GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ADSL_C - Adenylosuccinate lyase C-terminus
Pfam: PF10397 (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: 81
Sequences: 1386
Seq/Len: 17.11
HH_delta: 0.254 (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
16_K59_E1.111023.796
42_R61_E0.805652.753
29_E50_E0.701062.396
33_E37_N0.699932.392
42_R46_L0.588762.012
9_V45_L0.570331.949
56_S59_E0.560821.916
72_N75_E0.555661.899
30_A48_D0.524291.792
8_R68_S0.505841.729
13_L23_A0.499091.705
39_R47_A0.46511.589
40_D43_E0.45491.554
70_L74_D0.443071.514
31_A41_L0.436561.492
12_A15_E0.433371.481
24_H28_Q0.427891.462
52_A57_E0.421951.442
46_L57_E0.418321.429
19_G22_E0.41191.408
12_A63_L0.394321.347
57_E61_E0.388771.328
39_R44_V0.378281.293
52_A56_S0.372321.272
18_L23_A0.363771.243
49_P52_A0.35991.230
67_E70_L0.355951.216
74_D78_D0.354551.212
26_L45_L0.34281.171
30_A44_V0.341741.168
5_F69_Y0.33791.155
30_A33_E0.336011.148
34_A44_V0.335361.146
1_G38_G0.325611.113
46_L61_E0.324831.110
43_E47_A0.320921.097
18_L26_L0.318791.089
5_F64_F0.317881.086
73_A77_V0.309971.059
8_R69_Y0.309711.058
43_E46_L0.298161.019
43_E57_E0.296141.012
10_M28_Q0.289330.989
45_L51_I0.287770.983
14_A17_G0.28470.973
10_M24_H0.283860.970
1_G40_D0.268450.917
33_E47_A0.260910.892
29_E48_D0.258980.885
21_Q25_E0.257960.881
42_R60_L0.255840.874
7_E21_Q0.252340.862
62_E65_D0.251890.861
49_P53_A0.249880.854
18_L54_Y0.248430.849
72_N80_V0.248240.848
11_L24_H0.24410.834
18_L22_E0.239370.818
68_S71_G0.238350.814
33_E44_V0.235360.804
26_L50_E0.235180.804
26_L48_D0.232990.796
5_F63_L0.231330.790
52_A60_L0.229330.784
7_E68_S0.227880.779
21_Q28_Q0.227480.777
16_K54_Y0.225670.771
40_D44_V0.225080.769
59_E62_E0.222660.761
42_R57_E0.222520.760
7_E69_Y0.221780.758
22_E50_E0.219990.752
30_A45_L0.219370.750
28_Q32_M0.219150.749
49_P57_E0.217070.742
4_I11_L0.216020.738
7_E71_G0.214620.733
6_S11_L0.214440.733
6_S27_V0.208990.714
6_S10_M0.208870.714
17_G28_Q0.208070.711
17_G31_A0.206830.707
32_M36_E0.20630.705
73_A76_I0.206180.705
11_L20_R0.204970.700
1_G25_E0.203940.697
12_A59_E0.200110.684
12_A68_S0.199140.680
46_L60_L0.198170.677
55_L63_L0.196780.672
55_L59_E0.196370.671
1_G34_A0.196070.670
3_L32_M0.194540.665
58_E62_E0.192680.658
6_S79_R0.192140.657
16_K63_L0.191090.653
19_G23_A0.190390.651
7_E14_A0.187790.642
55_L60_L0.187770.642
8_R62_E0.187380.640
2_G6_S0.186660.638
7_E63_L0.186610.638
3_L34_A0.186230.636
11_L28_Q0.181760.621
57_E62_E0.181530.620
3_L35_W0.181080.619
1_G44_V0.181020.619
44_V47_A0.180450.617
1_G39_R0.179140.612
8_R12_A0.176860.604
20_R28_Q0.176280.602
26_L29_E0.176280.602
9_V63_L0.17510.598
24_H31_A0.174510.596
23_A50_E0.174440.596
2_G23_A0.173760.594
58_E61_E0.172520.590
27_V50_E0.170750.583
2_G40_D0.170330.582
17_G20_R0.170010.581
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
1c3cA199.50.254
2pfmA199.50.263
1re5A0.987799.40.274
3c8tA0.987799.40.29
1q5nA0.987799.40.305
2j91A0.975399.20.362
2e9fA0.987799.20.362
4eeiA0.96399.20.376
1k7wA0.975399.20.377
1tj7A0.987799.10.383

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