GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
LrgA - LrgA family
Pfam: PF03788 (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: 96
Sequences: 940
Seq/Len: 9.79
HH_delta: 0.914 (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
1_F29_L0.5473.432
28_L32_F0.299941.882
37_L40_I0.298931.876
75_P79_V0.275991.732
92_G96_Q0.266761.674
9_S21_I0.265041.663
89_A93_W0.257691.617
90_V94_V0.255751.605
23_M54_F0.236531.484
21_I25_L0.234671.472
33_K36_K0.232071.456
1_F25_L0.228411.433
17_P58_A0.226651.422
40_I48_L0.226421.421
36_K39_W0.226281.420
93_W96_Q0.226111.419
62_I65_Y0.219661.378
2_Q19_S0.215271.351
78_V82_V0.202821.273
7_W11_L0.201661.265
27_F31_M0.201011.261
53_L68_L0.200721.259
4_L29_L0.197961.242
51_M87_V0.197911.242
25_L86_L0.197671.240
41_E65_Y0.194821.222
29_L34_I0.192921.210
5_G61_G0.189951.192
63_M66_F0.189191.187
45_N49_K0.188211.181
5_G18_G0.183991.154
40_I44_A0.183861.154
34_I37_L0.183851.154
1_F4_L0.183611.152
24_L28_L0.182821.147
72_E75_P0.181121.136
59_G66_F0.180421.132
3_L27_F0.179181.124
1_F5_G0.177741.115
67_D71_Q0.172851.085
37_L41_E0.172361.081
49_K58_A0.171171.074
50_N62_I0.170421.069
52_A59_G0.169891.066
69_L76_I0.168191.055
41_E45_N0.168131.055
9_S18_G0.16641.044
35_V77_L0.163341.025
19_S54_F0.162511.020
72_E76_I0.161521.013
25_L29_L0.159250.999
65_Y68_L0.158590.995
6_E10_R0.157470.988
1_F76_I0.156570.982
9_S13_P0.15510.973
20_V52_A0.154470.969
85_L89_A0.153990.966
9_S12_L0.153790.965
81_V85_L0.152640.958
55_F58_A0.152440.956
18_G61_G0.152220.955
59_G62_I0.15110.948
51_M60_V0.1510.947
74_L82_V0.150580.945
43_A65_Y0.150360.943
67_D70_A0.149510.938
8_I21_I0.148940.935
82_V86_L0.14840.931
23_M59_G0.14680.921
35_V40_I0.144010.904
52_A56_V0.142950.897
32_F81_V0.142110.892
83_S95_V0.141150.886
1_F53_L0.140120.879
3_L85_L0.139230.874
19_S87_V0.138740.871
88_L93_W0.13830.868
59_G64_E0.137790.865
18_G21_I0.136320.855
68_L80_I0.136250.855
8_I25_L0.136140.854
7_W81_V0.135030.847
62_I66_F0.134980.847
38_E89_A0.134650.845
13_P71_Q0.134030.841
30_L81_V0.134010.841
58_A84_T0.132510.831
40_I72_E0.132220.830
7_W10_R0.131790.827
63_M92_G0.131320.824
35_V39_W0.130590.819
62_I93_W0.13020.817
19_S31_M0.130010.816
70_A74_L0.12990.815
3_L81_V0.129870.815
18_G51_M0.129040.810
39_W43_A0.128070.804
16_I74_L0.127690.801
14_L22_G0.127630.801
2_Q6_E0.127470.800
91_T95_V0.127330.799
37_L76_I0.127290.799
46_F56_V0.126480.794
31_M69_L0.126260.792
2_Q17_P0.125970.790
54_F61_G0.125470.787
52_A91_T0.125350.786
84_T87_V0.124840.783
19_S88_L0.123860.777
43_A83_S0.123840.777
8_I12_L0.123610.776
23_M85_L0.123510.775
31_M45_N0.123190.773
22_G40_I0.122910.771
20_V31_M0.122820.771
73_G77_L0.122780.770
52_A87_V0.122780.770
16_I20_V0.122660.770
29_L32_F0.121870.765
22_G56_V0.121870.765
44_A80_I0.121390.762
49_K73_G0.121360.761
54_F63_M0.12090.759
67_D78_V0.120210.754
4_L7_W0.119920.752
8_I11_L0.119570.750
46_F54_F0.119530.750
20_V92_G0.119010.747
51_M55_F0.118150.741
84_T90_V0.118060.741
31_M92_G0.117670.738
32_F42_P0.116710.732
78_V93_W0.116580.731
20_V61_G0.116510.731
77_L82_V0.116330.730
70_A81_V0.116320.730
19_S64_E0.115790.727
5_G9_S0.115690.726
29_L35_V0.115670.726
27_F92_G0.115560.725
11_L90_V0.115310.724
44_A51_M0.11510.722
68_L72_E0.114850.721
15_P73_G0.114810.720
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
4b4aA0.38548.20.914
1a87A0.54176.60.917
1rh1A0.51044.60.922
4httA0.40624.40.923
2nq2A0.42713.80.925
3m8lA0.36463.60.926
3ka7A0.33332.80.93
4dx5A0.94791.90.935
3ne5A0.98961.90.935
3qe7A0.92711.70.937
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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