GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Y_phosphatase3 - Tyrosine phosphatase family
Pfam: PF13350 (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: CL0031
Length: 164
Sequences: 2847
Seq/Len: 17.36
HH_delta: 0.306 (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
129_F142_A0.855214.053
43_I128_L0.778063.687
23_R138_T0.667263.162
131_C138_T0.507592.405
32_E60_D0.50342.385
59_P62_L0.466462.210
31_T34_D0.43972.084
22_Y41_L0.407611.932
23_R142_A0.391061.853
24_S128_L0.383191.816
21_L145_L0.37621.783
113_Y119_L0.374411.774
133_A136_D0.373951.772
114_R118_E0.362131.716
37_R40_E0.352891.672
54_E137_R0.352771.672
38_L128_L0.347651.647
107_E133_A0.343651.628
116_I141_V0.340291.613
36_E39_R0.33921.607
113_Y116_I0.33481.587
52_P61_P0.32431.537
49_L141_V0.324221.536
133_A137_R0.322391.528
113_Y117_F0.316711.501
59_P63_I0.312231.480
106_L109_Y0.307411.457
134_G137_R0.298151.413
129_F141_V0.297041.408
35_L39_R0.296921.407
26_N59_P0.294991.398
39_R128_L0.288891.369
134_G138_T0.285691.354
113_Y141_V0.27871.321
28_S31_T0.277411.315
62_L130_H0.275091.304
114_R120_L0.273341.295
133_A138_T0.27211.289
69_V73_I0.271731.288
115_K119_L0.26441.253
118_E121_A0.262841.246
25_G28_S0.250281.186
130_H138_T0.248411.177
29_N60_D0.2481.175
21_L127_V0.246841.170
22_Y25_G0.245161.162
22_Y43_I0.240951.142
19_G22_Y0.240841.141
85_A99_L0.238861.132
82_D85_A0.235531.116
116_I120_L0.231981.099
135_K146_L0.221561.050
59_P64_D0.221211.048
136_D140_V0.218941.037
49_L116_I0.217461.030
131_C137_R0.215971.023
38_L48_D0.210890.999
67_Q72_P0.210520.998
105_M140_V0.2090.990
114_R121_A0.208010.986
34_D37_R0.207760.985
43_I125_G0.206170.977
131_C134_G0.205110.972
55_R70_H0.204280.968
114_R117_F0.20380.966
71_I74_F0.202720.961
54_E133_A0.201930.957
47_I119_L0.201670.956
145_L149_L0.201070.953
132_T137_R0.199150.944
68_Y73_I0.197710.937
110_A113_Y0.197140.934
140_V144_L0.197070.934
35_L46_I0.196610.932
47_I127_V0.195750.928
142_A147_S0.194470.922
134_G139_G0.194060.920
36_E46_I0.192210.911
23_R50_R0.191540.908
26_N133_A0.190640.903
69_V72_P0.190340.902
23_R131_C0.189060.896
69_V75_G0.187460.888
94_A97_G0.187120.887
85_A89_Q0.18580.880
26_N107_E0.184670.875
143_A147_S0.181060.858
45_T100_E0.179670.851
121_A145_L0.179130.849
42_G125_G0.17850.846
90_S94_A0.177720.842
86_E98_M0.176140.835
120_L127_V0.174920.829
76_D79_S0.174610.827
52_P70_H0.174350.826
82_D86_E0.174350.826
95_P99_L0.174260.826
46_I62_L0.171970.815
20_R149_L0.17190.815
33_A43_I0.17130.812
29_N58_A0.170760.809
68_Y71_I0.170550.808
48_D99_L0.170040.806
34_D48_D0.168790.800
88_L96_R0.168550.799
52_P63_I0.168260.797
51_S57_R0.168230.797
107_E131_C0.16820.797
142_A145_L0.167210.792
44_R125_G0.167020.791
71_I75_G0.165710.785
99_L105_M0.164660.780
146_L149_L0.164570.780
131_C139_G0.164210.778
36_E40_E0.163440.774
51_S55_R0.163330.774
82_D87_L0.163090.773
57_R108_S0.162750.771
75_G78_A0.162570.770
74_F80_S0.162450.770
44_R126_P0.162310.769
133_A139_G0.162030.768
49_L135_K0.161680.766
42_G95_P0.159290.755
43_I127_V0.159040.754
53_T96_R0.159010.753
49_L129_F0.158780.752
54_E57_R0.158490.751
46_I130_H0.158350.750
83_K103_R0.157720.747
72_P80_S0.156890.743
101_F105_M0.156160.740
84_L87_L0.156090.740
117_F120_L0.155920.739
91_S94_A0.155140.735
85_A88_L0.154850.734
37_R53_T0.154570.732
100_E105_M0.154570.732
110_A114_R0.153430.727
132_T136_D0.152860.724
44_R123_A0.152710.724
53_T56_E0.152580.723
22_Y38_L0.15190.720
52_P99_L0.151340.717
65_G69_V0.151210.717
109_Y140_V0.150820.715
64_D104_E0.149730.710
72_P75_G0.149270.707
31_T38_L0.148380.703
93_D97_G0.148320.703
86_E96_R0.148240.702
116_I145_L0.147340.698
36_E48_D0.14680.696
24_S35_L0.146370.694
63_I99_L0.146340.693
45_T98_M0.146030.692
83_K88_L0.145810.691
125_G148_L0.14450.685
77_D80_S0.143890.682
45_T69_V0.143810.681
41_L126_P0.143720.681
77_D86_E0.143690.681
32_E56_E0.143680.681
48_D101_F0.143640.681
31_T129_F0.142570.676
48_D130_H0.142510.675
25_G34_D0.142440.675
78_A81_P0.142080.673
128_L145_L0.141750.672
91_S123_A0.141450.670
33_A122_D0.141250.669
64_D142_A0.141220.669
131_C136_D0.140830.667
35_L63_I0.14030.665
135_K138_T0.14020.664
102_Y116_I0.140160.664
107_E140_V0.139820.663
45_T125_G0.139090.659
24_S30_L0.138940.658
82_D119_L0.138110.654
130_H133_A0.137970.654
95_P126_P0.137920.654
76_D104_E0.137840.653
77_D89_Q0.137560.652
132_T139_G0.137440.651
132_T135_K0.137310.651
54_E132_T0.137130.650
62_L99_L0.136870.649
129_F145_L0.136550.647
78_A90_S0.135860.644
52_P55_R0.135790.643
18_P22_Y0.135510.642
136_D139_G0.13550.642
72_P79_S0.135420.642
68_Y74_F0.134550.638
63_I142_A0.134270.636
48_D135_K0.134260.636
135_K139_G0.13410.635
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
4ge6A0.99391000.306
3i36A0.99391000.307
2cjzA11000.31
3ps5A11000.311
3s3eA0.99391000.311
1jlnA11000.313
1ygrA0.99391000.316
1yfoA0.99391000.316
2jjdA0.99391000.318
2bzlA11000.318

Page generated in 0.0158 seconds.