GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
HWE_HK - HWE histidine kinase
Pfam: PF07536 (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: 83
Sequences: 1893
Seq/Len: 22.81
HH_delta: 0.733 (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_A34_F1.16874.129
7_K46_D0.687452.429
59_R63_E0.638772.257
47_L64_A0.593492.097
2_L6_V0.584222.064
46_D50_R0.541241.912
3_N6_V0.523171.849
13_V38_L0.520991.841
3_N49_S0.497321.757
4_H8_N0.477451.687
3_N45_H0.4591.622
61_L65_E0.431.519
6_V9_L0.391411.383
18_R35_S0.390861.381
3_N9_L0.379881.342
17_A38_L0.366681.296
19_Q22_R0.354751.253
25_A32_E0.353221.248
63_E67_A0.351841.243
52_D55_G0.348811.232
43_R64_A0.344611.218
18_R39_Q0.335951.187
31_A34_F0.33181.172
9_L41_L0.329691.165
30_F65_E0.328211.160
57_S60_D0.321681.137
1_E5_R0.316731.119
39_Q43_R0.303621.073
30_F34_F0.303411.072
61_L69_Y0.298961.056
27_V30_F0.297151.050
44_A65_E0.294211.040
44_A56_V0.287681.016
29_E32_E0.282250.997
3_N44_A0.279680.988
55_G67_A0.273260.966
11_A15_A0.272150.962
15_A42_A0.271640.960
14_Q35_S0.270970.957
66_L69_Y0.269130.951
24_A30_F0.268230.948
11_A38_L0.268120.947
6_V45_H0.267920.947
47_L60_D0.265620.939
1_E4_H0.264220.934
25_A28_E0.260990.922
25_A29_E0.258420.913
10_L41_L0.256930.908
7_K41_L0.24780.876
20_T37_R0.247430.874
20_T34_F0.241130.852
26_S29_E0.231010.816
65_E69_Y0.228920.809
9_L45_H0.227210.803
22_R44_A0.226650.801
39_Q42_A0.223910.791
16_I43_R0.223310.789
53_W56_V0.221770.784
62_V66_L0.220980.781
60_D63_E0.220760.780
12_V15_A0.216890.766
23_S29_E0.21660.765
46_D49_S0.213250.753
24_A31_A0.210140.742
43_R68_P0.209270.739
9_L13_V0.208790.738
21_A28_E0.208490.737
43_R47_L0.206750.731
50_R64_A0.205950.728
58_L68_P0.204780.724
32_E36_G0.204570.723
32_E63_E0.202970.717
9_L12_V0.202170.714
13_V41_L0.202130.714
35_S39_Q0.201220.711
25_A63_E0.20030.708
24_A40_A0.200210.707
29_E33_A0.200120.707
41_L53_W0.19910.703
16_I40_A0.19690.696
19_Q38_L0.195180.690
41_L49_S0.194450.687
14_Q39_Q0.194160.686
2_L10_L0.192370.680
3_N53_W0.189260.669
24_A28_E0.188950.668
7_K49_S0.188650.667
59_R67_A0.187210.661
18_R58_L0.185910.657
6_V49_S0.185060.654
11_A54_E0.184330.651
21_A31_A0.180290.637
31_A48_L0.180220.637
21_A54_E0.179960.636
3_N7_K0.179310.634
23_S59_R0.176760.625
4_H7_K0.176390.623
40_A45_H0.176250.623
7_K45_H0.175920.622
2_L9_L0.175810.621
50_R63_E0.175050.619
36_G58_L0.173820.614
39_Q59_R0.172660.610
24_A55_G0.17190.607
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
3a0rA195.40.733
4i5sA194.90.741
4gczA193.90.754
3jz3A192.80.764
4ew8A191.80.771
3d36A191.30.774
1gkzA188.20.788
3ehhA0.963980.50.807
2e0aA0.951874.20.817
1y8oA0.98871.30.821
If you are interested in a protein containing this domain,
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