GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
QRPTase_C - Quinolinate phosphoribosyl transferase C-terminal domain
Pfam: PF01729 (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: CL0036
Length: 169
Sequences: 5375
Seq/Len: 31.8
HH_delta: 0.094 (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
142_A146_K1.154143.231
67_E71_K1.065892.983
110_S113_D0.927582.596
137_T140_N0.845982.368
26_I33_E0.84442.364
129_K150_D0.819842.295
65_G68_E0.814012.278
35_Y39_A0.79472.224
67_E95_E0.792482.218
36_A40_G0.783912.194
87_V93_A0.75972.126
141_I152_I0.731222.047
94_E98_E0.726892.035
37_V42_G0.654131.831
113_D116_E0.642831.799
68_E72_A0.641861.797
140_N143_E0.64141.795
71_K75_Q0.636211.781
44_N51_D0.635061.778
136_I152_I0.629841.763
97_L128_V0.62931.761
136_I144_Y0.609341.706
115_K119_E0.595481.667
72_A75_Q0.592761.659
68_E71_K0.591621.656
103_I129_K0.591261.655
60_I95_E0.589861.651
88_E92_E0.587711.645
143_E146_K0.577511.616
111_P143_E0.572171.602
74_R102_D0.565591.583
116_E119_E0.548461.535
55_I60_I0.544051.523
20_A151_V0.53251.491
56_K92_E0.53031.484
114_L132_A0.527151.476
131_E151_V0.506371.417
112_E115_K0.501941.405
140_N144_Y0.488361.367
67_E98_E0.484961.357
89_N92_E0.480891.346
114_L144_Y0.469551.314
27_P31_P0.463961.299
54_L59_H0.456671.278
59_H62_F0.452291.266
63_F68_E0.450531.261
124_L130_I0.446041.248
97_L125_N0.441351.235
36_A39_A0.425471.191
129_K151_V0.419881.175
26_I36_A0.418791.172
28_G36_A0.416421.166
93_A113_D0.412681.155
154_V158_T0.408241.143
54_L62_F0.406521.138
94_E97_L0.400071.120
138_L142_A0.399321.118
132_A144_Y0.398361.115
93_A97_L0.398051.114
143_E147_T0.395931.108
72_A76_A0.38791.086
97_L127_R0.381031.067
90_L93_A0.373431.045
154_V157_L0.370831.038
93_A117_A0.369841.035
111_P144_Y0.357761.001
96_A99_A0.357181.000
49_L55_I0.35520.994
26_I40_G0.355180.994
19_I141_I0.353210.989
111_P147_T0.352910.988
91_E94_E0.35220.986
29_L32_L0.350920.982
22_T30_R0.350720.982
61_A88_E0.347410.972
69_A72_A0.346730.971
90_L94_E0.34020.952
80_K102_D0.337750.945
73_A76_A0.336250.941
87_V110_S0.334960.938
82_K102_D0.334910.937
136_I140_N0.332510.931
125_N128_V0.332020.929
95_E98_E0.331820.929
139_E143_E0.325450.911
92_E95_E0.323390.905
94_E125_N0.322890.904
111_P115_K0.317670.889
54_L57_D0.316580.886
25_T29_L0.31470.881
34_K45_H0.31260.875
155_G158_T0.310150.868
69_A73_A0.309780.867
83_I101_A0.307010.859
77_A80_K0.297920.834
144_Y149_V0.297730.833
63_F72_A0.296720.831
20_A79_E0.296170.829
145_A152_I0.292680.819
109_M113_D0.290440.813
57_D88_E0.289770.811
104_I117_A0.289180.809
93_A101_A0.286830.803
112_E116_E0.286330.801
30_R38_L0.284160.795
84_E103_I0.284010.795
107_D133_S0.282060.790
118_V147_T0.281840.789
84_E105_M0.281270.787
132_A148_G0.279170.781
71_K99_A0.278310.779
124_L128_V0.276340.773
90_L119_E0.27580.772
93_A130_I0.274750.769
93_A124_L0.274050.767
93_A104_I0.273830.766
66_I69_A0.273640.766
85_V96_A0.268520.752
138_L156_S0.267480.749
141_I154_V0.266150.745
118_V129_K0.264030.739
26_I29_L0.260490.729
90_L117_A0.25920.726
118_V130_I0.258860.725
138_L141_I0.256720.719
65_G69_A0.256440.718
40_G52_M0.256090.717
132_A149_V0.254140.711
112_E143_E0.252720.707
22_T25_T0.252270.706
50_S80_K0.250810.702
81_K103_I0.250810.702
82_K103_I0.250740.702
70_V73_A0.24880.696
47_L73_A0.248790.696
135_G154_V0.246640.690
114_L147_T0.244430.684
43_D79_E0.241740.677
132_A147_T0.241640.676
135_G156_S0.236530.662
92_E100_G0.236190.661
118_V125_N0.235780.660
96_A101_A0.23480.657
21_D44_N0.233960.655
47_L50_S0.233690.654
131_E153_S0.23190.649
21_D37_V0.23140.648
67_E99_A0.230750.646
64_G68_E0.230470.645
117_A130_I0.229560.643
74_R83_I0.229530.642
88_E110_S0.22950.642
94_E119_E0.22940.642
53_I77_A0.228640.640
130_I149_V0.228040.638
35_Y38_L0.227390.636
105_M153_S0.224840.629
65_G70_V0.224430.628
95_E99_A0.223820.626
90_L112_E0.223480.626
61_A92_E0.22280.624
103_I151_V0.222790.624
133_S153_S0.222720.623
70_V99_A0.222130.622
85_V104_I0.221080.619
82_K129_K0.218490.612
32_L36_A0.218230.611
90_L116_E0.218070.610
139_E142_A0.217040.608
74_R82_K0.216990.607
85_V101_A0.215420.603
106_L109_M0.21530.603
66_I83_I0.215170.602
29_L36_A0.212320.594
97_L124_L0.211720.593
106_L130_I0.211420.592
114_L130_I0.211120.591
54_L96_A0.207460.581
20_A103_I0.206530.578
100_G127_R0.20610.577
112_E119_E0.205070.574
91_E95_E0.203090.568
31_P35_Y0.20120.563
90_L124_L0.201030.563
55_I73_A0.200880.562
55_I96_A0.200390.561
112_E147_T0.199560.559
108_N153_S0.199150.557
132_A136_I0.197770.554
80_K103_I0.197360.552
108_N135_G0.197310.552
74_R100_G0.197170.552
74_R81_K0.196390.550
70_V74_R0.195780.548
101_A128_V0.195740.548
46_R131_E0.19540.547
30_R34_K0.195190.546
88_E105_M0.193860.543
48_G51_D0.193840.543
62_F144_Y0.192530.539
78_P81_K0.191020.535
43_D47_L0.190570.533
90_L113_D0.190430.533
145_A149_V0.19040.533
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
2b7nA11000.094
3l0gA0.97631000.095
3gnnA0.97631000.098
1o4uA0.98821000.1
3pajA0.97631000.101
3tqvA0.97631000.102
2jbmA11000.107
3c2eA11000.114
1x1oA0.98221000.122
1qpoA0.99411000.124

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