GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
STAS_2 - STAS domain
Pfam: PF13466 (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: CL0502
Length: 80
Sequences: 7897
Seq/Len: 98.71
HH_delta: 0.044 (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
28_P62_R1.225652.469
51_A55_R1.123862.264
28_P60_Q1.066622.148
4_S35_G1.009832.034
30_V64_T0.972141.958
2_R35_G0.910941.835
33_L36_V0.90941.832
12_A46_L0.889911.793
54_A59_R0.849911.712
44_L77_L0.841221.694
34_S65_G0.832941.678
71_R75_E0.820591.653
6_E37_E0.816461.645
19_L50_A0.798231.608
30_V62_R0.785811.583
16_R49_A0.760281.531
39_I43_G0.755991.523
7_L43_G0.719841.450
20_Q53_R0.718381.447
31_L61_L0.713441.437
66_P71_R0.707361.425
8_D11_T0.703961.418
32_D65_G0.660831.331
2_R32_D0.657341.324
9_I40_D0.626021.261
33_L66_P0.609111.227
63_L66_P0.585771.180
51_A61_L0.585751.180
6_E38_F0.574631.157
14_E18_A0.556561.121
27_R59_R0.553711.115
3_L15_L0.548131.104
32_D64_T0.547871.104
66_P70_L0.546531.101
66_P74_L0.531511.071
28_P59_R0.52551.059
18_A21_A0.519451.046
67_S70_L0.516171.040
5_G35_G0.497111.001
14_E17_Q0.489790.987
50_A54_A0.485220.977
7_L36_V0.480820.969
8_D38_F0.474010.955
37_E67_S0.465250.937
16_R20_Q0.460890.928
41_S44_L0.460230.927
5_G36_V0.459450.925
38_F41_S0.459110.925
45_Q48_L0.458750.924
69_A72_R0.456260.919
12_A42_A0.452410.911
48_L52_R0.450630.908
23_L54_A0.447180.901
31_L63_L0.446650.900
3_L33_L0.444580.896
26_G59_R0.440140.887
52_R56_A0.439190.885
41_S45_Q0.437370.881
17_Q21_A0.436760.880
73_L77_L0.435250.877
22_L26_G0.433040.872
54_A61_L0.430340.867
49_A53_R0.428160.862
68_P72_R0.427920.862
40_D73_L0.426430.859
7_L15_L0.423490.853
16_R46_L0.423050.852
52_R55_R0.422060.850
31_L50_A0.420470.847
13_P17_Q0.419470.845
21_A24_A0.419470.845
9_I42_A0.418680.843
13_P16_R0.414840.836
16_R50_A0.413830.834
8_D40_D0.41260.831
18_A22_L0.406930.820
6_E9_I0.402940.812
23_L26_G0.396680.799
24_A53_R0.380180.766
39_I70_L0.363880.733
72_R76_L0.360630.726
55_R60_Q0.359570.724
19_L31_L0.351080.707
53_R57_R0.350480.706
45_Q49_A0.343540.692
6_E36_V0.34030.685
12_A15_L0.338740.682
39_I77_L0.336470.678
40_D45_Q0.330320.665
32_D35_G0.317740.640
49_A52_R0.314280.633
5_G37_E0.314140.633
33_L65_G0.312390.629
74_L77_L0.312180.629
55_R58_G0.311830.628
50_A61_L0.310150.625
2_R26_G0.309250.623
7_L39_I0.309240.623
45_Q78_G0.305730.616
68_P71_R0.300680.606
54_A57_R0.300030.604
16_R40_D0.299990.604
31_L47_L0.297590.599
6_E49_A0.295150.595
16_R45_Q0.294760.594
38_F43_G0.29370.592
48_L77_L0.288960.582
7_L11_T0.288290.581
3_L36_V0.287530.579
44_L73_L0.287250.579
53_R56_A0.286620.577
2_R34_S0.282840.570
12_A19_L0.281050.566
37_E69_A0.279510.563
41_S73_L0.279090.562
15_L46_L0.278250.560
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
4dgfA199.10.044
4dghA199.10.044
4hylA199.10.045
3lloA199.10.047
2klnA199.10.048
3ny7A0.987599.10.051
3oizA0.987599.10.053
2ka5A199.10.059
1sboA199.10.072
1th8B199.10.076

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