GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2922 - Protein of unknown function (DUF2922)
Pfam: PF11148 (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: 69
Sequences: 334
Seq/Len: 4.84
HH_delta: 0.813 (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
27_T30_E0.457693.103
36_Q54_F0.457263.100
35_M54_F0.362862.460
44_F51_L0.324382.199
46_K49_G0.295682.004
39_I54_F0.288811.958
9_T48_G0.261011.769
38_I44_F0.241911.640
1_K24_E0.23331.581
4_E16_T0.227081.539
31_V67_L0.20941.419
22_P34_A0.206811.402
58_R62_T0.200141.357
36_Q40_A0.197041.336
28_E32_K0.192861.307
6_V56_S0.188481.278
26_L31_V0.184071.248
14_T55_K0.179361.216
42_K50_K0.178131.207
32_K54_F0.175031.186
4_E18_S0.167731.137
22_P58_R0.166851.131
61_E65_T0.164531.115
56_S66_E0.16431.114
26_L59_I0.163361.107
4_E58_R0.161571.095
8_K12_G0.160741.090
9_T15_F0.157081.065
17_I38_I0.154691.049
5_L35_M0.148591.007
4_E19_I0.146970.996
26_L47_D0.145620.987
9_T52_V0.143160.970
37_A42_K0.142690.967
58_R64_T0.140970.956
23_K30_E0.139620.946
24_E29_A0.13850.939
63_T67_L0.134720.913
1_K61_E0.132770.900
32_K57_A0.132690.899
6_V20_P0.132450.898
35_M42_K0.132080.895
35_M57_A0.13130.890
10_E37_A0.129620.879
32_K39_I0.129440.877
19_I61_E0.128920.874
37_A41_K0.127780.866
36_Q52_V0.125210.849
11_D50_K0.124740.846
8_K55_K0.123670.838
38_I41_K0.12280.832
25_D30_E0.121940.827
45_A50_K0.121090.821
57_A67_L0.120480.817
2_T18_S0.119450.810
16_T41_K0.119230.808
56_S64_T0.117570.797
29_A33_A0.11740.796
38_I59_I0.117350.795
48_G61_E0.116560.790
22_P59_I0.116250.788
37_A40_A0.115460.783
11_D32_K0.115240.781
47_D65_T0.11470.778
32_K60_V0.114490.776
11_D24_E0.11420.774
39_I49_G0.112820.765
14_T33_A0.112510.763
19_I26_L0.111760.758
27_T40_A0.111060.753
5_L41_K0.110940.752
45_A53_K0.110770.751
58_R63_T0.110020.746
27_T43_V0.109810.744
2_T17_I0.109740.744
10_E42_K0.109630.743
2_T62_T0.109330.741
5_L54_F0.107190.727
20_P60_V0.107010.725
1_K45_A0.10510.712
6_V14_T0.104720.710
12_G34_A0.104570.709
38_I65_T0.104340.707
53_K66_E0.103850.704
8_K53_K0.103580.702
12_G56_S0.103440.701
7_F35_M0.103020.698
15_F51_L0.102670.696
10_E59_I0.101750.690
28_E35_M0.101680.689
17_I55_K0.100870.684
21_N63_T0.100770.683
14_T22_P0.100710.683
2_T14_T0.100530.681
26_L46_K0.099460.674
31_V56_S0.099160.672
6_V30_E0.09910.672
17_I35_M0.098490.668
19_I24_E0.097940.664
21_N51_L0.097030.658
18_S39_I0.096560.655
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
1b7yB0.797162.40.813
2rhqB0.7101570.818
3pcoB0.753640.90.834
1ksiA0.739140.40.835
3cmqA0.753625.40.851
1w6gA0.811624.30.852
1hn0A0.333318.90.858
3a0oA0.333318.50.859
2iayA0.681218.50.859
2xb0X0.681216.50.862
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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