GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF3596 - Domain of unknown function (DUF3596)
Pfam: PF12167 (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: CL0081
Length: 64
Sequences: 357
Seq/Len: 5.58
HH_delta: 0.83 (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
30_D35_R0.480883.005
5_R12_R0.394122.463
48_E59_Y0.332942.080
42_R46_E0.298311.864
24_E56_Y0.245271.532
26_L38_A0.243241.520
55_D58_K0.232051.450
11_L30_D0.231831.448
56_Y60_F0.226891.418
11_L35_R0.225271.408
7_R12_R0.222921.393
5_R14_D0.221871.386
41_L44_E0.217431.359
4_V11_L0.210491.315
36_K39_E0.202781.267
48_E58_K0.200321.252
14_D21_R0.197011.231
39_E43_A0.195671.223
30_D34_N0.194251.214
47_A50_A0.188541.178
44_E47_A0.187781.173
24_E60_F0.18251.140
10_K51_L0.178721.117
47_A51_L0.177321.108
14_D23_R0.175751.098
13_I27_G0.174541.091
19_G49_I0.174491.090
44_E59_Y0.17371.085
13_I42_R0.171511.072
48_E55_D0.171441.071
17_Y20_K0.167141.044
19_G40_R0.166431.040
29_P44_E0.166281.039
15_F56_Y0.161311.008
6_V9_G0.156670.979
22_C56_Y0.156390.977
50_A59_Y0.154750.967
4_V38_A0.153620.960
6_V30_D0.151880.949
23_R54_F0.150040.937
28_L40_R0.146240.914
6_V35_R0.145310.908
4_V12_R0.140850.880
13_I48_E0.139790.873
44_E48_E0.138450.865
17_Y54_F0.136690.854
21_R60_F0.135630.847
56_Y59_Y0.135310.845
31_T57_A0.134530.841
4_V13_I0.131660.823
6_V14_D0.128830.805
40_R44_E0.12380.774
22_C54_F0.123150.769
21_R46_E0.122690.767
17_Y45_I0.121320.758
21_R56_Y0.121270.758
35_R55_D0.119970.750
17_Y56_Y0.119740.748
34_N37_K0.119590.747
53_T57_A0.119490.747
10_K30_D0.117380.733
33_A39_E0.115370.721
9_G12_R0.11530.720
22_C49_I0.115280.720
43_A47_A0.115150.719
15_F22_C0.115130.719
3_G38_A0.114970.718
9_G16_T0.114530.716
31_T34_N0.11440.715
7_R23_R0.114260.714
11_L34_N0.112870.705
22_C48_E0.112620.704
29_P50_A0.112490.703
14_D34_N0.111240.695
8_N49_I0.110940.693
15_F18_Q0.110050.688
45_I58_K0.109830.686
35_R38_A0.10860.679
3_G16_T0.108550.678
13_I18_Q0.108260.676
23_R60_F0.107880.674
10_K37_K0.10760.672
33_A52_G0.10740.671
5_R25_S0.107370.671
37_K44_E0.106290.664
12_R25_S0.106280.664
40_R45_I0.105540.659
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
3jtzA0.953152.50.83
1z1bA0.8906480.834
3ju0A0.968842.60.839
3tqdA0.6406150.87
3k8dA0.656213.20.872
1i17A113.10.872
3a54A0.937511.30.876
3tqnA0.57819.80.879
3bwgA0.51568.40.883
2d07B0.68758.20.883
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