GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MBOAT_2 - Membrane bound O-acyl transferase family
Pfam: PF13813 (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: CL0517
Length: 83
Sequences: 1708
Seq/Len: 20.58
HH_delta: 0.885 (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
47_S50_L1.018633.164
30_F59_S0.833372.589
56_F59_S0.820632.549
7_S10_E0.754892.345
30_F55_A0.681242.116
12_Y16_R0.618571.921
2_P25_L0.585731.819
55_A59_S0.558741.736
11_A16_R0.52691.637
3_P6_G0.52261.623
50_L54_G0.496571.542
43_G48_R0.488871.518
24_Q28_R0.483311.501
15_R56_F0.481231.495
27_R31_S0.441611.372
15_R19_G0.427161.327
16_R21_R0.423531.316
45_K49_Y0.419281.302
11_A21_R0.41591.292
23_H26_F0.406131.261
46_A50_L0.379291.178
28_R31_S0.362171.125
7_S59_S0.358871.115
35_Y51_Q0.358031.112
45_K48_R0.357181.109
39_R51_Q0.354081.100
46_A49_Y0.334551.039
29_P33_I0.334451.039
35_Y39_R0.329341.023
6_G10_E0.313890.975
8_P21_R0.31180.968
30_F56_F0.309410.961
34_G59_S0.308880.959
47_S51_Q0.301350.936
27_R52_L0.300190.932
4_L25_L0.296050.920
6_G24_Q0.294860.916
3_P10_E0.294510.915
36_F41_V0.2920.907
61_L66_G0.291370.905
19_G27_R0.28670.891
15_R48_R0.283930.882
22_W63_H0.283560.881
3_P7_S0.28260.878
4_L62_M0.280390.871
53_F57_L0.278510.865
38_V54_G0.275410.855
25_L33_I0.274890.854
44_S48_R0.27420.852
34_G58_I0.272850.848
49_Y52_L0.268740.835
61_L65_A0.266180.827
13_S16_R0.257680.800
29_P32_S0.256070.795
41_V44_S0.253750.788
18_W60_G0.251330.781
39_R47_S0.250480.778
24_Q27_R0.249320.774
33_I62_M0.246320.765
6_G13_S0.242910.755
43_G47_S0.239160.743
4_L26_F0.237540.738
3_P14_L0.23650.735
36_F40_R0.236280.734
14_L18_W0.231390.719
45_K61_L0.230460.716
51_Q55_A0.227470.707
43_G50_L0.227350.706
2_P10_E0.22680.704
38_V42_L0.225430.700
34_G56_F0.2250.699
10_E15_R0.224990.699
44_S47_S0.223660.695
30_F34_G0.222680.692
27_R55_A0.221050.687
3_P13_S0.220820.686
28_R32_S0.219990.683
52_L56_F0.213740.664
2_P28_R0.213030.662
25_L29_P0.21250.660
5_F9_W0.211960.658
2_P7_S0.209620.651
41_V48_R0.205520.638
9_W58_I0.205230.637
38_V41_V0.204080.634
18_W37_P0.202450.629
5_F8_P0.202050.628
46_A57_L0.199060.618
59_S63_H0.194740.605
10_E56_F0.194360.604
5_F64_E0.194340.604
9_W17_F0.190350.591
42_L47_S0.189950.590
4_L29_P0.188680.586
3_P12_Y0.188460.585
39_R42_L0.186960.581
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
1qd5A0.98816.30.885
1qd6C0.98814.30.888
4hn9A0.33739.60.896
3pshA0.34947.60.9
3gzxA0.42175.50.906
1uliA0.55422.50.92
1yewC0.89161.80.925
2etvA0.62651.70.926
1o7qA0.36141.40.929
2i5gA0.38551.30.931
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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