GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF619 - Protein of unknown function (DUF619)
Pfam: PF04768 (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: CL0257
Length: 170
Sequences: 9373
Seq/Len: 55.14
HH_delta: 0.387 (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
24_K30_E1.528973.227
72_E100_A1.133472.393
24_K66_Y1.11512.354
75_A113_I1.072682.264
112_A115_K1.057992.233
73_G96_V0.980262.069
77_V117_F0.97532.059
131_N134_Y0.955932.018
107_D138_S0.955922.018
115_K119_K0.950692.007
114_R141_S0.909631.920
75_A109_V0.876711.851
107_D137_R0.835011.763
40_L97_S0.831281.755
114_R120_L0.817681.726
143_K146_G0.808041.706
96_V106_A0.805281.700
70_D99_S0.805051.699
130_N134_Y0.781151.649
33_D71_Y0.756791.597
33_D36_K0.749521.582
130_N133_W0.745841.574
132_K137_R0.707831.494
122_W134_Y0.697471.472
117_F120_L0.686131.448
40_L98_K0.684561.445
112_A116_D0.664751.403
77_V113_I0.647031.366
97_S100_A0.639621.350
100_A103_S0.637731.346
129_P133_W0.629591.329
96_V105_V0.628741.327
107_D111_N0.626691.323
64_K71_Y0.624271.318
74_A95_A0.601531.270
91_L110_F0.594691.255
114_R140_G0.585021.235
70_D97_S0.581811.228
70_D100_A0.572821.209
27_S30_E0.568381.200
49_L53_H0.568291.200
105_V108_N0.568051.199
37_L97_S0.558871.180
42_E98_K0.558191.178
37_L95_A0.553241.168
124_S128_N0.551491.164
33_D70_D0.551261.164
41_L45_F0.539971.140
124_S131_N0.534091.127
83_D86_G0.533411.126
88_V121_F0.523221.104
63_F66_Y0.521521.101
32_V36_K0.518061.094
90_Y123_R0.514631.086
21_K105_V0.512881.083
51_V55_L0.502481.061
128_N132_K0.497421.050
55_L58_L0.495811.047
40_L43_R0.492691.040
142_F145_N0.492181.039
144_R148_V0.491821.038
108_N112_A0.485641.025
116_D119_K0.485361.025
62_L65_I0.478751.011
96_V101_Q0.476111.005
42_E45_F0.475371.003
110_F138_S0.47260.998
143_K147_W0.47180.996
66_Y69_E0.467620.987
31_F35_D0.466280.984
144_R147_W0.465880.983
21_K108_N0.46340.978
114_R118_P0.461060.973
24_K27_S0.459390.970
50_D53_H0.458260.967
94_F110_F0.452460.955
36_K97_S0.450190.950
36_K40_L0.441440.932
137_R143_K0.440710.930
94_F134_Y0.439170.927
106_A134_Y0.439050.927
67_V72_E0.438240.925
37_L71_Y0.432330.913
26_S74_A0.431910.912
106_A133_W0.429490.907
26_S64_K0.428490.904
140_G145_N0.427530.902
94_F106_A0.424590.896
94_F122_W0.42190.891
131_N137_R0.418940.884
111_N115_K0.417070.880
22_I69_E0.414680.875
62_L66_Y0.412820.871
26_S34_L0.409570.865
48_K51_V0.407370.860
65_I109_V0.40620.857
145_N148_V0.40610.857
89_P117_F0.404730.854
108_N111_N0.399250.843
100_A105_V0.397440.839
98_K101_Q0.397380.839
124_S134_Y0.397180.838
140_G144_R0.396970.838
53_H57_R0.394570.833
110_F139_D0.391610.827
36_K70_D0.391380.826
25_H28_L0.389850.823
51_V54_Y0.389250.822
138_S141_S0.388370.820
28_L31_F0.385810.814
104_G107_D0.385550.814
107_D139_D0.384780.812
46_G50_D0.383110.809
39_A43_R0.378470.799
39_A42_E0.376050.794
52_D56_D0.375980.794
126_E146_G0.372980.787
50_D55_L0.370960.783
33_D37_L0.370330.782
31_F34_L0.367460.776
141_S145_N0.364020.768
149_L152_Y0.363160.767
96_V100_A0.362260.765
72_E105_V0.35970.759
48_K52_D0.358630.757
102_G129_P0.353830.747
51_V58_L0.352630.744
40_L99_S0.349950.739
47_G50_D0.349710.738
101_Q129_P0.349140.737
146_G149_L0.34780.734
93_K96_V0.346040.730
40_L44_S0.344510.727
54_Y58_L0.343210.724
23_L112_A0.343060.724
32_V35_D0.342930.724
22_I66_Y0.342850.724
141_S144_R0.341520.721
71_Y74_A0.338220.714
61_R65_I0.337550.713
36_K39_A0.335730.709
89_P120_L0.334790.707
35_D39_A0.334240.706
78_T93_K0.328980.694
96_V109_V0.326780.690
63_F116_D0.325080.686
38_R95_A0.324490.685
77_V89_P0.323110.682
38_R44_S0.321880.679
34_L74_A0.321560.679
50_D58_L0.3210.678
66_Y71_Y0.314620.664
40_L45_F0.313610.662
64_K67_V0.313470.662
25_H116_D0.311760.658
111_N114_R0.310640.656
49_L55_L0.310450.655
44_S95_A0.310050.654
90_Y121_F0.305560.645
61_R64_K0.304730.643
94_F131_N0.303870.641
21_K112_A0.301140.636
32_V51_V0.300740.635
115_K118_P0.30.633
91_L94_F0.299250.632
30_E33_D0.299050.631
145_N149_L0.296930.627
137_R140_G0.294440.622
46_G54_Y0.294410.621
73_G109_V0.293860.620
47_G51_V0.292070.617
67_V71_Y0.291820.616
67_V70_D0.290710.614
109_V112_A0.290150.612
38_R45_F0.290120.612
22_I25_H0.288630.609
50_D54_Y0.287470.607
79_P89_P0.287380.607
44_S101_Q0.28390.599
113_I117_F0.282160.596
67_V100_A0.281810.595
93_K134_Y0.280930.593
46_G51_V0.28080.593
110_F133_W0.279740.590
107_D133_W0.279190.589
23_L108_N0.278360.588
124_S132_K0.277520.586
110_F122_W0.277090.585
91_L122_W0.276630.584
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
3d2mA0.958899.50.387
1tiqA0.876599.50.406
2x7bA0.905999.50.406
1gheA0.888299.50.406
3dddA0.941299.50.408
2cntA0.829499.50.409
1s3zA0.894199.50.411
3kkwA0.947199.50.411
4evyA0.888299.50.413
2ge3A0.999.50.413

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