GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FBA_1 - F-box associated
Pfam: PF07734 (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. )
Clan: CL0162
Length: 164
Sequences: 1273
Seq/Len: 7.76
HH_delta: 0.864 (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
26_F33_F0.213792.225
9_H80_Y0.203852.122
117_K138_G0.171191.782
26_F31_E0.15121.574
65_Q95_L0.150521.567
10_W26_F0.1451.509
23_I75_W0.1381.436
5_N8_L0.13731.429
73_E89_K0.132331.377
77_M91_F0.131491.369
109_S113_D0.131291.367
3_F8_L0.129361.347
62_V136_I0.127541.328
23_I41_F0.126821.320
117_K121_C0.122911.279
10_W33_F0.122841.279
89_K92_T0.122661.277
113_D117_K0.122251.273
27_D30_T0.121821.268
123_D133_K0.120611.255
77_M85_E0.120521.255
32_K74_I0.120251.252
145_E148_I0.119271.242
5_N9_H0.119151.240
84_K92_T0.119141.240
13_Y98_L0.1181.228
38_P93_I0.117891.227
25_S28_L0.117421.222
24_L51_S0.115741.205
5_N114_E0.11381.185
7_A77_M0.110841.154
117_K139_E0.109471.139
44_D96_P0.109241.137
24_L35_R0.109031.135
10_W86_S0.108211.126
11_L60_L0.10771.121
39_L62_V0.107121.115
4_V61_C0.106981.114
42_C50_V0.106711.111
78_K81_G0.106151.105
48_D72_I0.105181.095
37_L41_F0.104981.093
55_V59_C0.104541.088
35_R47_D0.104511.088
65_Q70_S0.103681.079
135_Y138_G0.103541.078
93_I100_S0.103431.077
63_L73_E0.103381.076
33_F138_G0.103071.073
36_S42_C0.102861.071
63_L116_K0.102371.066
23_I134_I0.101651.058
32_K93_I0.101521.057
124_K147_D0.101281.054
50_V64_Y0.101031.052
132_N135_Y0.100561.047
65_Q121_C0.100531.046
119_L133_K0.100361.045
9_H26_F0.099251.033
60_L93_I0.098891.029
16_N67_D0.098321.023
118_V121_C0.096761.007
26_F81_G0.096651.006
98_L121_C0.095880.998
3_F6_G0.095840.998
65_Q72_I0.095530.994
14_D108_P0.095250.991
42_C62_V0.095170.991
59_C80_Y0.094760.986
63_L76_V0.094330.982
55_V61_C0.094330.982
72_I120_V0.094080.979
76_V112_I0.094060.979
2_V66_C0.093530.974
6_G116_K0.09330.971
94_D120_V0.093120.969
96_P99_P0.0930.968
9_H25_S0.092490.963
93_I101_L0.092430.962
4_V23_I0.092310.961
26_F116_K0.09180.956
12_A27_D0.091740.955
57_G117_K0.091660.954
93_I97_P0.091280.950
143_F147_D0.091070.948
9_H85_E0.091060.948
99_P123_D0.090770.945
37_L42_C0.090630.943
72_I100_S0.090560.943
6_G62_V0.090480.942
31_E116_K0.090.937
24_L144_I0.089970.937
64_Y116_K0.089770.934
101_L124_K0.089710.934
10_W141_G0.089430.931
51_S114_E0.089250.929
40_P118_V0.089210.929
25_S90_L0.088910.925
7_A63_L0.088790.924
54_V139_E0.088390.920
49_S107_N0.088350.920
3_F85_E0.087780.914
55_V137_V0.087670.913
28_L88_T0.087540.911
137_V142_K0.087410.910
73_E137_V0.086970.905
16_N140_D0.086620.902
32_K92_T0.086390.899
13_Y50_V0.086320.899
53_S64_Y0.085970.895
24_L69_T0.085910.894
50_V110_F0.085890.894
86_S122_C0.085640.891
14_D47_D0.085430.889
13_Y44_D0.085370.889
16_N143_F0.085210.887
67_D96_P0.085190.887
58_D66_C0.084870.883
10_W97_P0.084560.880
44_D69_T0.084530.880
95_L99_P0.084410.879
3_F114_E0.084340.878
55_V77_M0.084310.878
80_Y85_E0.08410.875
10_W22_F0.084070.875
72_I113_D0.083840.873
6_G77_M0.08380.872
54_V132_N0.083710.871
140_D148_I0.083640.871
108_P111_F0.083580.870
121_C137_V0.083520.869
25_S31_E0.083380.868
6_G29_S0.083330.867
11_L70_S0.083190.866
79_K86_S0.082950.863
138_G142_K0.082750.861
12_A22_F0.082520.859
36_S43_N0.082250.856
11_L31_E0.082070.854
77_M80_Y0.082060.854
112_I120_V0.081960.853
28_L138_G0.081910.853
91_F113_D0.081810.852
22_F74_I0.081570.849
25_S35_R0.081280.846
77_M114_E0.081020.843
113_D139_E0.080940.843
24_L132_N0.080940.843
11_L109_S0.080650.839
62_V134_I0.080640.839
44_D47_D0.080560.839
113_D118_V0.080160.834
23_I84_K0.079970.832
55_V86_S0.079660.829
84_K90_L0.079550.828
7_A26_F0.079460.827
113_D116_K0.079230.825
7_A28_L0.079170.824
22_F39_L0.078910.821
72_I95_L0.078880.821
133_K142_K0.078820.820
49_S146_V0.078730.820
101_L132_N0.078610.818
9_H33_F0.078570.818
30_T113_D0.07840.816
77_M89_K0.078260.815
28_L77_M0.078120.813
24_L29_S0.078050.812
79_K138_G0.078050.812
50_V95_L0.078040.812
2_V42_C0.077910.811
14_D36_S0.077880.811
134_I147_D0.077860.810
8_L118_V0.077850.810
14_D64_Y0.077840.810
74_I86_S0.077810.810
7_A52_L0.077810.810
30_T41_F0.077670.808
67_D101_L0.077450.806
22_F25_S0.077430.806
23_I65_Q0.077350.805
133_K145_E0.077270.804
98_L110_F0.07670.798
81_G124_K0.076570.797
28_L74_I0.076420.795
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
2vpjA0.87886.40.864
4ascA0.695181.50.872
1zgkA0.591575.20.879
2wozA0.652467.60.885
3ii7A0.670761.60.889
2xn4A0.329360.40.89
3nolA0.804959.60.89
3mbrX0.804952.70.895
2uvkA0.841551.60.896
1k3iA0.902439.40.902
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