_K0.351780.841
2_E5_K0.341110.816
21_R54_T0.338740.810
31_R55_P0.335490.803
23_A34_E0.33130.792
46_G51_S0.326940.782
23_A27_E0.325620.779
6_K9_G0.320280.766
31_R35_H0.305110.730
36_N45_L0.29570.707
1_F18_E0.293350.702
28_N58_F0.290.694
3_Q11_S0.289680.693
20_R44_K0.289090.692
31_R51_S0.286480.685
48_N51_S0.286350.685
13_K26_K0.283840.679
41_N45_L0.282560.676
1_F22_F0.281490.673
48_N52_D0.277210.663
2_E6_K0.277060.663
27_E31_R0.276440.661
3_Q6_K0.27480.657
23_A26_K0.273980.655
38_N41_N0.271430.649
5_K15_A0.266690.638
28_N51_S0.266220.637
14_S17_E0.265850.636
24_I27_E0.262290.627
12_Y17_E0.259420.621
34_E38_N0.255690.612
6_K11_S0.255630.611
32_I48_N0.252990.605
13_K19_A0.251620.602
25_F29_L0.24930.596
1_F4_F0.248580.595
4_F10_K0.241660.578
15_A20_R0.240450.575
43_Y48_N0.239970.574
3_Q19_A0.237910.569
53_M57_E0.235920.564
16_E19_A0.234980.562
9_G19_A0.23390.559
20_R56_E0.233610.559
20_R27_E0.231980.555
4_F52_D0.231630.554
36_N48_N0.23120.553
13_K55_P0.230740.552
29_L32_I0.229190.548
13_K17_E0.226820.543
39_G42_T0.226370.541
21_R25_F0.226190.541
5_K12_Y0.224320.537
4_F28_N0.2160.517
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
3tnxA0.982899.5-0.086
3qj3A199.5-0.082
3qt4A199.5-0.072
3f75P0.982899.4-0.058
2c0yA199.4-0.02
1by8A199.4-0.019
2l95A0.982899.4-0.019
1cs8A0.982899.4-0.014
1pciA0.982899.3-0.009
2o6xA0.982899.30.004

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