GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1566 - Protein of unknown function (DUF1566)
Pfam: PF07603 (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. )
Length: 124
Sequences: 626
Seq/Len: 5.05
HH_delta: 0.651 (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
40_C121_C0.528474.556
48_Y123_R0.402273.468
13_M48_Y0.313682.704
50_D123_R0.252442.176
59_L88_S0.243772.102
43_L121_C0.238572.057
40_C44_N0.237682.049
13_M123_R0.236772.041
17_C26_G0.231841.999
17_C79_P0.221771.912
91_E113_K0.219241.890
52_R58_E0.210271.813
4_T16_R0.208671.799
73_I120_R0.206631.782
40_C43_L0.197111.699
98_A113_K0.193481.668
53_L119_V0.18261.574
4_T46_G0.173561.496
37_I55_T0.167721.446
87_W98_A0.167611.445
55_T89_S0.161941.396
81_T103_F0.155831.344
15_Q120_R0.155391.340
73_I103_F0.153061.320
15_Q39_Y0.150451.297
33_W98_A0.149991.293
81_T120_R0.149271.287
10_T61_S0.149121.286
64_D67_C0.14791.275
39_Y43_L0.144451.245
6_T13_M0.143331.236
5_V16_R0.141741.222
57_E60_Q0.14141.219
12_L122_V0.141071.216
52_R55_T0.140471.211
73_I77_F0.139611.204
3_G16_R0.138951.198
33_W55_T0.134521.160
91_E98_A0.134241.157
3_G6_T0.133091.147
40_C46_G0.129731.118
38_A42_N0.129731.118
36_A41_N0.128781.110
88_S101_V0.128271.106
36_A46_G0.127591.100
103_F120_R0.126381.090
85_W99_W0.124341.072
33_W36_A0.123971.069
4_T17_C0.123241.063
74_D77_F0.122661.058
9_K77_F0.120921.043
7_D12_L0.120651.040
15_Q45_L0.120291.037
47_G50_D0.117471.013
73_I81_T0.116981.009
55_T61_S0.115410.995
54_P86_Y0.114520.987
86_Y103_F0.112740.972
17_C28_P0.111250.959
82_D86_Y0.110890.956
56_I88_S0.110090.949
100_Y105_N0.109680.946
32_N35_D0.108390.935
13_M50_D0.107840.930
17_C121_C0.107160.924
80_N83_S0.107130.924
36_A53_L0.106120.915
63_Y106_G0.106110.915
52_R122_V0.105860.913
79_P120_R0.105660.911
4_T13_M0.105510.910
33_W37_I0.103550.893
90_T99_W0.102940.888
17_C67_C0.102570.884
27_S31_M0.101820.878
63_Y101_V0.100690.868
92_N95_N0.100210.864
56_I105_N0.099530.858
30_Y66_S0.098590.850
17_C120_R0.097740.843
26_G120_R0.097530.841
102_D105_N0.096710.834
73_I79_P0.096360.831
16_R77_F0.096250.830
112_S115_D0.095710.825
109_G115_D0.095610.824
39_Y121_C0.095040.819
66_S82_D0.094740.817
36_A87_W0.093090.803
17_C31_M0.092720.799
64_D74_D0.092660.799
15_Q121_C0.092560.798
36_A40_C0.091740.791
5_V11_G0.091590.790
34_D38_A0.091460.789
17_C81_T0.091270.787
67_C71_A0.089510.772
85_W109_G0.089390.771
96_S114_S0.089310.770
3_G46_G0.088810.766
59_L86_Y0.08880.766
100_Y110_T0.088510.763
57_E71_A0.088320.761
86_Y101_V0.087790.757
57_E111_S0.087770.757
26_G62_L0.087610.755
82_D114_S0.086950.750
107_N112_S0.08680.748
93_S99_W0.086690.747
88_S108_V0.086440.745
110_T115_D0.085980.741
41_N46_G0.084560.729
99_W109_G0.084190.726
15_Q43_L0.083510.720
56_I85_W0.083290.718
60_Q108_V0.082910.715
64_D86_Y0.082570.712
93_S96_S0.082230.709
61_S107_N0.08220.709
90_T123_R0.082030.707
69_N85_W0.082010.707
63_Y78_F0.081990.707
37_I71_A0.081880.706
3_G15_Q0.081750.705
32_N45_L0.081280.701
38_A41_N0.081160.700
8_N15_Q0.080890.697
7_D14_W0.080750.696
56_I110_T0.080640.695
25_T100_Y0.080570.695
96_S107_N0.079860.689
70_P106_G0.079470.685
87_W99_W0.079460.685
100_Y117_Y0.07930.684
34_D97_N0.079250.683
9_K57_E0.079210.683
56_I83_S0.079090.682
92_N102_D0.078860.680
3_G36_A0.078740.679
88_S115_D0.078520.677
101_V108_V0.078450.676
5_V9_K0.078180.674
17_C36_A0.078010.673
73_I76_S0.077950.672
49_T57_E0.077940.672
63_Y70_P0.077520.668
56_I90_T0.07730.666
4_T15_Q0.077180.665
92_N110_T0.077150.665
111_S115_D0.07710.665
74_D79_P0.077070.664
4_T31_M0.076960.664
94_S102_D0.076960.664
31_M46_G0.076820.662
16_R64_D0.076240.657
56_I61_S0.076210.657
31_M36_A0.075990.655
62_L103_F0.075670.652
94_S117_Y0.075630.652
15_Q31_M0.075610.652
31_M39_Y0.075540.651
33_W111_S0.075340.650
12_L61_S0.075260.649
85_W108_V0.075110.648
8_N41_N0.074790.645
69_N95_N0.074720.644
76_S120_R0.074690.644
40_C48_Y0.074680.644
63_Y91_E0.07440.641
25_T84_S0.074360.641
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
4epsA0.903298.90.651
1cwvA0.87196.80.805
1f00I0.862996.20.818
3ncxA0.822679.30.879
1y4jA0.903261.40.893
1z70X0.822654.10.897
3sdbA0.467754.30.897
1yu0A0.927434.30.908
2y3cA0.782335.20.908
2q17A0.814533.40.909
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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