GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
dUTPase - dUTPase
Pfam: PF00692 (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: CL0153
Length: 129
Sequences: 2576
Seq/Len: 19.97
HH_delta: -0.004 (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
10_R13_D1.069073.333
27_P87_P0.931852.905
41_N116_S0.917062.859
23_D91_E0.855642.668
91_E94_D0.841492.624
61_L88_I0.771742.406
27_P30_E0.771122.404
48_A99_L0.763842.382
41_N73_R0.755322.355
13_D71_G0.744412.321
10_R71_G0.725962.263
12_G70_P0.70432.196
15_G100_V0.653072.036
16_Y109_V0.632521.972
49_L102_I0.626551.953
31_T60_G0.618371.928
51_L67_V0.598991.868
25_V89_R0.594951.855
8_R16_Y0.577121.799
28_P87_P0.575791.795
53_R95_R0.575271.794
35_P75_E0.55561.732
30_E85_D0.550141.715
35_P77_K0.549971.715
42_I101_F0.533571.664
23_D89_R0.518991.618
33_L77_K0.514421.604
20_A90_I0.511031.593
8_R106_T0.500911.562
49_L67_V0.498431.554
25_V87_P0.491431.532
23_D92_K0.486371.516
45_G103_P0.474511.479
26_I32_V0.471651.471
7_K19_Y0.47041.467
21_P92_K0.459321.432
59_K88_I0.444051.384
37_G75_E0.442421.379
62_I81_Y0.41961.308
48_A101_F0.416661.299
40_I48_A0.412611.286
51_L102_I0.411771.284
47_Y67_V0.408441.273
42_I48_A0.406361.267
9_A19_Y0.404111.260
8_R107_P0.402331.254
29_G85_D0.397871.240
18_L48_A0.390541.218
66_G69_D0.37891.181
78_I97_A0.375891.172
46_Y101_F0.373281.164
36_T78_I0.360131.123
11_P44_P0.35411.104
54_S98_Q0.349651.090
50_I99_L0.340931.063
47_Y51_L0.33541.046
47_Y102_I0.33141.033
31_T81_Y0.331351.033
59_K94_D0.329681.028
64_H81_Y0.328941.026
46_Y105_S0.313190.976
78_I96_I0.304760.950
28_P82_N0.292630.912
69_D74_G0.29240.912
68_I76_I0.291960.910
62_I83_H0.290690.906
69_D72_Y0.286720.894
79_I125_F0.283690.885
50_I97_A0.279440.871
22_E35_P0.276080.861
34_V80_I0.275550.859
52_P62_I0.274540.856
120_R126_G0.274310.855
101_F107_P0.274290.855
29_G84_S0.274090.855
42_I46_Y0.274090.855
80_I96_I0.268230.836
11_P119_E0.268170.836
112_V115_F0.266940.832
9_A127_S0.266770.832
68_I99_L0.266360.830
14_A47_Y0.265320.827
40_I99_L0.264170.824
58_R65_P0.26350.822
17_D98_Q0.260820.813
66_G72_Y0.259350.809
18_L99_L0.258070.805
110_E114_E0.254840.795
73_R115_F0.254060.792
24_F34_V0.246620.769
53_R98_Q0.246180.768
55_S98_Q0.24560.766
12_G44_P0.245480.765
90_I96_I0.242970.758
64_H79_I0.240610.750
113_E117_N0.238030.742
29_G83_H0.237820.741
9_A12_G0.237370.740
49_L100_V0.2370.739
33_L79_I0.235910.736
46_Y109_V0.235630.735
38_E76_I0.235210.733
40_I76_I0.2340.730
48_A68_I0.229620.716
67_V72_Y0.228950.714
66_G98_Q0.226740.707
31_T83_H0.226320.706
28_P85_D0.225470.703
44_P106_T0.224770.701
16_Y107_P0.222920.695
44_P70_P0.222280.693
21_P39_E0.221060.689
21_P35_P0.220390.687
19_Y38_E0.218740.682
52_P64_H0.217770.679
63_V80_I0.216480.675
61_L64_H0.211660.660
24_F32_V0.208960.652
108_P111_P0.207920.648
26_I82_N0.205580.641
18_L38_E0.205470.641
62_I65_P0.204220.637
114_E117_N0.202550.632
117_N122_E0.202440.631
41_N115_F0.202170.630
39_E75_E0.201690.629
24_F90_I0.200490.625
73_R121_G0.199580.622
50_I78_I0.197140.615
54_S95_R0.196770.613
52_P63_V0.196750.613
16_Y99_L0.196390.612
57_A79_I0.196210.612
114_E119_E0.195330.609
14_A70_P0.193990.605
22_E92_K0.193280.603
63_V83_H0.193250.603
52_P57_A0.192790.601
42_I70_P0.192220.599
60_G84_S0.191990.599
21_P34_V0.190610.594
60_G83_H0.189770.592
12_G106_T0.186650.582
115_F118_T0.186070.580
10_R119_E0.184930.577
52_P65_P0.184420.575
31_T86_E0.184040.574
51_L64_H0.183650.573
107_P111_P0.182940.570
70_P106_T0.182440.569
101_F127_S0.180630.563
80_I83_H0.180560.563
21_P24_F0.1790.558
119_E122_E0.177650.554
57_A81_Y0.177330.553
51_L100_V0.176710.551
7_K11_P0.175980.549
89_R94_D0.175750.548
123_G127_S0.17480.545
22_E32_V0.174470.544
54_S74_G0.173140.540
55_S82_N0.17310.540
18_L97_A0.172580.538
19_Y106_T0.172490.538
75_E123_G0.16940.528
120_R123_G0.168980.527
13_D17_D0.16840.525
9_A13_D0.167820.523
36_T97_A0.167650.523
47_Y100_V0.167060.521
11_P106_T0.166590.519
20_A88_I0.166450.519
31_T79_I0.166210.518
20_A35_P0.165860.517
39_E115_F0.165730.517
93_G127_S0.165620.516
59_K89_R0.165190.515
112_V119_E0.165070.515
50_I66_G0.164980.514
54_S124_G0.164720.514
67_V100_V0.164710.514
95_R98_Q0.1620.505
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
3f4fA1100-0.004
3lqwA1100-0.001
3p48A11000.005
3so2A11000.006
2ol1A11000.006
3ecyA11000.007
3hzaA11000.013
2p9oA11000.013
3ca9A11000.014
3araA11000.019

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