GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2281 - Protein of unknown function (DUF2281)
Pfam: PF10047 (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: 66
Sequences: 343
Seq/Len: 5.2
HH_delta: 0.702 (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
19_E24_I0.289711.970
10_Q14_E0.286281.947
49_L52_S0.237661.616
9_I23_F0.235741.603
13_P26_F0.234451.594
40_K60_E0.207731.413
55_F58_P0.206091.401
14_E29_Q0.202461.377
20_V24_I0.197061.340
17_Q20_V0.193971.319
21_L30_K0.19231.308
9_I34_K0.191191.300
52_S57_E0.187831.277
13_P23_F0.183351.247
22_D26_F0.177681.208
17_Q23_F0.172371.172
16_L28_L0.170861.162
38_K46_K0.166381.131
56_D61_D0.166281.131
47_G54_D0.160051.088
11_Q14_E0.159431.084
52_S56_D0.158661.079
54_D57_E0.158071.075
23_F28_L0.157471.071
12_L15_E0.156531.064
21_L35_E0.155741.059
27_L30_K0.153871.046
39_K48_K0.153521.044
40_K55_F0.153371.043
43_G46_K0.153291.042
15_E29_Q0.15181.032
52_S55_F0.146930.999
41_L51_M0.142860.971
13_P31_Y0.141950.965
51_M55_F0.139090.946
55_F59_L0.138890.944
23_F26_F0.137140.933
41_L46_K0.13630.927
9_I13_P0.133310.906
9_I28_L0.132170.899
51_M56_D0.131970.897
22_D30_K0.13130.893
18_Q30_K0.130710.889
43_G55_F0.130020.884
33_Q38_K0.128530.874
40_K44_D0.127230.865
45_W57_E0.127160.865
18_Q36_S0.12660.861
29_Q34_K0.124480.846
45_W48_K0.124420.846
24_I27_L0.124390.846
43_G51_M0.12380.842
25_E28_L0.121470.826
19_E26_F0.121310.825
41_L45_W0.120920.822
41_L44_D0.120820.822
50_K57_E0.119120.810
9_I24_I0.119030.809
16_L29_Q0.118670.807
12_L23_F0.117940.802
44_D60_E0.117810.801
12_L30_K0.117570.799
13_P16_L0.117150.797
14_E34_K0.116040.789
12_L29_Q0.115380.785
25_E36_S0.115320.784
48_K54_D0.114120.776
36_S42_L0.113630.773
11_Q15_E0.113290.770
43_G48_K0.112730.767
38_K41_L0.11270.766
24_I28_L0.112090.762
16_L23_F0.112030.762
19_E22_D0.111370.757
18_Q53_D0.111240.756
25_E52_S0.110990.755
43_G53_D0.110270.750
20_V26_F0.10940.744
18_Q31_Y0.106190.722
13_P34_K0.106040.721
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
3dboA195.10.702
2odkA0.848571.30.797
3hs2A0.848561.40.809
3hryA0.909158.50.812
2a6qA0.8182380.832
3g5oA0.818236.10.835
3d55A0.80332.10.839
1b0nA0.518.50.855
3fhnA0.878814.80.861
1zx4A0.575813.30.864
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