GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1330 - Protein of unknown function (DUF1330)
Pfam: PF07045 (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: CL0032
Length: 65
Sequences: 993
Seq/Len: 15.28
HH_delta: -0.004 (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
21_R45_E1.398815.165
48_S51_A0.923353.410
17_K60_E0.809882.991
50_E54_A0.71972.658
15_L20_G0.581812.148
14_I55_W0.566722.093
10_A64_L0.503391.859
5_Q9_E0.476131.758
5_Q8_R0.451351.667
30_E53_K0.437611.616
2_E5_Q0.428551.583
53_K57_N0.422431.560
49_M53_K0.410891.517
3_A6_E0.404891.495
12_P16_E0.398871.473
6_E9_E0.355131.311
11_V64_L0.344091.271
21_R47_P0.334121.234
11_V14_I0.328321.212
46_F55_W0.321771.188
17_K58_S0.316481.169
15_L44_I0.313071.156
47_P51_A0.304551.125
19_G51_A0.302061.115
14_I64_L0.299351.105
33_E56_Y0.29331.083
10_A63_A0.290541.073
51_A54_A0.290041.071
18_Y58_S0.289121.068
8_R41_V0.274131.012
24_A43_I0.271581.003
38_P41_V0.269120.994
26_G29_P0.265520.980
35_D50_E0.252770.933
13_P16_E0.249040.920
7_Y61_Y0.238680.881
48_S54_A0.234280.865
24_A52_A0.232630.859
29_P41_V0.232510.859
20_G25_R0.231470.855
46_F56_Y0.229310.847
23_L45_E0.228580.844
52_A56_Y0.217550.803
22_V25_R0.21690.801
4_Y40_R0.216690.800
11_V25_R0.216520.800
7_Y42_V0.212950.786
31_V36_W0.205090.757
8_R12_P0.203270.751
25_R40_R0.203180.750
28_E49_M0.197280.729
32_L57_N0.196160.724
47_P54_A0.195710.723
56_Y61_Y0.191650.708
33_E52_A0.188440.696
58_S61_Y0.185680.686
8_R44_I0.182410.674
54_A57_N0.182350.673
57_N62_Q0.178240.658
12_P22_V0.176490.652
44_I55_W0.173410.640
35_D57_N0.173410.640
27_G40_R0.172830.638
59_P63_A0.172650.638
31_V57_N0.172280.636
6_E10_A0.172210.636
14_I17_K0.171930.635
27_G33_E0.170480.630
24_A33_E0.169780.627
11_V22_V0.169730.627
30_E33_E0.167880.620
4_Y42_V0.167370.618
7_Y43_I0.166970.617
11_V15_L0.166070.613
26_G45_E0.165310.610
32_L49_M0.164140.606
23_L43_I0.163710.605
37_D41_V0.163670.604
23_L40_R0.162410.600
29_P35_D0.162020.598
20_G64_L0.15580.575
50_E59_P0.155350.574
11_V24_A0.155330.574
27_G34_G0.154590.571
42_V61_Y0.15430.570
61_Y64_L0.152770.564
27_G49_M0.1520.561
48_S63_A0.151080.558
29_P36_W0.15030.555
6_E38_P0.149460.552
35_D38_P0.148970.550
7_Y55_W0.148090.547
31_V34_G0.147630.545
38_P55_W0.145060.536
33_E46_F0.144610.534
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
3hhlA199.6-0.004
3lo3A0.984699.60.002
2fiuA0.984699.50.075
1vqsA0.938597.10.606
1vqyA0.9385970.609
3tvzA0.923192.10.718
1tz0A0.907788.70.739
2pgcA0.953887.60.743
3kg0A0.923187.40.744
1iujA0.923187.30.744

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