GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
FliL - Flagellar basal body-associated protein FliL
Pfam: PF03748 (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: 99
Sequences: 1119
Seq/Len: 11.3
HH_delta: 0.848 (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
57_K74_E0.506482.774
78_R81_K0.409182.241
50_I75_L0.384462.106
58_T61_D0.383832.102
37_E40_E0.37032.028
36_A40_E0.343251.880
57_K61_D0.337781.850
48_D72_K0.336731.844
55_S68_K0.333951.829
53_Y75_L0.322491.766
76_K91_V0.312081.709
80_N83_L0.308911.692
11_V22_L0.301461.651
23_K95_D0.30091.648
64_G67_G0.292191.600
42_N45_R0.289921.588
76_K80_N0.289811.587
62_L98_I0.28591.566
4_V30_L0.276691.515
29_E45_R0.274741.505
31_S89_K0.271751.488
9_F47_R0.265551.454
3_Y44_P0.264121.447
46_I79_I0.261151.430
45_R92_Y0.251631.378
38_E86_G0.249431.366
75_L91_V0.245391.344
93_F96_F0.242131.326
11_V54_L0.239251.310
68_K96_F0.237141.299
6_L47_R0.23311.277
48_D52_S0.229111.255
50_I79_I0.222191.217
34_E85_K0.217751.193
38_E42_N0.216711.187
25_S95_D0.215121.178
33_E37_E0.211451.158
24_V54_L0.204661.121
69_E73_D0.196281.075
5_P27_S0.193931.062
59_A63_S0.192861.056
38_E87_K0.19211.052
28_L79_I0.187471.027
7_E47_R0.18681.023
12_N51_I0.184951.013
76_K90_D0.183491.005
49_A82_I0.182120.997
75_L79_I0.182060.997
12_N67_G0.181750.995
4_V36_A0.181130.992
53_Y78_R0.17880.979
9_F50_I0.177780.974
54_L75_L0.176680.968
8_P95_D0.174860.958
49_A78_R0.174770.957
10_V66_E0.174060.953
53_Y71_L0.173040.948
53_Y57_K0.17270.946
26_I75_L0.170610.934
33_E63_S0.169490.928
6_L46_I0.168890.925
33_E36_A0.167960.920
23_K97_V0.167250.916
33_E85_K0.165140.904
42_N72_K0.16270.891
4_V43_M0.162210.888
29_E89_K0.161790.886
48_D51_I0.161340.884
12_N21_Y0.160170.877
34_E37_E0.157660.864
5_P25_S0.157390.862
30_L90_D0.15620.856
47_R51_I0.154740.848
77_D81_K0.153740.842
29_E90_D0.152340.834
6_L28_L0.15220.834
73_D77_D0.1520.833
3_Y42_N0.151890.832
10_V23_K0.15130.829
73_D76_K0.146730.804
30_L89_K0.146150.800
9_F28_L0.145890.799
12_N23_K0.145520.797
3_Y92_Y0.144650.792
26_I93_F0.14220.779
35_A83_L0.141320.774
25_S47_R0.139590.765
24_V93_F0.139340.763
27_S95_D0.138840.760
60_E81_K0.138460.758
69_E72_K0.138110.756
26_I91_V0.136670.749
78_R82_I0.136230.746
32_D93_F0.136060.745
81_K86_G0.1360.745
10_V13_L0.135590.743
8_P23_K0.13510.740
70_R85_K0.134460.736
31_S79_I0.134210.735
23_K67_G0.133740.733
56_S80_N0.133430.731
67_G92_Y0.133240.730
25_S48_D0.132290.725
31_S97_V0.131890.722
25_S94_T0.130990.717
49_A75_L0.130490.715
61_D66_E0.129230.708
48_D92_Y0.129220.708
37_E54_L0.127960.701
31_S87_K0.126660.694
68_K93_F0.126620.694
17_G86_G0.12660.693
32_D35_A0.126580.693
22_L63_S0.126240.691
3_Y38_E0.12590.690
37_E87_K0.125880.689
10_V55_S0.125750.689
19_Q83_L0.124770.683
72_K90_D0.124750.683
35_A38_E0.124120.680
8_P25_S0.123950.679
65_P69_E0.123560.677
70_R73_D0.123370.676
70_R74_E0.122750.672
79_I83_L0.122290.670
6_L43_M0.121940.668
61_D70_R0.121730.667
11_V36_A0.121650.666
75_L82_I0.121160.664
8_P65_P0.120130.658
62_L71_L0.119620.655
30_L39_L0.119430.654
3_Y75_L0.117870.646
20_R58_T0.117820.645
50_I54_L0.117720.645
37_E41_S0.117560.644
11_V43_M0.117360.643
51_I55_S0.117060.641
14_A92_Y0.116690.639
40_E43_M0.116410.638
76_K79_I0.115470.632
17_G77_D0.115270.631
30_L44_P0.114990.630
61_D91_V0.114680.628
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
3bk6A0.919247.30.848
2rpbA0.919244.60.849
3gxqA0.545517.70.876
4fvgA0.919212.60.884
3j20A0.949512.20.884
1winA0.94959.60.889
1rwuA0.47479.20.89
3vr4A0.85868.90.891
3zey00.93948.60.891
1n1qA0.33337.30.894
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

Page generated in 0.0135 seconds.