GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FCH - FesCIP4 and EFCF-BAR homology domain
Pfam: PF00611 (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: 91
Sequences: 949
Seq/Len: 10.43
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
35_R39_E0.457493.249
41_E45_S0.31182.215
38_L49_L0.291882.073
31_F49_L0.252341.792
39_E42_Y0.233831.661
38_L45_S0.232671.653
55_K59_S0.221781.575
84_H87_L0.217211.543
39_E46_L0.207511.474
25_L32_F0.206651.468
59_S62_E0.205291.458
11_F15_F0.203951.449
76_E87_L0.192891.370
43_A81_A0.188421.338
35_R42_Y0.182171.294
34_E52_K0.181071.286
26_E30_S0.180661.283
48_K52_K0.18021.280
45_S70_W0.179691.276
31_F53_F0.177191.259
10_G15_F0.171021.215
19_K48_K0.168561.197
77_T80_I0.168431.196
79_Q85_S0.163761.163
86_K90_N0.161741.149
11_F16_K0.16161.148
82_E85_S0.161341.146
43_A85_S0.15441.097
30_S83_Q0.154161.095
10_G14_L0.148671.056
17_R21_G0.147561.048
53_F74_L0.146971.044
9_D13_V0.144241.025
11_F34_E0.143381.018
45_S48_K0.141911.008
33_K37_S0.140620.999
36_A87_L0.14030.997
17_R24_L0.13830.982
68_N72_S0.138080.981
10_G24_L0.138030.980
87_L91_L0.137740.978
15_F41_E0.137580.977
20_Q65_T0.136740.971
86_K89_E0.136590.970
75_E78_E0.135990.966
34_E38_L0.135530.963
79_Q82_E0.135430.962
68_N90_N0.135270.961
47_Q78_E0.135260.961
68_N71_D0.135080.959
72_S86_K0.134760.957
26_E87_L0.134610.956
28_L70_W0.134550.956
34_E49_L0.133870.951
15_F26_E0.133250.946
34_E37_S0.132690.942
47_Q81_A0.131330.933
43_A88_A0.130870.930
59_S72_S0.130750.929
10_G84_H0.130310.926
23_K89_E0.130040.924
39_E84_H0.130030.924
23_K83_Q0.12910.917
70_W80_I0.127630.907
30_S80_I0.12670.900
29_A36_A0.12570.893
43_A49_L0.125070.888
71_D76_E0.123290.876
50_A56_K0.12290.873
32_F45_S0.122110.867
20_Q63_Y0.12160.864
53_F56_K0.121490.863
28_L83_Q0.12080.858
12_E16_K0.120170.854
9_D56_K0.117890.837
17_R31_F0.11750.835
27_E74_L0.117420.834
25_L67_K0.116970.831
61_Q68_N0.116760.829
36_A43_A0.116040.824
13_V16_K0.114710.815
21_G38_L0.113970.810
9_D53_F0.113860.809
42_Y49_L0.113570.807
37_S47_Q0.111720.794
49_L53_F0.111450.792
26_E44_K0.111070.789
33_K65_T0.110940.788
83_Q86_K0.11090.788
31_F77_T0.110570.785
69_A84_H0.110560.785
46_L73_L0.110550.785
68_N86_K0.110060.782
43_A50_A0.110.781
77_T91_L0.109890.781
16_K23_K0.10980.780
66_L69_A0.109440.777
21_G25_L0.10890.773
67_K74_L0.108590.771
36_A88_A0.108050.767
37_S44_K0.107870.766
67_K75_E0.107780.766
36_A50_A0.107760.765
34_E47_Q0.107620.764
29_A40_E0.107430.763
34_E45_S0.107360.763
40_E44_K0.107270.762
14_L40_E0.107110.761
54_K62_E0.107110.761
33_K70_W0.106710.758
37_S50_A0.10620.754
24_L27_E0.105290.748
29_A32_F0.104970.746
10_G74_L0.104730.744
51_K78_E0.104470.742
24_L70_W0.10380.737
82_E88_A0.103630.736
42_Y67_K0.103430.735
61_Q90_N0.102830.730
57_M68_N0.102770.730
30_S37_S0.102590.729
75_E90_N0.102390.727
11_F31_F0.102240.726
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
3acoA0.97899.70.017
3abhA0.97899.70.018
3m3wA0.97899.70.02
2x3vA0.97899.70.039
4dylA199.70.041
3i2wA0.97899.70.043
3hajA0.97899.70.045
2v0oA0.95699.70.077
2eflA199.60.11
2efkA0.95699.60.145

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