GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
HisG - ATP phosphoribosyltransferase
Pfam: PF01634 (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: CL0177
Length: 163
Sequences: 19995
Seq/Len: 122.67
HH_delta: 0.237 (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
71_A107_A2.586814.198
60_S63_D1.746822.835
59_K63_D1.543132.504
36_E142_K1.452362.357
17_L140_A1.452252.357
9_Y14_I1.425272.313
144_S148_K1.38462.247
68_L108_D1.340892.176
69_R90_E1.330072.159
9_Y15_A1.317412.138
153_D157_T1.310912.127
69_R92_I1.291852.096
149_E152_I1.236152.006
94_L101_A1.208591.961
150_E154_E1.201111.949
148_K151_K1.193621.937
154_E158_R1.189991.931
6_I18_G1.179751.915
149_E153_D1.14451.857
26_L29_G1.135381.843
53_P105_G1.10231.789
52_V109_A1.088771.767
80_R84_E1.071521.739
24_V29_G1.066231.730
70_I109_A1.059131.719
69_R108_D1.049841.704
150_E153_D1.023621.661
80_R83_A1.008831.637
79_R83_A1.000721.624
98_V110_I0.990591.608
54_E126_K0.948321.539
16_D144_S0.947121.537
101_A106_L0.944131.532
24_V137_R0.9381.522
62_E65_K0.931831.512
34_D142_K0.91021.477
141_N144_S0.894471.452
100_L103_P0.88461.436
13_G141_N0.88331.433
11_E35_V0.875891.421
154_E157_T0.859491.395
100_L104_L0.827831.343
52_V128_I0.791611.285
53_P56_W0.791.282
10_V18_G0.756871.228
82_F87_I0.750111.217
8_T11_E0.744011.207
8_T12_D0.728691.183
153_D156_V0.725791.178
36_E139_I0.723481.174
151_K156_V0.713371.158
81_Y85_K0.712051.156
71_A98_V0.708741.150
140_A152_I0.708731.150
79_R93_K0.703441.142
151_K154_E0.699751.136
25_L28_S0.691861.123
13_G143_A0.690441.120
152_I156_V0.689411.119
50_V109_A0.682071.107
101_A107_A0.670071.087
114_V118_T0.665771.080
39_L156_V0.663591.077
102_P110_I0.662641.075
52_V56_W0.662271.075
148_K156_V0.661921.074
151_K155_L0.661351.073
91_I95_S0.660731.072
118_T121_R0.652841.059
19_I138_L0.643971.045
58_Y63_D0.637141.034
129_E132_L0.632561.027
102_P107_A0.629061.021
99_E103_P0.626221.016
112_D117_G0.612960.995
52_V126_K0.601360.976
65_K88_N0.598410.971
10_V15_A0.587950.954
64_L109_A0.587030.953
55_D126_K0.586450.952
37_E137_R0.584250.948
73_K76_N0.579050.940
148_K155_L0.577040.936
7_P11_E0.567740.921
118_T122_A0.566730.920
49_V127_E0.564710.916
50_V111_V0.564320.916
125_L128_I0.563460.914
47_R114_V0.558920.907
45_K135_S0.556020.902
62_E85_K0.553070.898
119_T123_N0.552520.897
54_E124_G0.548990.891
17_L155_L0.548010.889
37_E143_A0.543030.881
144_S152_I0.542570.881
98_V101_A0.536190.870
65_K87_I0.525050.852
144_S151_K0.522280.848
148_K152_I0.517980.841
99_E102_P0.516870.839
10_V141_N0.510880.829
127_E130_T0.504160.818
6_I15_A0.502580.816
16_D141_N0.497420.807
68_L109_A0.496620.806
23_D27_E0.495920.805
140_A144_S0.494510.803
155_L158_R0.492610.799
94_L107_A0.491720.798
13_G16_D0.489080.794
74_Y95_S0.488830.793
34_D37_E0.487460.791
107_A110_I0.485540.788
59_K126_K0.484120.786
6_I9_Y0.482630.783
55_D105_G0.480350.780
102_P125_L0.473170.768
58_Y64_L0.47140.765
113_I136_A0.464540.754
119_T122_A0.463550.752
14_I106_L0.463410.752
49_V52_V0.462460.751
56_W68_L0.461390.749
148_K153_D0.461010.748
74_Y93_K0.454910.738
38_L140_A0.454860.738
11_E36_E0.454680.738
49_V114_V0.45450.738
22_K139_I0.450580.731
18_G139_I0.44340.720
48_L78_T0.442350.718
65_K68_L0.437640.710
101_A104_L0.437210.710
29_G35_V0.436870.709
61_V85_K0.435630.707
46_C114_V0.434980.706
57_P68_L0.434120.705
25_L29_G0.432080.701
69_R106_L0.431720.701
152_I155_L0.430180.698
94_L98_V0.429560.697
17_L152_I0.424770.689
148_K158_R0.422690.686
69_R107_A0.422690.686
121_R124_G0.422360.685
113_I116_T0.419750.681
105_G108_D0.418820.680
76_N79_R0.418440.679
20_T139_I0.415160.674
82_F85_K0.412150.669
19_I43_F0.411830.668
36_E40_D0.41160.668
72_T79_R0.41090.667
6_I21_G0.40960.665
120_L123_N0.40870.663
24_V28_S0.407660.662
126_K129_E0.407640.662
61_V65_K0.406310.659
144_S149_E0.40520.658
57_P126_K0.403040.654
20_T25_L0.399460.648
7_P22_K0.397020.644
78_T111_V0.393370.638
11_E14_I0.392950.638
103_P124_G0.392620.637
18_G22_K0.392190.636
99_E112_D0.390550.634
21_G136_A0.39040.634
74_Y77_L0.38930.632
52_V58_Y0.387690.629
64_L67_G0.383070.622
73_K112_D0.382410.621
50_V64_L0.382370.621
27_E34_D0.382010.620
37_E142_K0.381470.619
56_W126_K0.374750.608
81_Y84_E0.374180.607
115_E118_T0.369360.599
78_T81_Y0.368280.598
58_Y65_K0.36810.597
38_L156_V0.367250.596
40_D156_V0.367220.596
9_Y12_D0.367010.596
86_G89_V0.366620.595
50_V53_P0.366590.595
73_K98_V0.363660.590
71_A94_L0.362650.589
29_G142_K0.360880.586
44_G136_A0.360310.585
48_L134_S0.359440.583
59_K62_E0.359350.583
149_E155_L0.356940.579
53_P103_P0.356330.578
29_G36_E0.355160.576
52_V55_D0.354850.576
103_P123_N0.354340.575
52_V110_I0.351760.571
47_R130_T0.343930.558
29_G37_E0.341290.554
37_E40_D0.341190.554
130_T133_E0.339640.551
103_P125_L0.339460.551
48_L111_V0.338210.549
72_T91_I0.338060.549
75_P79_R0.338040.549
22_K137_R0.335640.545
71_A110_I0.335550.545
23_D113_I0.333450.541
10_V139_I0.332430.539
54_E57_P0.330830.537
15_A18_G0.330820.537
71_A102_P0.330030.536
51_A127_E0.329930.535
72_T111_V0.329850.535
46_C115_E0.327430.531
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
2ylnA0.957199.60.237
3hv1A0.938799.60.238
2ieeA0.932599.60.245
3ix1A0.987799.50.248
3kzgA0.938799.50.251
3uifA0.981699.50.256
3tqlA0.938799.50.258
2yjpA0.938799.50.26
2pvuA0.950999.50.263
1lstA0.938799.50.264

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