GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Pribosyl_synth - Phosphoribosyl synthetase-associated domain
Pfam: PF14572 (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: CL0533
Length: 184
Sequences: 3217
Seq/Len: 17.48
HH_delta: 0.223 (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
85_I113_K1.148754.024
138_E158_K0.960653.365
129_E133_E0.854652.994
113_K137_D0.838592.937
104_E108_E0.837852.935
85_I112_K0.825092.890
126_D130_R0.709792.486
146_P149_E0.606562.125
99_L116_A0.599732.101
5_A27_L0.577582.023
121_G141_V0.570811.999
101_K104_E0.55271.936
132_E155_P0.533021.867
83_G112_K0.51871.817
104_E135_P0.496841.740
78_V82_K0.495151.734
132_E154_C0.484471.697
7_I18_A0.48031.682
86_C106_L0.477491.673
107_K137_D0.471531.652
96_G100_I0.464761.628
6_V84_K0.463041.622
85_I115_Y0.455351.595
6_V86_C0.450341.577
117_C158_K0.42431.486
93_I118_A0.422841.481
149_E153_Q0.42121.475
154_C157_I0.42081.474
15_A31_V0.411281.441
93_I139_V0.409331.434
161_D164_P0.404621.417
123_F139_V0.392261.374
143_N161_D0.388731.362
144_T151_K0.387821.358
82_K109_R0.385131.349
94_D124_S0.384641.347
38_D71_E0.380151.332
88_I102_A0.3791.328
5_A87_I0.374911.313
20_S23_D0.364081.275
71_E97_G0.362211.269
14_G17_R0.353661.239
72_K101_K0.351141.230
126_D129_E0.351071.230
111_A114_V0.347641.218
8_V30_A0.340191.192
93_I96_G0.339771.190
107_K135_P0.331421.161
115_Y156_K0.329511.154
32_I102_A0.322431.129
131_L139_V0.316391.108
118_A141_V0.313411.098
115_Y137_D0.307141.076
96_G126_D0.304461.066
37_R71_E0.300541.053
5_A85_I0.296231.038
4_N85_I0.290951.019
22_A27_L0.288661.011
28_G84_K0.287581.007
121_G147_Q0.285090.999
128_P132_E0.285070.999
145_I149_E0.28450.997
12_P16_K0.284090.995
12_P29_F0.283030.991
116_A136_I0.282640.990
135_P138_E0.2810.984
19_T35_E0.280980.984
122_V141_V0.280530.983
73_P76_N0.279440.979
115_Y138_E0.278390.975
107_K114_V0.272450.954
104_E107_K0.271890.952
5_A84_K0.266320.933
149_E152_L0.265110.929
100_I130_R0.263950.925
9_A15_A0.263690.924
162_I166_L0.262840.921
8_V32_I0.258770.906
125_G136_I0.257980.904
15_A29_F0.255050.893
22_A25_L0.254270.891
96_G130_R0.254010.890
74_P105_L0.253780.889
4_N112_K0.252780.885
139_V154_C0.247840.868
11_D36_R0.246290.863
17_R119_T0.243910.854
19_T22_A0.243610.853
8_V88_I0.240380.842
19_T23_D0.240110.841
147_Q159_V0.239350.838
6_V30_A0.237750.833
19_T33_H0.235770.826
14_G75_M0.234720.822
131_L134_S0.234720.822
102_A105_L0.233370.817
13_G98_T0.231340.810
141_V159_V0.231210.810
164_P167_A0.230680.808
8_V86_C0.230280.807
9_A14_G0.229360.803
19_T29_F0.228870.802
97_G126_D0.228790.801
123_F133_E0.228340.800
141_V157_I0.227860.798
82_K110_G0.227280.796
148_E153_Q0.226670.794
8_V106_L0.225820.791
103_A116_A0.224640.787
13_G34_G0.220990.774
103_A136_I0.220930.774
31_V79_G0.219920.770
123_F131_L0.216990.760
86_C107_K0.216470.758
21_F89_V0.214170.750
144_T162_I0.212820.745
148_E151_K0.212550.745
107_K113_K0.212380.744
147_Q150_Q0.211720.742
87_I117_C0.210880.739
147_Q157_I0.210460.737
9_A31_V0.210220.736
81_V111_A0.20880.731
33_H76_N0.20860.731
21_F117_C0.208170.729
86_C117_C0.207010.725
70_K95_T0.206530.723
136_I142_T0.205570.720
36_R97_G0.204850.718
16_K77_V0.20330.712
148_E152_L0.202520.709
29_F35_E0.202140.708
34_G97_G0.202040.708
7_I25_L0.201680.706
13_G36_R0.20120.705
37_R72_K0.200340.702
36_R98_T0.199820.700
81_V106_L0.199740.700
118_A139_V0.197970.693
35_E38_D0.197340.691
128_P154_C0.19650.688
31_V37_R0.196470.688
148_E159_V0.196280.688
101_K105_L0.195880.686
104_E153_Q0.19580.686
92_I97_G0.195150.684
79_G166_L0.192880.676
9_A29_F0.192360.674
37_R69_P0.1920.673
88_I116_A0.191550.671
100_I104_E0.191020.669
132_E156_K0.190430.667
107_K155_P0.189670.664
70_K94_D0.189470.664
16_K79_G0.189290.663
148_E155_P0.188650.661
18_A89_V0.188270.659
23_D78_V0.188210.659
116_A134_S0.188090.659
143_N162_I0.187580.657
12_P37_R0.187320.656
37_R74_P0.186840.654
89_V117_C0.186280.652
72_K75_M0.185360.649
129_E132_E0.18480.647
140_V148_E0.184540.646
122_V145_I0.183470.643
92_I118_A0.182330.639
104_E133_E0.182320.639
81_V86_C0.182160.638
123_F134_S0.180940.634
69_P101_K0.180740.633
100_I151_K0.180280.631
151_K157_I0.179830.630
4_N87_I0.178020.624
141_V147_Q0.175760.616
24_R157_I0.174860.612
32_I105_L0.174110.610
108_E112_K0.173880.609
28_G113_K0.173410.607
69_P73_P0.17270.605
21_F160_L0.172530.604
90_D96_G0.17250.604
124_S142_T0.172380.604
131_L154_C0.170960.599
116_A152_L0.17030.597
163_S167_A0.17030.597
31_V35_E0.170090.596
124_S127_A0.167650.587
71_E89_V0.166780.584
118_A121_G0.166340.583
78_V162_I0.165530.580
21_F115_Y0.165470.580
93_I116_A0.165290.579
119_T124_S0.165080.578
79_G88_I0.165030.578
14_G92_I0.164820.577
143_N167_A0.164150.575
79_G122_V0.163640.573
103_A111_A0.162930.571
78_V143_N0.162710.570
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
2ji4A11000.223
3s5jB0.8371000.235
3dahA0.8371000.239
1dkuA0.83151000.256
3lrtA0.73911000.391
1u9yA0.7121000.398
1ecfA0.902299.90.517
1ao0A0.902299.80.554
1wd5A0.907699.80.567
1i5eA0.766399.70.634

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