GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Acetyltransf_5 - Acetyltransferase (GNAT) domain
Pfam: PF13444 (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: CL0257
Length: 101
Sequences: 2326
Seq/Len: 23.03
HH_delta: 0.274 (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
34_L42_V0.613452.585
3_Y8_E0.543642.291
44_G86_V0.535442.257
4_Q87_H0.533292.247
4_Q8_E0.496452.092
50_L79_A0.463641.954
43_V90_Y0.450031.897
36_R42_V0.411891.736
41_E87_H0.410991.732
46_V84_L0.40511.707
46_V81_I0.382781.613
37_D90_Y0.380171.602
24_D27_D0.366081.543
47_R83_R0.362951.530
41_E89_E0.349921.475
27_D47_R0.332491.401
92_R96_L0.332351.401
45_T85_C0.329891.390
6_Y83_R0.328381.384
70_P73_P0.324781.369
5_V85_C0.317951.340
23_R28_E0.314331.325
27_D83_R0.289311.219
81_I84_L0.285631.204
80_E83_R0.280811.183
35_V95_V0.276641.166
35_V44_G0.272241.147
94_K97_L0.263321.110
2_R83_R0.260171.096
47_R82_S0.260121.096
24_D47_R0.259431.093
73_P76_R0.25311.067
31_V50_L0.252121.063
64_S78_V0.246161.037
55_G73_P0.244531.031
33_L46_V0.239071.008
50_L53_P0.238011.003
5_V9_E0.23660.997
48_L81_I0.234210.987
93_R96_L0.232910.982
9_E88_P0.23250.980
49_I53_P0.231980.978
4_Q41_E0.230790.973
6_Y22_E0.227440.959
22_E27_D0.226350.954
22_E83_R0.224910.948
64_S67_D0.220980.931
9_E91_R0.218660.922
49_I54_A0.216530.913
52_S77_R0.21610.911
4_Q88_P0.215750.909
2_R47_R0.215130.907
2_R27_D0.214710.905
7_C14_P0.214420.904
67_D73_P0.21290.897
24_D83_R0.210330.886
5_V10_M0.209830.884
31_V46_V0.208720.880
47_R80_E0.206630.871
3_Y7_C0.20650.870
4_Q89_E0.206260.869
51_P80_E0.204310.861
67_D70_P0.203150.856
72_L75_P0.201080.847
2_R22_E0.199050.839
23_R27_D0.199050.839
38_K76_R0.197760.833
32_H83_R0.19620.827
37_D93_R0.195950.826
55_G64_S0.195090.822
43_V86_V0.194640.820
70_P74_L0.194410.819
54_A67_D0.194120.818
71_L74_L0.193220.814
48_L79_A0.191060.805
14_P92_R0.190330.802
35_V86_V0.189010.797
7_C13_E0.188360.794
46_V82_S0.188330.794
26_F80_E0.188180.793
7_C81_I0.186820.787
64_S72_L0.185870.783
8_E88_P0.18570.783
49_I80_E0.182170.768
32_H47_R0.181730.766
13_E16_S0.179050.755
30_S47_R0.178770.753
67_D72_L0.177770.749
12_F22_E0.177080.746
67_D71_L0.175990.742
26_F32_H0.175240.739
6_Y51_P0.174280.734
93_R97_L0.173980.733
51_P78_V0.173240.730
73_P89_E0.173080.729
75_P78_V0.171780.724
10_M16_S0.171480.723
10_M45_T0.16990.716
38_K88_P0.169890.716
24_D80_E0.169770.715
55_G67_D0.16970.715
4_Q67_D0.169370.714
36_R39_N0.167480.706
37_D43_V0.166270.701
32_H82_S0.165760.699
7_C16_S0.164680.694
92_R95_V0.163820.690
22_E82_S0.163810.690
43_V79_A0.161570.681
2_R30_S0.160160.675
26_F65_E0.159130.671
45_T84_L0.158590.668
39_N52_S0.157990.666
24_D49_I0.15780.665
39_N70_P0.157760.665
42_V87_H0.157280.663
28_E77_R0.156750.661
52_S75_P0.156610.660
86_V91_R0.155870.657
6_Y49_I0.15520.654
91_R96_L0.154660.652
44_G80_E0.153430.647
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
1ro5A0.960499.20.274
1kzfA0.930799.20.29
3p2hA0.970399.10.3
2g0bA0.910998.70.408
3efaA0.712998.60.44
4e2aA0.831798.50.464
1q2yA0.70398.50.467
2jdcA0.762498.40.479
1xebA0.742698.40.48
3mgdA0.841698.40.485

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