GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1350 - Protein of unknown function (DUF1350)
Pfam: PF07082 (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: CL0028
Length: 250
Sequences: 13937
Seq/Len: 55.75
HH_delta: 0.337 (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
93_Y117_G1.729084.023
108_G118_N1.510673.515
172_N200_P1.172592.728
180_D198_T1.118782.603
17_K49_A1.088932.534
78_A82_R1.088352.532
94_G104_H1.063332.474
183_E187_Q1.063012.473
120_L123_F1.002762.333
184_Q188_Q0.907352.111
74_R78_A0.901462.098
20_I95_V0.891392.074
88_A91_P0.880492.049
104_H118_N0.817521.902
183_E194_V0.815421.897
172_N198_T0.798921.859
42_R46_R0.795891.852
19_V49_A0.78661.830
82_R85_L0.785051.827
118_N166_N0.775291.804
183_E196_I0.773941.801
22_F95_V0.742681.728
186_L191_P0.729351.697
19_V87_P0.680731.584
170_K196_I0.678621.579
78_A81_K0.677531.576
97_H122_S0.67491.570
98_S203_H0.664921.547
19_V51_I0.657031.529
20_I48_Y0.651651.516
25_G98_S0.642951.496
169_I197_Q0.624381.453
105_L120_L0.624051.452
187_Q194_V0.606761.412
95_V119_I0.599131.394
185_I189_R0.595881.386
81_K85_L0.595531.386
185_I188_Q0.59371.381
80_Q84_G0.58241.355
90_L116_A0.577961.345
19_V92_V0.565081.315
105_L182_L0.556321.294
94_G107_I0.547591.274
174_D177_D0.544231.266
97_H121_I0.542181.262
168_L183_E0.541941.261
23_I94_G0.54141.260
95_V121_I0.533041.240
37_R41_E0.529451.232
102_K106_L0.528341.229
77_R81_K0.521211.213
119_I167_L0.517191.203
191_P194_V0.5171.203
40_L52_A0.507431.181
73_E77_R0.506461.178
180_D184_Q0.504761.174
80_Q114_E0.504411.174
49_A87_P0.503291.171
186_L194_V0.502591.169
120_L168_L0.492041.145
61_H64_I0.491991.145
154_R158_R0.49191.145
101_C123_F0.489411.139
168_L182_L0.488941.138
96_G100_G0.488591.137
22_F40_L0.487591.135
78_A83_G0.486161.131
18_G91_P0.485581.130
165_R192_D0.484121.126
173_D201_G0.483921.126
184_Q187_Q0.481231.120
21_H92_V0.480131.117
106_L110_L0.477461.111
26_A99_L0.477041.110
22_F50_V0.47661.109
76_L80_Q0.47611.108
75_C78_A0.475041.105
75_C82_R0.473261.101
155_R158_R0.469141.092
195_S199_L0.466251.085
81_K84_G0.466021.084
149_S152_E0.46491.082
23_I104_H0.462581.076
79_L82_R0.461791.074
170_K179_T0.460981.073
154_R157_I0.460441.071
91_P116_A0.460361.071
74_R81_K0.460041.070
24_G52_A0.457721.065
169_I199_L0.457721.065
40_L44_A0.457031.063
72_F78_A0.453551.055
22_F97_H0.448961.045
41_E45_D0.446081.038
151_E155_R0.4441.033
18_G88_A0.443861.033
124_N127_P0.440551.025
18_G48_Y0.438671.021
42_R45_D0.437641.018
73_E110_L0.437261.017
80_Q111_F0.43561.014
22_F52_A0.435071.012
104_H108_G0.433681.009
74_R77_R0.425680.990
166_N186_L0.421390.980
180_D196_I0.421340.980
101_C120_L0.413880.963
167_L197_Q0.413850.963
59_F63_A0.413470.962
94_G115_R0.40570.944
152_E155_R0.399820.930
93_Y119_I0.392550.913
182_L186_L0.388020.903
170_K198_T0.386990.900
96_G101_C0.38630.899
76_L115_R0.384280.894
78_A85_L0.379620.883
105_L166_N0.379310.883
199_L205_T0.378470.881
23_I103_L0.377480.878
121_I169_I0.377030.877
77_R80_Q0.37650.876
36_Y97_H0.375910.875
145_E148_P0.375640.874
122_S171_F0.375350.873
181_E184_Q0.373690.870
178_Q181_E0.371450.864
16_P88_A0.371230.864
151_E154_R0.370120.861
99_L102_K0.368380.857
20_I93_Y0.367140.854
155_R159_E0.366140.852
122_S204_L0.365670.851
71_R78_A0.364110.847
44_A49_A0.363670.846
170_K177_D0.363470.846
158_R161_Y0.360740.839
106_L109_S0.36060.839
79_L83_G0.358460.834
172_N201_G0.358440.834
168_L179_T0.358320.834
173_D202_N0.35830.834
27_F99_L0.356580.830
99_L103_L0.356570.830
179_T183_E0.35530.827
23_I107_I0.354760.825
117_G165_R0.354060.824
31_A35_T0.349130.812
195_S200_P0.347710.809
104_H120_L0.34650.806
166_N171_F0.346420.806
180_D183_E0.345910.805
62_Q66_R0.345210.803
21_H51_I0.344150.801
72_F107_I0.34370.800
105_L118_N0.342920.798
94_G118_N0.342820.798
102_K124_N0.340510.792
62_Q68_V0.340020.791
150_P153_T0.338680.788
101_C104_H0.336990.784
175_D202_N0.335720.781
24_G27_F0.334030.777
26_A103_L0.333970.777
18_G49_A0.333680.776
16_P86_D0.330340.769
68_V71_R0.329450.767
157_I161_Y0.32930.766
40_L50_V0.329170.766
95_V104_H0.328250.764
168_L194_V0.325290.757
109_S182_L0.324410.755
74_R82_R0.323030.752
75_C83_G0.322640.751
148_P153_T0.320780.746
119_I169_I0.318750.742
166_N182_L0.31740.739
183_E198_T0.316490.736
60_D63_A0.31580.735
72_F75_C0.315680.735
17_K47_G0.314910.733
110_L113_V0.313830.730
43_L95_V0.312620.727
79_L107_I0.312530.727
134_L138_L0.312470.727
44_A50_V0.312410.727
174_D203_H0.311120.724
194_V198_T0.310670.723
135_L140_P0.309280.720
23_I72_F0.309210.719
22_F36_Y0.308970.719
144_L147_T0.308130.717
60_D67_E0.307830.716
76_L107_I0.307820.716
24_G32_P0.306630.713
20_I43_L0.304430.708
19_V93_Y0.303960.707
32_P52_A0.30240.704
139_A142_L0.301850.702
117_G167_L0.301560.702
122_S205_T0.300840.700
64_I67_E0.298560.695
36_Y39_L0.29820.694
148_P152_E0.296770.691
120_L125_N0.29640.690
67_E71_R0.295310.687
20_I50_V0.294970.686
83_G92_V0.293690.683
75_C80_Q0.293590.683
167_L195_S0.293550.683
79_L115_R0.292560.681
62_Q65_A0.292330.680
21_H115_R0.291570.678
181_E185_I0.291150.677
22_F39_L0.290580.676
115_R118_N0.290320.676
187_Q190_F0.290220.675
39_L43_L0.290070.675
36_Y40_L0.28920.673
171_F205_T0.287820.670
143_R148_P0.287310.669
71_R79_L0.287290.668
39_L42_R0.287150.668
65_A68_V0.286110.666
145_E149_S0.286040.666
18_G93_Y0.285450.664
87_P92_V0.284520.662
108_G164_R0.284220.661
15_R18_G0.283290.659
31_A36_Y0.282690.658
24_G99_L0.282440.657
71_R74_R0.282140.656
111_F114_E0.282030.656
123_F126_F0.281870.656
168_L186_L0.28180.656
89_Y92_V0.281780.656
59_F64_I0.281150.654
126_F130_E0.280820.653
38_Y41_E0.280030.652
150_P154_R0.279740.651
60_D65_A0.279260.650
133_P136_E0.278340.648
132_I140_P0.278130.647
159_E162_Q0.277450.646
76_L79_L0.276350.643
75_C79_L0.275940.642
143_R149_S0.27540.641
131_A135_L0.273870.637
127_P130_E0.273850.637
132_I137_Q0.273020.635
38_Y42_R0.271950.633
178_Q182_L0.271290.631
63_A69_W0.270890.630
74_R80_Q0.270820.630
67_E74_R0.270520.629
32_P35_T0.270080.628
192_D195_S0.269610.627
67_E70_E0.269410.627
115_R123_F0.26780.623
21_H107_I0.267160.622
204_L207_L0.26660.620
125_N182_L0.266240.619
65_A69_W0.264540.616
16_P90_L0.26410.615
132_I136_E0.262270.610
126_F129_D0.262160.610
117_G123_F0.262150.610
97_H204_L0.26210.610
179_T182_L0.262050.610
27_F102_K0.261860.609
120_L166_N0.261710.609
21_H94_G0.261150.608
37_R40_L0.257810.600
123_F170_K0.257770.600
88_A116_A0.257620.599
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
3fakA0.95299.90.337
3k6kA0.94899.90.342
3eblA0.9699.90.348
3hxkA0.92499.90.351
3o4hA0.89299.90.352
3d7rA0.999.90.355
1jjiA0.88499.90.357
4a5sA0.9299.90.357
1z68A0.87299.90.359
2wirA0.999.90.36

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