GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Clp_N - Clp amino terminal domain
Pfam: PF02861 (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: 53
Sequences: 6442
Seq/Len: 121.55
HH_delta: -0.041 (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
41_P45_K1.311282.337
40_D43_Q1.149182.048
10_H52_L1.017051.813
34_L39_I1.002831.788
4_L7_E0.995971.775
47_A50_K0.972271.733
3_E6_R0.904711.613
45_K49_E0.888741.584
20_L49_E0.888351.583
43_Q47_A0.873381.557
24_E41_P0.862451.537
20_L24_E0.828881.477
31_A35_K0.823291.467
2_Q6_R0.796611.420
25_D28_S0.780921.392
29_I32_R0.773381.379
4_L8_R0.761061.357
2_Q13_I0.747521.332
28_S31_A0.724511.291
39_I44_L0.695391.240
4_L24_E0.673351.200
46_A50_K0.657971.173
20_L48_I0.653241.164
4_L45_K0.630661.124
23_L44_L0.623871.112
32_R36_K0.603011.075
43_Q46_A0.600541.070
16_E51_A0.594981.061
4_L41_P0.578871.032
3_E7_E0.577391.029
47_A51_A0.571271.018
4_L21_A0.559980.998
22_L30_A0.55490.989
5_A13_I0.546250.974
4_L20_L0.528140.941
42_E46_A0.497990.888
26_P31_A0.495960.884
33_I37_L0.479140.854
1_A17_H0.475330.847
32_R35_K0.463110.825
42_E45_K0.457660.816
29_I33_I0.455070.811
12_Y29_I0.454520.810
20_L45_K0.446130.795
5_A10_H0.440490.785
2_Q5_A0.428710.764
15_P19_L0.4260.759
35_K41_P0.425960.759
6_R13_I0.42190.752
19_L44_L0.416510.742
24_E45_K0.414140.738
1_A18_L0.409630.730
16_E20_L0.403730.720
7_E24_E0.394080.702
10_H17_H0.392710.700
47_A52_L0.39170.698
30_A34_L0.385790.688
10_H14_S0.378970.676
19_L48_I0.376550.671
6_R11_Q0.374850.668
27_D32_R0.373430.666
31_A41_P0.373080.665
18_L21_A0.370050.660
31_A37_L0.368790.657
46_A49_E0.36830.656
40_D46_A0.368020.656
8_R17_H0.355830.634
8_R49_E0.354740.632
2_Q15_P0.352030.627
26_P29_I0.351080.626
7_E49_E0.350240.624
12_Y52_L0.345290.615
41_P44_L0.340390.607
1_A13_I0.3370.601
21_A25_D0.327650.584
33_I36_K0.324240.578
5_A30_A0.320280.571
27_D31_A0.320260.571
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
3pxgA198.6-0.041
3pxiA198.6-0.034
3zriA0.981198.6-0.033
3fesA198.6-0.032
3fh2A198.6-0.028
2y1qA198.6-0.023
1qvrA198.6-0.023
1khyA198.6-0.014
1r6bX0.962398.40.035
3fesA198.40.035

Page generated in 0.0126 seconds.