GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SnoaL - SnoaL-like polyketide cyclase
Pfam: PF07366 (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: CL0051
Length: 126
Sequences: 8416
Seq/Len: 66.79
HH_delta: -0.013 (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
27_V43_F1.564022.811
15_D18_A1.48862.675
20_D44_K1.47012.642
24_A111_V1.45172.609
75_W99_G1.388182.495
106_E111_V1.38012.480
104_R112_E1.36032.445
25_P40_R1.317742.368
17_D44_K1.063911.912
39_G42_G0.996691.791
28_V112_E0.983391.767
62_E76_T0.950681.709
18_A21_E0.923421.660
9_E13_R0.921671.656
30_H114_W0.905541.627
104_R111_V0.891351.602
23_V27_V0.885091.591
44_K48_K0.877181.576
20_D40_R0.87441.571
76_T96_E0.867471.559
78_T96_E0.832471.496
23_V113_E0.798841.436
30_H36_P0.791341.422
101_S115_V0.77781.398
28_V38_V0.776941.396
75_W101_S0.76181.369
17_D20_D0.761461.369
8_E12_N0.751811.351
66_A71_V0.750831.349
16_L20_D0.749641.347
70_R104_R0.749411.347
41_E45_E0.741621.333
65_V72_A0.739421.329
5_R9_E0.735811.322
72_A102_I0.734291.320
24_A106_E0.701711.261
60_E76_T0.695851.251
76_T98_R0.69511.249
63_D74_R0.693481.246
14_G51_R0.689741.240
45_E48_K0.686391.234
58_R78_T0.672581.209
30_H112_E0.660191.187
41_E44_K0.659421.185
101_S113_E0.658481.183
71_V105_F0.646791.162
60_E78_T0.641921.154
69_D106_E0.611231.099
40_R44_K0.611111.098
6_F22_L0.601871.082
31_D115_V0.594671.069
69_D104_R0.589971.060
45_E49_E0.585171.052
16_L48_K0.584061.050
79_G97_F0.578741.040
106_E109_K0.564431.014
6_F18_A0.562861.012
100_M116_Y0.553280.994
103_F110_I0.551770.992
10_V18_A0.5510.990
23_V43_F0.545120.980
40_R109_K0.543020.976
70_R102_I0.538940.969
24_A109_K0.529940.952
79_G95_V0.52660.946
26_D106_E0.525210.944
17_D21_E0.524530.943
28_V36_P0.516130.928
63_D70_R0.511660.920
25_P109_K0.498250.895
37_P42_G0.491940.884
78_T94_P0.486880.875
27_V40_R0.482480.867
26_D111_V0.480060.863
77_F99_G0.480060.863
54_F79_G0.474370.853
12_N59_F0.473050.850
61_I64_V0.469280.843
6_F10_V0.464450.835
13_R18_A0.458170.823
62_E74_R0.454040.816
29_F115_V0.452070.812
73_V103_F0.450770.810
72_A100_M0.447470.804
20_D41_E0.446320.802
77_F97_F0.443830.798
74_R114_W0.440440.792
29_F113_E0.439690.790
9_E18_A0.437370.786
74_R98_R0.434770.781
105_F110_I0.432920.778
49_E52_A0.431390.775
64_V73_V0.430340.773
29_F43_F0.429860.773
48_K52_A0.427320.768
43_F47_L0.426570.767
64_V71_V0.426230.766
42_G45_E0.422790.760
9_E12_N0.418270.752
6_F9_E0.404240.727
74_R116_Y0.384680.691
23_V110_I0.376890.677
38_V42_G0.376370.676
27_V39_G0.373720.672
49_E53_A0.372860.670
104_R114_W0.370770.666
26_D39_G0.369890.665
29_F103_F0.368150.662
24_A107_D0.36460.655
7_Y23_V0.362980.652
6_F21_E0.353890.636
61_I73_V0.353320.635
10_V21_E0.350060.629
31_D99_G0.333070.599
39_G43_F0.332460.598
15_D21_E0.332130.597
103_F113_E0.329250.592
10_V22_L0.328890.591
27_V113_E0.326190.586
29_F33_G0.323060.581
10_V13_R0.32250.580
10_V15_D0.316960.570
19_L22_L0.316950.570
9_E15_D0.313550.564
16_L51_R0.312690.562
25_P41_E0.309840.557
29_F117_F0.303930.546
46_F50_L0.29830.536
65_V70_R0.298190.536
37_P46_F0.297610.535
27_V103_F0.292840.526
31_D117_F0.292680.526
7_Y101_S0.290160.521
11_W19_L0.288190.518
20_D25_P0.286330.515
17_D48_K0.286210.514
54_F97_F0.283130.509
99_G117_F0.279560.502
59_F75_W0.277490.499
50_L54_F0.274480.493
67_E70_R0.272820.490
12_N58_R0.269010.483
19_L23_V0.26810.482
46_F49_E0.267830.481
102_I114_W0.267550.481
50_L115_V0.26730.480
71_V103_F0.26420.475
16_L19_L0.263120.473
46_F113_E0.261770.470
32_P116_Y0.261570.470
20_D27_V0.258980.465
24_A27_V0.254460.457
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
3kkgA199.8-0.013
2f99A199.8-0.002
3f9sA199.80.001
3ehcA0.968399.80.006
1sjwA199.80.012
4h3uA0.944499.80.014
2gexA0.992199.80.015
3f8hA199.80.029
2geyA0.984199.80.032
3i0yA199.80.06

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