GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PAAR_motif - PAAR motif
Pfam: PF05488 (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: 76
Sequences: 1042
Seq/Len: 13.71
HH_delta: 0.9 (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
62_R65_D0.921913.407
30_R33_D0.784072.897
46_I61_A0.61882.287
18_S56_N0.54372.009
14_V29_A0.512151.893
22_F54_F0.489941.810
55_I60_A0.483281.786
18_S30_R0.463261.712
35_V67_C0.460481.702
48_E65_D0.450021.663
25_G57_G0.448461.657
61_A73_L0.431731.595
16_S33_D0.422631.562
32_G58_K0.39761.469
21_V53_V0.390971.445
7_K13_T0.387221.431
6_D10_H0.378591.399
23_I28_V0.365331.350
16_S34_Q0.363661.344
31_V59_P0.359191.327
20_N56_N0.357061.319
28_V60_A0.345151.275
46_I73_L0.338961.253
45_P68_S0.333351.232
66_R72_T0.322551.192
29_A46_I0.320091.183
30_R58_K0.316351.169
21_V55_I0.314141.161
31_V48_E0.312011.153
67_C71_C0.311851.152
44_G71_C0.309551.144
15_I36_T0.306991.134
50_S62_R0.300131.109
14_V46_I0.287851.064
8_T38_P0.285261.054
48_E66_R0.276791.023
34_Q45_P0.271951.005
17_G27_P0.268070.991
44_G68_S0.262090.968
31_V49_G0.26120.965
34_Q66_R0.257660.952
21_V28_V0.246450.911
37_C69_C0.243640.900
12_G29_A0.239630.885
72_T75_S0.239360.885
11_G39_K0.236170.873
11_G70_G0.234110.865
9_T12_G0.230240.851
14_V73_L0.224390.829
49_G59_P0.222870.824
31_V58_K0.218260.807
49_G62_R0.217160.802
10_H38_P0.217040.802
20_N52_T0.216240.799
54_F59_P0.214360.792
32_G45_P0.212670.786
63_V75_S0.212440.785
53_V62_R0.210990.780
12_G67_C0.208330.770
44_G67_C0.20810.769
31_V47_V0.205280.759
28_V55_I0.204360.755
14_V70_G0.204210.755
37_C71_C0.20420.755
21_V56_N0.204020.754
29_A61_A0.197990.732
44_G69_C0.197930.731
14_V28_V0.193620.715
12_G35_V0.192730.712
13_T36_T0.191790.709
12_G36_T0.191090.706
10_H69_C0.188680.697
10_H67_C0.187920.694
11_G37_C0.187780.694
9_T69_C0.185540.686
64_G72_T0.185250.685
6_D37_C0.18410.680
18_S55_I0.184080.680
30_R61_A0.182610.675
9_T38_P0.180840.668
22_F27_P0.180260.666
21_V50_S0.179740.664
66_R71_C0.179050.662
15_I26_K0.177350.655
30_R55_I0.176850.654
24_N56_N0.175090.647
51_P54_F0.173180.640
11_G38_P0.171120.632
13_T47_V0.168510.623
6_D9_T0.165890.613
48_E51_P0.165860.613
63_V74_I0.163170.603
50_S54_F0.162890.602
31_V52_T0.162620.601
9_T37_C0.161880.598
39_K43_P0.161870.598
33_D46_I0.161860.598
10_H71_C0.16140.596
55_I59_P0.160760.594
50_S53_V0.159890.591
33_D58_K0.159850.591
16_S22_F0.159780.590
40_C69_C0.158480.586
10_H35_V0.158150.584
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
3h0gB0.98684.70.9
1twfB0.98683.80.905
4aybB0.96053.80.905
1ea0A0.86843.70.905
1ofdA0.86843.10.908
3uv0A0.82892.80.91
2qy0B0.40792.70.911
3tvjB0.40792.60.912
2c42A0.34212.50.912
1p9kA0.65792.30.914
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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