GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DEP - Domain found in Dishevelled Egl-10 and Pleckstrin (DEP)
Pfam: PF00610 (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: 74
Sequences: 1046
Seq/Len: 14.14
HH_delta: 0.005 (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
38_R66_D0.965864.889
18_F23_A0.472122.390
25_D38_R0.418852.120
46_Q50_D0.368521.866
20_G24_V0.361511.830
18_F54_I0.358221.813
56_H70_S0.357951.812
20_G72_Y0.351311.778
8_R11_L0.289741.467
6_D15_P0.272611.380
15_P59_D0.260541.319
42_V64_F0.258931.311
67_S70_S0.257871.305
14_Y57_V0.256761.300
6_D13_T0.251961.276
59_D65_K0.249651.264
28_M35_V0.247371.252
40_E59_D0.245131.241
7_R17_C0.242951.230
24_V42_V0.234091.185
21_S29_D0.228071.155
35_V41_A0.2191.109
9_K12_K0.214041.084
55_E73_R0.21221.074
56_H61_S0.205911.042
19_T22_E0.204641.036
9_K14_Y0.202561.025
56_H59_D0.200871.017
35_V39_E0.196250.993
21_S28_M0.194560.985
57_V71_L0.188020.952
44_L74_F0.185060.937
55_E59_D0.183130.927
23_A28_M0.182610.924
17_C71_L0.17790.901
8_R12_K0.17760.899
23_A45_G0.177550.899
16_N53_F0.176470.893
19_T69_N0.175410.888
35_V44_L0.173560.879
21_S25_D0.172510.873
44_L60_K0.171580.869
8_R15_P0.169780.859
28_M39_E0.166890.845
29_D42_V0.166230.842
7_R22_E0.166160.841
25_D66_D0.164720.834
40_E43_Q0.164620.833
4_I7_R0.16430.832
51_H63_Q0.163670.829
23_A26_W0.163350.827
43_Q67_S0.162130.821
47_E67_S0.162090.821
9_K71_L0.161190.816
20_G45_G0.160730.814
45_G64_F0.159740.809
53_F74_F0.157990.800
15_P60_K0.157540.798
49_L54_I0.157080.795
10_R14_Y0.154040.780
41_A45_G0.1540.780
64_F72_Y0.152850.774
10_R37_D0.152740.773
9_K57_V0.152530.772
27_L49_L0.15250.772
67_S73_R0.15170.768
9_K44_L0.150890.764
24_V37_D0.149570.757
43_Q51_H0.149440.757
35_V49_L0.148630.752
66_D72_Y0.147180.745
23_A35_V0.146140.740
46_Q63_Q0.14320.725
47_E51_H0.143140.725
5_K8_R0.141830.718
25_D44_L0.140490.711
4_I73_R0.140470.711
17_C37_D0.14010.709
43_Q53_F0.139630.707
36_R52_G0.139310.705
46_Q64_F0.13890.703
15_P63_Q0.138330.700
10_R55_E0.137540.696
41_A48_L0.136720.692
36_R44_L0.136560.691
35_V57_V0.136120.689
25_D28_M0.135780.687
61_S70_S0.13560.686
5_K16_N0.135040.684
8_R16_N0.134030.679
56_H74_F0.133930.678
24_V28_M0.133510.676
22_E29_D0.133490.676
45_G48_L0.133060.674
16_N38_R0.13260.671
40_E49_L0.132420.670
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
2ysrA0.986599.70.005
1v3fA0.959599.70.006
1uhwA0.959599.70.026
2csoA0.959599.70.036
3ml6A0.945999.70.045
1fshA0.945999.70.048
2pbiA0.945999.60.053
4f7zA0.959594.90.712
1o7fA0.959592.40.74
1ukuA0.554178.50.789

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