GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
HisKA - His Kinase A (phospho-acceptor) domain
Pfam: PF00512 (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: CL0025
Length: 68
Sequences: 40703
Seq/Len: 598.57
HH_delta: 0.052 (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
24_L45_I3.515422.914
28_E46_R2.968142.460
21_R49_A2.779192.304
21_R50_D2.650492.197
53_N57_N2.399651.989
20_I49_A2.393321.984
28_E43_D2.348431.947
2_K6_L2.219671.840
46_R50_D2.175231.803
23_Y41_Y2.101541.742
21_R53_N2.025481.679
27_L42_L1.957951.623
14_R57_N1.946341.613
19_A48_A1.887421.564
34_D37_Q1.788511.482
21_R46_R1.743411.445
4_E8_S1.709791.417
28_E39_R1.669171.384
23_Y44_R1.663841.379
25_E46_R1.658081.374
24_L46_R1.646041.364
48_A51_R1.499721.243
44_R48_A1.415371.173
14_R53_N1.391141.153
40_E44_R1.387691.150
19_A23_Y1.372531.138
44_R47_S1.365111.132
50_D53_N1.362821.130
20_I45_I1.361071.128
35_P39_R1.315721.091
33_L37_Q1.314471.090
19_A22_G1.268191.051
39_R43_D1.231991.021
43_D47_S1.221791.013
3_G66_E1.205340.999
57_N61_D1.183680.981
12_E55_L1.161120.962
21_R25_E1.156170.958
41_Y44_R1.148550.952
22_G26_L1.147180.951
31_S37_Q1.12060.929
43_D46_R1.104660.916
24_L49_A1.099150.911
24_L28_E1.09060.904
54_E58_D1.067270.885
12_E16_P1.063610.882
5_F9_I1.045970.867
28_E42_L1.035560.858
40_E43_D1.010290.837
32_D37_Q0.994550.824
50_D54_E0.975670.809
3_G8_S0.958930.795
24_L42_L0.958510.795
16_P52_L0.933070.773
49_A53_N0.922420.765
26_L41_Y0.91230.756
3_G6_L0.909180.754
23_Y48_A0.890290.738
18_T21_R0.886630.735
3_G7_A0.884950.734
8_S59_L0.869840.721
61_D65_I0.853310.707
15_N19_A0.840280.697
45_I49_A0.836520.693
13_L52_L0.828050.686
18_T22_G0.812110.673
11_H15_N0.807930.670
32_D35_P0.805580.668
23_Y26_L0.796510.660
9_I59_L0.796220.660
61_D64_R0.785360.651
27_L41_Y0.781720.648
17_L52_L0.770760.639
37_Q41_Y0.752180.623
62_F66_E0.748490.620
8_S12_E0.730450.605
13_L55_L0.722650.599
32_D39_R0.695860.577
15_N18_T0.693710.575
10_S60_L0.691660.573
42_L45_I0.690250.572
13_L16_P0.68860.571
25_E29_R0.686590.569
6_L10_S0.677980.562
23_Y45_I0.66990.555
33_L36_E0.668090.554
7_A63_S0.661390.548
60_L64_R0.660610.548
15_N22_G0.658870.546
31_S34_D0.657630.545
5_F60_L0.651050.540
58_D61_D0.650280.539
10_S14_R0.648230.537
34_D39_R0.637160.528
52_L56_I0.636310.527
42_L46_R0.633670.525
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
2c2aA198.10.052
3jz3A0.9853980.081
3d36A0.985397.90.116
4i5sA0.985397.80.122
3a0rA0.985397.80.126
4ew8A0.985397.80.128
4fppA0.911897.60.164
4gczA197.60.183
1gkzA0.985397.40.211
3zccA0.823596.80.3

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