GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FluMu_gp41 - Mu-like prophage FluMu protein gp41
Pfam: PF10109 (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: 82
Sequences: 462
Seq/Len: 5.63
HH_delta: 0.857 (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
22_E66_D0.457633.330
21_R27_D0.411552.995
20_L55_T0.315272.294
3_T17_E0.304552.216
9_E14_T0.299762.181
24_T64_Q0.284752.072
66_D69_D0.266511.939
4_L69_D0.264011.921
58_P61_D0.246891.797
18_L57_L0.212231.544
2_I76_A0.20881.520
6_K66_D0.201141.464
5_K68_R0.197941.440
10_F61_D0.195081.420
6_K22_E0.184141.340
31_A50_L0.181111.318
26_R64_Q0.177591.292
48_I62_L0.173791.265
70_Y74_Q0.172751.257
23_P54_L0.172351.254
57_L61_D0.17051.241
26_R29_R0.170171.238
18_L55_T0.163241.188
9_E12_G0.16271.184
57_L73_L0.160051.165
36_E70_Y0.158281.152
26_R63_D0.154131.122
57_L62_L0.148711.082
29_R63_D0.148591.081
31_A59_P0.148541.081
49_A59_P0.147741.075
25_V70_Y0.145461.059
51_I77_V0.144891.054
24_T27_D0.140521.023
10_F15_I0.136090.990
67_A74_Q0.136030.990
19_T62_L0.135240.984
17_E42_E0.133940.975
21_R54_L0.133660.973
27_D59_P0.13360.972
38_K71_N0.133460.971
2_I73_L0.132480.964
54_L77_V0.129980.946
29_R78_N0.129120.940
18_L73_L0.12690.923
38_K50_L0.126490.921
61_D77_V0.125720.915
27_D54_L0.125440.913
23_P46_A0.122210.889
14_T60_E0.121420.884
38_K75_E0.120360.876
72_R75_E0.116990.851
25_V74_Q0.114190.831
12_G63_D0.112850.821
28_L70_Y0.112430.818
30_A47_E0.112270.817
47_E51_I0.111670.813
25_V48_I0.111310.810
48_I63_D0.110240.802
13_E17_E0.109210.795
25_V47_E0.109180.795
49_A65_L0.107690.784
28_L53_R0.106510.775
27_D60_E0.106480.775
2_I20_L0.106050.772
35_D38_K0.105650.769
60_E78_N0.105470.768
19_T30_A0.105420.767
47_E74_Q0.105290.766
39_P65_L0.10450.760
46_A65_L0.103820.756
12_G60_E0.102840.748
7_P15_I0.102130.743
51_I70_Y0.102080.743
6_K24_T0.101850.741
70_Y73_L0.10130.737
73_L76_A0.10080.734
10_F25_V0.10040.731
35_D74_Q0.10040.731
15_I57_L0.100190.729
37_G49_A0.100080.728
31_A53_R0.099890.727
35_D46_A0.099860.727
20_L54_L0.099750.726
39_P76_A0.099360.723
54_L70_Y0.099240.722
16_T76_A0.098970.720
67_A77_V0.098570.717
15_I40_D0.097760.711
46_A75_E0.097520.710
23_P77_V0.097350.708
39_P74_Q0.097310.708
59_P63_D0.096410.702
24_T79_G0.095820.697
29_R61_D0.095740.697
18_L78_N0.095450.695
2_I6_K0.094820.690
28_L36_E0.094680.689
40_D65_L0.094590.688
35_D42_E0.094360.687
65_L71_N0.094210.686
13_E38_K0.093710.682
47_E70_Y0.093670.682
3_T16_T0.09310.678
50_L54_L0.092720.675
75_E79_G0.092670.674
55_T62_L0.092080.670
20_L49_A0.091910.669
21_R56_G0.090960.662
31_A74_Q0.090950.662
8_I80_F0.090670.660
20_L51_I0.090450.658
22_E68_R0.090390.658
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:
PDB Cov Prob HH_delta
4go1A0.951221.30.857
4iagA0.37812.10.871
3mmlB0.80497.60.882
2p1jA0.95126.90.884
1zxjA0.91466.70.884
2zp2A0.5616.10.887
2phcB0.865960.887
3oepA0.81715.70.888
3kdrA0.82935.70.888
4bjsA0.57325.60.888
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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