GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PQ-loop - PQ loop repeat
Pfam: PF04193 (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: CL0141
Length: 61
Sequences: 2879
Seq/Len: 47.2
HH_delta: 0.853 (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_I26_K1.026783.293
29_S32_G0.650462.086
48_W52_S0.61741.980
23_K27_R0.59671.913
24_N30_T0.588691.888
22_I25_Y0.548871.760
49_V53_I0.504161.617
19_P22_I0.468931.504
13_W16_S0.434181.392
18_L22_I0.400321.284
23_K26_K0.396851.273
41_W45_S0.39351.262
4_I8_I0.390681.253
13_W37_F0.384021.231
35_L39_L0.378981.215
15_I19_P0.376051.206
48_W51_Y0.369961.186
7_I11_V0.368281.181
30_T55_S0.360641.156
24_N27_R0.356551.143
46_I50_L0.355951.141
51_Y55_S0.34791.116
13_W41_W0.344231.104
13_W24_N0.343181.100
13_W44_G0.332871.067
13_W17_F0.30360.974
9_S12_L0.302650.970
36_W39_L0.302410.970
50_L54_L0.301560.967
17_F41_W0.297470.954
36_W40_L0.294010.943
10_I45_S0.292270.937
10_I17_F0.292110.937
9_S48_W0.291950.936
46_I54_L0.285050.914
24_N33_L0.283250.908
33_L38_L0.281270.902
20_Q24_N0.277710.891
20_Q32_G0.275790.884
5_L56_N0.272640.874
9_S13_W0.27130.870
45_S48_W0.270060.866
12_L36_W0.265790.852
9_S44_G0.264930.850
32_G41_W0.260790.836
30_T33_L0.258260.828
9_S14_I0.248540.797
10_I48_W0.247520.794
16_S40_L0.247160.793
13_W45_S0.244760.785
6_G12_L0.242530.778
25_Y28_K0.242450.777
37_F43_I0.239210.767
6_G9_S0.238680.765
6_G44_G0.238130.764
27_R31_G0.237670.762
17_F24_N0.233550.749
30_T35_L0.232910.747
11_V56_N0.231410.742
46_I53_I0.230950.741
29_S42_L0.230690.740
50_L56_N0.230420.739
16_S41_W0.22940.736
42_L46_I0.229310.735
21_I38_L0.222970.715
34_S38_L0.22190.712
50_L55_S0.218520.701
23_K28_K0.217870.699
12_L24_N0.216290.694
37_F51_Y0.215650.692
17_F45_S0.213490.685
20_Q33_L0.213480.685
14_I41_W0.211750.679
52_S56_N0.210380.675
4_I7_I0.208850.670
10_I14_I0.206330.662
41_W52_S0.204450.656
53_I56_N0.204390.655
18_L36_W0.203720.653
13_W48_W0.201940.648
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
3o0rB0.508230.853
3ne5A0.55742.60.857
1cd1A0.52462.40.86
2b2hA12.40.86
4jkvA12.40.86
1lnqA0.78692.20.862
3ixzA0.95082.20.862
3qrxB0.42622.10.864
4g4sO0.639320.866
1zcdA11.90.867
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