GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MoeZ_MoeB - MoeZMoeB domain
Pfam: PF05237 (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: 84
Sequences: 2154
Seq/Len: 25.64
HH_delta: 0.147 (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
55_K68_S1.186363.925
5_C8_C1.160293.838
40_E43_K1.106383.660
5_C77_C1.018383.369
36_L66_F0.851222.816
8_C77_C0.707852.342
4_P54_G0.694472.297
44_L51_P0.672982.226
28_P39_N0.658812.179
32_I59_I0.521541.725
34_G38_A0.483441.599
39_N59_I0.480311.589
32_I36_L0.465731.541
39_N61_L0.444061.469
31_G34_G0.443851.468
65_S68_S0.435491.441
26_L39_N0.432391.430
59_I64_M0.41481.372
30_V35_S0.408571.352
59_I66_F0.406851.346
15_E18_P0.403651.335
18_P23_A0.394741.306
57_L66_F0.375431.242
31_G35_S0.367931.217
46_L62_L0.367271.215
7_R79_V0.362321.199
73_K77_C0.360581.193
20_C24_G0.353031.168
58_T69_I0.347321.149
25_V30_V0.346091.145
48_I62_L0.343011.135
52_L57_L0.332631.100
29_V61_L0.331821.098
58_T67_R0.323881.071
49_G62_L0.2960.979
18_P22_E0.290160.960
4_P8_C0.288410.954
41_A45_L0.287870.952
36_L57_L0.282260.934
20_C25_V0.27510.910
39_N42_I0.271810.899
52_L64_M0.266040.880
19_T23_A0.264560.875
57_L64_M0.262350.868
33_I37_Q0.260940.863
33_I59_I0.260620.862
48_I51_P0.259440.858
3_T23_A0.256520.849
19_T22_E0.253540.839
44_L53_S0.249150.824
40_E52_L0.248890.823
32_I35_S0.24330.805
55_K70_R0.242030.801
57_L68_S0.241520.799
28_P35_S0.238390.789
3_T53_S0.23730.785
60_D63_N0.234380.775
31_G38_A0.22970.760
25_V29_V0.229580.759
13_P16_S0.228650.756
50_E55_K0.226170.748
40_E57_L0.221320.732
2_K73_K0.21480.711
4_P71_I0.214420.709
35_S39_N0.212930.704
7_R13_P0.212170.702
40_E55_K0.211050.698
50_E63_N0.210820.697
13_P17_A0.207850.688
11_P74_N0.207810.687
20_C23_A0.20780.687
36_L39_N0.206690.684
42_I46_L0.204210.676
9_L71_I0.198090.655
7_R27_G0.19710.652
5_C71_I0.195980.648
7_R12_E0.194870.645
10_F56_L0.194420.643
50_E68_S0.191650.634
2_K78_P0.19140.633
17_A23_A0.191120.632
20_C30_V0.190530.630
15_E78_P0.190350.630
26_L48_I0.189320.626
35_S38_A0.187650.621
7_R78_P0.18610.616
58_T61_L0.185720.614
36_L64_M0.185350.613
53_S73_K0.18520.613
52_L55_K0.185010.612
2_K33_I0.183080.606
6_Y21_A0.181730.601
12_E27_G0.181010.599
75_P78_P0.179830.595
15_E20_C0.179710.594
46_L51_P0.177570.587
21_A30_V0.177420.587
9_L56_L0.176940.585
29_V35_S0.176860.585
12_E15_E0.175950.582
8_C45_L0.175780.581
13_P42_I0.174820.578
58_T63_N0.174740.578
72_K76_D0.174420.577
17_A20_C0.173880.575
41_A44_L0.173040.572
2_K53_S0.170930.565
6_Y23_A0.170530.564
26_L61_L0.170370.564
34_G40_E0.167090.553
14_P18_P0.1670.552
6_Y34_G0.166980.552
67_R70_R0.164960.546
3_T26_L0.164380.544
46_L49_G0.16360.541
5_C79_V0.163070.539
28_P61_L0.162730.538
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
3h8vA0.976299.70.147
3h5nA199.70.161
1jw9B0.976299.60.221
1zud10.988199.60.23
3ruiA199.50.273
4gslA199.50.277
3vh1A199.40.328
1tt5B0.988199.30.38
2nvuB0.988199.30.385
1y8qA0.845297.40.681

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