GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Histone - Core histone H2AH2BH3H4
Pfam: PF00125 (v26) Consensus Sequence
Clan: CL0012
Length: 75
Sequences: 2068
Seq/Len: 27.57
HH_delta: 0.091 (11Mar13)
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
60_R67_D0.659332.912
52_G63_I0.558422.467
65_P69_Q0.397521.756
44_L48_L0.396721.752
51_A63_I0.394711.743
66_R70_L0.368151.626
42_Y46_E0.360981.594
58_A70_L0.326721.443
10_P13_R0.322881.426
51_A68_I0.314721.390
15_V19_R0.29821.317
9_F12_S0.297671.315
55_A63_I0.29741.314
15_V68_I0.295451.305
50_D71_A0.282791.249
50_D53_N0.277871.227
33_L37_Q0.277631.226
54_Y57_H0.27391.210
34_V37_Q0.263641.164
57_H70_L0.262731.160
54_Y67_D0.261191.154
10_P27_R0.260181.149
47_I71_A0.258221.141
69_Q73_R0.252241.114
58_A73_R0.247321.092
28_I46_E0.246391.088
12_S28_I0.242721.072
40_L46_E0.24041.062
29_S32_A0.236091.043
30_S33_L0.234971.038
21_E28_I0.232611.027
10_P17_E0.230751.019
67_D70_L0.23021.017
57_H73_R0.225630.997
16_R27_R0.222290.982
58_A63_I0.219340.969
40_L43_F0.21820.964
47_I51_A0.214050.945
51_A71_A0.213270.942
42_Y49_E0.212920.940
34_V40_L0.2110.932
7_P19_R0.208740.922
38_A45_E0.207870.918
12_S46_E0.206520.912
14_V21_E0.206440.912
10_P19_R0.20630.911
14_V69_Q0.200660.886
12_S16_R0.199170.880
53_N56_R0.197580.873
67_D71_A0.197010.870
54_Y58_A0.195570.864
21_E72_I0.193430.854
47_I72_I0.192480.850
31_E72_I0.191840.847
30_S49_E0.186590.824
46_E50_D0.182820.808
9_F13_R0.182690.807
60_R63_I0.182550.806
37_Q41_E0.182080.804
6_I11_F0.18090.799
57_H66_R0.180790.799
39_V42_Y0.180330.797
54_Y71_A0.180210.796
46_E49_E0.179980.795
15_V33_L0.179960.795
19_R28_I0.179190.791
13_R16_R0.178970.791
31_E59_K0.178290.787
10_P41_E0.176580.780
52_G56_R0.175750.776
21_E31_E0.175160.774
51_A64_T0.174410.770
62_T67_D0.174330.770
31_E36_L0.173810.768
17_E33_L0.173690.767
38_A42_Y0.173680.767
31_E34_V0.173650.767
68_I71_A0.171030.755
54_Y70_L0.170230.752
15_V18_I0.168150.743
35_A38_A0.167890.742
47_I50_D0.167810.741
37_Q45_E0.167130.738
10_P15_V0.166640.736
18_I33_L0.165880.733
11_F37_Q0.165120.729
43_F61_K0.164230.725
63_I71_A0.163420.722
41_E45_E0.162690.719
27_R44_L0.161020.711
20_K65_P0.16040.708
36_L44_L0.160390.708
13_R61_K0.159990.707
8_K12_S0.159970.707
31_E60_R0.158640.701
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
4g92C0.986799.20.091
1jfiA0.986799.20.092
3r45A199.20.109
2bykA0.986799.20.11
1n1jB0.986799.20.115
3nquA199.20.118
1tzyC199.20.12
2yfvA199.20.126
1f1eA0.933399.10.134
2hueB0.973399.10.156

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