GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
HisKA_2 - Histidine kinase
Pfam: PF07568 (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: 76
Sequences: 1802
Seq/Len: 23.71
HH_delta: 0.695 (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
17_L36_A1.155134.040
7_K48_E0.738712.584
24_S29_A0.703442.460
48_E52_Q0.61522.152
4_H8_N0.604182.113
62_R66_E0.586442.051
13_I40_I0.579242.026
49_Q67_E0.554491.939
3_H6_V0.554131.938
2_L6_V0.495911.734
3_H47_H0.492471.722
3_H51_Y0.472751.653
64_Y68_L0.468561.639
29_A32_A0.37461.310
60_D63_E0.373481.306
3_H9_N0.355351.243
25_E34_E0.352641.233
6_V9_N0.349541.222
19_L22_R0.347861.217
9_N43_I0.34011.189
5_R8_N0.335811.174
18_R37_Q0.324651.135
18_R41_Q0.313561.097
34_E37_Q0.307781.076
17_L40_I0.307591.076
32_A36_A0.302591.058
11_Q15_S0.299761.048
10_L43_I0.293851.028
24_S32_A0.290831.017
45_L67_E0.286091.001
21_A34_E0.284780.996
41_Q45_L0.283490.991
27_P31_E0.278270.973
11_Q40_I0.277970.972
31_E34_E0.277560.971
49_Q63_E0.273080.955
8_N15_S0.267880.937
20_Q36_A0.266690.933
25_E31_E0.264280.924
24_S33_L0.263720.922
1_E5_R0.260460.911
4_H7_K0.256490.897
62_R70_E0.254640.891
58_E70_E0.253570.887
49_Q64_Y0.250640.877
63_E66_E0.250240.875
66_E70_E0.245450.858
14_S37_Q0.244010.853
47_H51_Y0.239630.838
33_L50_L0.23930.837
35_D38_N0.238440.834
26_D30_R0.235150.822
6_V51_Y0.232030.811
20_Q39_R0.231870.811
7_K43_I0.227570.796
43_I51_Y0.227430.795
31_E70_E0.226420.792
34_E38_N0.225670.789
5_R39_R0.224060.784
37_Q41_Q0.223390.781
9_N13_I0.222740.779
45_L49_Q0.222650.779
14_S41_Q0.222480.778
2_L9_N0.220260.770
48_E67_E0.219920.769
3_H46_V0.217410.760
21_A24_S0.215930.755
46_V59_V0.213880.748
1_E4_H0.21290.745
55_D58_E0.211420.739
59_V64_Y0.209050.731
48_E51_Y0.208920.731
13_I43_I0.207870.727
10_L47_H0.206820.723
31_E62_R0.206420.722
8_N39_R0.205490.719
41_Q62_R0.204710.716
6_V47_H0.198750.695
3_H10_L0.197160.690
34_E62_R0.19580.685
42_A47_H0.194420.680
22_R46_V0.192980.675
1_E8_N0.192270.672
9_N47_H0.191640.670
6_V59_V0.191410.669
28_E58_E0.190670.667
45_L68_L0.189990.664
9_N45_L0.188140.658
12_I15_S0.18810.658
46_V51_Y0.187430.656
28_E52_Q0.184810.646
50_L68_L0.184660.646
55_D70_E0.184140.644
54_E70_E0.18360.642
22_R61_L0.182570.639
16_L45_L0.182050.637
3_H7_K0.181660.635
54_E69_C0.179890.629
24_S58_E0.178440.624
21_A38_N0.17790.622
4_H39_R0.175750.615
30_R67_E0.17130.599
18_R65_L0.17080.597
23_R63_E0.170470.596
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
3a0rA193.10.695
4gczA192.10.704
4i5sA190.20.717
3jz3A187.90.73
3d36A187.70.73
4ew8A186.80.734
1gkzA184.40.743
3ehhA0.973771.60.77
2btzA0.9737660.778
2e0aA0.947453.20.795
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

Page generated in 0.025 seconds.