GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2279 - Predicted periplasmic lipoprotein (DUF2279)
Pfam: PF10043 (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: 85
Sequences: 1939
Seq/Len: 22.81
HH_delta: 0.904 (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
44_S75_A1.23783.980
21_F77_F0.775572.494
16_D70_A0.673632.166
49_A68_L0.583181.875
25_A78_G0.557361.792
56_S63_F0.553271.779
45_L72_R0.541591.741
51_K54_Y0.519351.670
20_H71_D0.508631.635
20_H26_A0.490711.578
17_K20_H0.479141.541
24_S51_K0.465791.498
55_D61_S0.449421.445
48_G71_D0.44891.443
63_F68_L0.44041.416
41_L72_R0.424281.364
28_A78_G0.424081.364
68_L71_D0.41311.328
24_S55_D0.410391.319
26_A78_G0.373431.201
19_Q70_A0.371441.194
19_Q23_A0.369671.189
53_L56_S0.363761.170
45_L68_L0.363171.168
16_D19_Q0.353761.137
50_A54_Y0.349791.125
51_K71_D0.342381.101
21_F70_A0.339081.090
48_G51_K0.335591.079
65_W69_A0.321851.035
16_D66_K0.320921.032
57_R60_G0.320871.032
53_L57_R0.313341.007
24_S71_D0.302460.972
21_F73_A0.293560.944
17_K70_A0.293380.943
32_N78_G0.285170.917
46_A50_A0.282850.909
18_A22_I0.281720.906
25_A29_A0.279650.899
34_D38_W0.277590.893
36_S39_Y0.276880.890
16_D64_S0.275580.886
29_A78_G0.272320.876
27_L47_I0.270570.870
48_G63_F0.269470.866
31_G42_G0.267060.859
32_N79_Y0.266970.858
32_N40_G0.263560.847
45_L49_A0.261870.842
66_K70_A0.255510.822
41_L79_Y0.253780.816
72_R76_A0.251570.809
66_K69_A0.249620.803
58_S61_S0.249120.801
24_S47_I0.24630.792
54_Y58_S0.24550.789
21_F25_A0.244420.786
49_A53_L0.242440.779
49_A63_F0.241420.776
42_G46_A0.240320.773
41_L76_A0.237650.764
48_G68_L0.233180.750
27_L31_G0.2310.743
33_A50_A0.230920.742
16_D68_L0.230310.740
23_A51_K0.227790.732
20_H25_A0.227330.731
20_H51_K0.22670.729
45_L65_W0.224380.721
29_A33_A0.222280.715
51_K55_D0.221560.712
37_A76_A0.221230.711
48_G72_R0.220390.709
34_D37_A0.2190.704
19_Q51_K0.218870.704
34_D80_L0.217120.698
39_Y43_L0.216960.698
64_S70_A0.215570.693
55_D58_S0.215050.691
20_H23_A0.214440.689
28_A44_S0.214020.688
49_A72_R0.213680.687
16_D48_G0.212440.683
37_A79_Y0.211070.679
28_A32_N0.208840.671
39_Y79_Y0.208090.669
37_A81_A0.207470.667
37_A80_L0.20740.667
23_A70_A0.206960.665
19_Q79_Y0.203620.655
35_R39_Y0.198990.640
33_A36_S0.198010.637
24_S27_L0.197130.634
17_K66_K0.195940.630
75_A79_Y0.194320.625
34_D43_L0.189050.608
22_I26_A0.18890.607
54_Y60_G0.187160.602
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
3mzkB0.34123.80.904
2c5qA0.41183.10.908
2jlnA0.882430.909
4igbA0.97652.40.914
3kinB0.576520.917
3giaA0.35291.80.918
2ls4A0.27061.60.92
3l1lA0.37651.60.92
4ezcA0.95291.50.922
1nkzA0.21181.30.925
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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