GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1469 - Protein of unknown function (DUF1469)
Pfam: PF07332 (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: 121
Sequences: 842
Seq/Len: 6.96
HH_delta: 0.843 (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
58_A79_A0.389782.670
56_L82_Y0.38162.614
94_R98_R0.349582.395
61_F71_P0.327262.242
35_G39_A0.326612.237
21_E24_K0.32182.204
51_A83_L0.300782.060
58_A76_L0.298752.046
60_V75_F0.282041.932
59_L81_L0.279711.916
88_I92_I0.262261.796
54_F60_V0.238541.634
57_V75_F0.226491.551
54_F57_V0.226041.548
57_V60_V0.223681.532
31_A34_L0.223481.531
80_G84_L0.218811.499
43_L89_L0.21081.444
59_L62_A0.209861.438
70_P73_L0.207831.424
104_F108_I0.20271.388
38_L42_V0.202051.384
28_R32_R0.199151.364
39_A43_L0.194811.334
50_L56_L0.193491.325
95_R98_R0.1931.322
111_L114_D0.188711.293
66_A70_P0.187161.282
26_E107_T0.186971.281
107_T110_E0.183761.259
76_L80_G0.182971.253
23_A26_E0.180681.238
50_L53_L0.180241.235
58_A62_A0.176161.207
101_P114_D0.175061.199
57_V61_F0.170641.169
50_L82_Y0.169271.159
81_L84_L0.166111.138
5_L36_R0.161951.109
24_K27_L0.16191.109
42_V48_A0.159291.091
84_L88_I0.158881.088
113_E117_A0.157371.078
45_A48_A0.156531.072
77_I80_G0.155611.066
43_L88_I0.155311.064
106_E110_E0.1531.048
51_A86_A0.152721.046
109_A113_E0.15151.038
83_L87_L0.151111.035
92_I96_R0.151041.035
27_L42_V0.149591.025
44_A93_G0.149131.022
44_A90_L0.14751.010
66_A71_P0.147391.010
54_F90_L0.145410.996
60_V74_A0.143960.986
9_V95_R0.140950.965
67_L77_I0.140380.962
8_L61_F0.140280.961
40_L43_L0.139980.959
51_A56_L0.139880.958
13_S17_R0.139330.954
46_V49_L0.138740.950
51_A82_Y0.138220.947
37_G93_G0.136950.938
46_V50_L0.135140.926
110_E115_I0.134870.924
23_A107_T0.134610.922
41_L93_G0.133870.917
14_T18_T0.1310.897
30_K114_D0.130460.894
56_L60_V0.130180.892
54_F79_A0.130150.892
48_A83_L0.130050.891
62_A67_L0.129390.886
44_A89_L0.129190.885
54_F61_F0.128650.881
30_K102_P0.127810.875
40_L86_A0.126540.867
10_D48_A0.124880.855
30_K34_L0.124470.853
42_V49_L0.122750.841
19_R37_G0.122710.841
104_F107_T0.122520.839
66_A73_L0.122090.836
35_G43_L0.12190.835
109_A117_A0.121750.834
44_A79_A0.120610.826
86_A90_L0.120070.822
85_L89_L0.119930.821
71_P74_A0.119790.821
85_L88_I0.119270.817
19_R76_L0.118460.811
108_I112_K0.118020.808
53_L61_F0.117430.804
40_L74_A0.116990.801
20_I27_L0.116980.801
73_L76_L0.116770.800
7_D10_D0.116730.800
21_E25_A0.115280.790
112_K117_A0.11520.789
22_L29_E0.11490.787
106_E113_E0.114820.786
87_L91_L0.114670.785
101_P105_E0.114020.781
4_L22_L0.113790.779
9_V13_S0.11310.775
47_L87_L0.112760.772
35_G45_A0.112470.770
41_L81_L0.112240.769
80_G87_L0.111450.763
3_D111_L0.111320.763
47_L51_A0.111180.762
90_L94_R0.11110.761
27_L104_F0.110840.759
67_L73_L0.109360.749
93_G104_F0.109110.747
41_L45_A0.109010.747
3_D98_R0.108680.744
51_A79_A0.108520.743
30_K33_R0.108290.742
48_A92_I0.108150.741
88_I95_R0.107860.739
103_P116_A0.107760.738
15_L19_R0.10730.735
111_L116_A0.106440.729
34_L86_A0.10610.727
19_R74_A0.106010.726
112_K116_A0.105770.725
44_A86_A0.105270.721
55_L79_A0.105080.720
22_L25_A0.104720.717
16_V81_L0.104690.717
107_T111_L0.104250.714
26_E30_K0.103830.711
4_L11_D0.103390.708
80_G85_L0.102950.705
79_A82_Y0.102290.701
26_E58_A0.102190.700
63_L93_G0.102110.699
91_L95_R0.10210.699
4_L37_G0.101960.698
61_F75_F0.101880.698
38_L111_L0.10160.696
48_A90_L0.101360.694
20_I24_K0.101210.693
42_V117_A0.1010.692
12_L21_E0.100810.691
91_L94_R0.100730.690
4_L15_L0.100260.687
78_V82_Y0.100210.686
4_L8_L0.09960.682
45_A51_A0.099470.681
48_A86_A0.099390.681
39_A52_L0.099080.679
3_D27_L0.098990.678
19_R26_E0.098620.676
55_L107_T0.098160.672
3_D91_L0.097910.671
38_L102_P0.097670.669
45_A97_L0.097580.668
62_A88_I0.097480.668
17_R44_A0.097390.667
55_L72_W0.096930.664
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
4i0uA0.735567.60.843
2iubA0.743866.50.844
4ev6A0.768664.90.845
2l16A0.413223.10.881
2lzrA0.40516.20.888
2kncA0.4389.70.898
4i9wA0.98358.20.901
2l8sA0.43880.902
3mk7C0.4386.10.906
4av3A0.47935.50.908
If you are interested in a protein containing this domain,
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