GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CHB_HEX_C - Chitobiasebeta-hexosaminidase C-terminal domain
Pfam: PF03174 (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: CL0159
Length: 75
Sequences: 914
Seq/Len: 12.19
HH_delta: 0.489 (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
28_T44_L0.632262.640
39_T42_S0.583872.438
32_T38_P0.503112.101
30_Y62_F0.49012.046
5_A20_L0.473641.978
12_Y16_Q0.468791.957
63_D67_N0.467631.952
63_D66_G0.432871.807
30_Y44_L0.42751.785
20_L29_I0.423051.766
30_Y43_P0.395561.652
45_Y48_P0.377531.576
60_R69_S0.372961.557
12_Y15_G0.372851.557
30_Y42_S0.363881.519
37_E71_V0.362731.514
24_T27_A0.346771.448
22_S27_A0.340051.420
17_T50_T0.327161.366
32_T35_G0.317881.327
49_I57_V0.317181.324
17_T48_P0.313661.310
7_P10_G0.307391.283
27_A61_A0.307131.282
29_I61_A0.296721.239
60_R68_V0.288011.203
34_D38_P0.281741.176
38_P42_S0.281641.176
29_I59_A0.280081.169
24_T63_D0.273571.142
40_K62_F0.268861.123
20_L59_A0.265341.108
37_E58_K0.263871.102
31_Y45_Y0.263411.100
24_T65_G0.25671.072
5_A49_I0.25531.066
58_K71_V0.254111.061
32_T42_S0.252211.053
30_Y60_R0.242081.011
32_T58_K0.241041.006
19_T45_Y0.240371.004
32_T36_S0.234180.978
4_T21_S0.234120.978
5_A59_A0.229780.959
18_V57_V0.228250.953
29_I45_Y0.22740.949
38_P58_K0.22730.949
6_S9_S0.223790.934
35_G38_P0.222740.930
37_E42_S0.218710.913
51_I55_G0.217360.908
15_G53_E0.210210.878
23_D26_G0.206940.864
5_A9_S0.204920.856
61_A69_S0.200240.836
47_G50_T0.199740.834
15_G52_P0.193520.808
22_S29_I0.19320.807
21_S24_T0.18670.780
37_E60_R0.179740.750
7_P16_Q0.177780.742
11_T33_L0.174370.728
6_S49_I0.173430.724
52_P55_G0.171820.717
12_Y54_S0.171380.716
18_V27_A0.166810.696
6_S47_G0.165720.692
69_S72_V0.16450.687
22_S61_A0.161980.676
28_T71_V0.160580.670
15_G50_T0.160240.669
33_L57_V0.160230.669
51_I54_S0.159440.666
14_E53_E0.157550.658
18_V49_I0.156610.654
36_S42_S0.156070.652
8_P25_P0.155650.650
30_Y40_K0.155180.648
18_V59_A0.154640.646
5_A18_V0.153970.643
34_D42_S0.15310.639
14_E56_T0.152240.636
31_Y49_I0.151820.634
28_T64_N0.151290.632
14_E17_T0.148940.622
9_S16_Q0.148920.622
19_T56_T0.147150.614
27_A63_D0.144860.605
41_S70_E0.142790.596
39_T43_P0.142330.594
38_P71_V0.140830.588
24_T66_G0.140110.585
7_P21_S0.139970.584
65_G68_V0.138690.579
16_Q54_S0.135670.566
22_S59_A0.135460.566
19_T23_D0.13530.565
46_T64_N0.135230.565
49_I72_V0.134840.563
26_G52_P0.133530.558
59_A72_V0.133370.557
42_S62_F0.132160.552
4_T9_S0.131850.551
4_T8_P0.130820.546
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
1c7sA0.933398.20.489
1e07A175.60.784
1e07A174.80.784
3ejjX0.986766.50.796
1z7zI0.973361.10.803
2oz4A0.973353.70.812
3mjgX153.60.812
2vsdA152.80.812
4hwnA152.10.813
2v5mA151.70.814

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