GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MoeA_C - MoeA C-terminal region (domain IV)
Pfam: PF03454 (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: 72
Sequences: 2481
Seq/Len: 34.46
HH_delta: 0.017 (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
1_K68_E1.290783.154
15_T53_V1.235493.018
1_K66_E1.118432.732
7_D62_E1.08382.648
15_T56_E0.996622.435
62_E65_E0.963632.354
7_D63_A0.91782.242
3_R28_E0.911722.227
20_V50_G0.872212.131
2_A69_V0.846882.069
4_L61_L0.776351.897
50_G69_V0.735311.796
2_A31_V0.710791.737
20_V52_I0.680941.664
3_R66_E0.626261.530
5_A32_E0.616691.507
23_E32_E0.61191.495
5_A30_V0.602311.472
52_I67_V0.563971.378
17_F53_V0.558721.365
48_A72_L0.555321.357
21_R49_N0.52561.284
20_V31_V0.517841.265
51_L72_L0.51671.262
2_A22_L0.497561.216
58_V65_E0.487271.190
3_R30_V0.480141.173
36_S41_M0.479931.173
19_R37_Q0.462941.131
9_K60_G0.439831.075
41_M44_S0.427951.046
10_K54_I0.409361.000
22_L50_G0.408610.998
21_R47_R0.403590.986
21_R32_E0.396220.968
23_E30_V0.394550.964
22_L69_V0.390650.954
55_P58_V0.389950.953
4_L8_I0.376040.919
10_K16_E0.368140.899
14_R39_S0.367540.898
6_E63_A0.361950.884
13_G57_G0.361460.883
42_L45_L0.354060.865
31_V50_G0.345510.844
6_E33_P0.342970.838
61_L65_E0.334070.816
58_V61_L0.324290.792
7_D60_G0.317820.776
16_E19_R0.317450.776
20_V49_N0.315370.770
12_P59_E0.309560.756
37_Q41_M0.303870.742
34_L41_M0.302590.739
53_V68_E0.299160.731
22_L31_V0.294420.719
18_L33_P0.293130.716
50_G72_L0.292860.715
13_G59_E0.292090.714
22_L49_N0.287950.703
43_S46_A0.28630.699
8_I52_I0.279670.683
3_R64_G0.279090.682
51_L70_I0.277370.678
19_R44_S0.275720.674
54_I61_L0.274520.671
11_K58_V0.271290.663
10_K58_V0.269190.658
28_E66_E0.269190.658
14_R17_F0.268950.657
5_A23_E0.265180.648
53_V70_I0.262090.640
61_L67_V0.259450.634
31_V69_V0.257850.630
33_P52_I0.256290.626
38_G41_M0.253440.619
34_L48_A0.253410.619
38_G44_S0.252680.617
16_E40_G0.252310.616
14_R37_Q0.24890.608
15_T55_P0.247310.604
66_E71_L0.245690.600
5_A63_A0.243490.595
37_Q44_S0.237780.581
43_S47_R0.235270.575
20_V67_V0.234140.572
17_F70_I0.232250.567
19_R41_M0.232030.567
1_K28_E0.23090.564
6_E32_E0.230010.562
40_G44_S0.228860.559
42_L51_L0.228360.558
34_L44_S0.227160.555
35_G57_G0.226070.552
40_G45_L0.223990.547
11_K57_G0.219260.536
6_E9_K0.218930.535
10_K13_G0.217450.531
8_I16_E0.216630.529
45_L48_A0.212540.519
11_K16_E0.206020.503
11_K15_T0.205230.501
11_K59_E0.202920.496
1_K5_A0.199980.489
69_V72_L0.195730.478
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
1g8lA199.20.017
1wu2A0.944499.10.072
1uz5A0.9306990.092
2ftsA0.986198.90.115
4i86A0.84729.60.825
1ywuA0.94448.10.83
2rdeA0.94446.40.837
3vbbA0.97225.50.842
3kyfA0.97225.30.843
3cw2C0.80564.90.845

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