GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2529 - Protein of unknown function (DUF2529)
Pfam: PF10740 (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: CL0067
Length: 172
Sequences: 2454
Seq/Len: 14.27
HH_delta: 0.312 (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
113_G128_A0.965433.973
93_T123_D0.832883.427
87_L101_A0.754763.106
39_G82_T0.74633.071
30_L110_P0.704152.898
27_A112_V0.702742.892
27_A130_V0.698262.873
105_I129_D0.644382.652
101_A111_F0.604152.486
79_L109_I0.601032.473
30_L130_V0.519272.137
84_R112_V0.490922.020
102_K127_L0.486772.003
43_I86_L0.479561.973
43_I63_L0.444661.830
101_A124_L0.443411.825
39_G83_D0.414151.704
104_L109_I0.410931.691
9_L13_F0.405161.667
20_E23_S0.403151.659
85_V104_L0.402621.657
34_A84_R0.399711.645
110_P129_D0.395171.626
87_L111_F0.393671.620
79_L85_V0.391331.610
103_Q106_E0.389631.603
86_L114_V0.388951.601
43_I53_E0.385761.587
88_F114_V0.3811.568
31_L41_I0.379571.562
23_S27_A0.377881.555
28_A161_Y0.375861.547
26_D130_V0.351.440
52_V88_F0.348971.436
23_S26_D0.347531.430
30_L84_R0.344531.418
31_L86_L0.340361.401
59_G63_L0.33711.387
53_E88_F0.332811.370
87_L97_A0.33051.360
110_P130_V0.329081.354
111_F128_A0.323551.331
99_A102_K0.313011.288
23_S130_V0.309311.273
29_R33_Q0.306071.259
39_G80_T0.302851.246
58_Y62_P0.296171.219
113_G124_L0.292351.203
80_T83_D0.291621.200
10_T13_F0.282861.164
10_T14_K0.282521.163
79_L83_D0.278721.147
42_Y79_L0.278611.146
89_S92_S0.272991.123
122_E125_E0.272481.121
104_L111_F0.271581.118
85_V109_I0.271541.117
46_F94_D0.269531.109
42_Y83_D0.268161.103
102_K106_E0.267571.101
48_E61_E0.262381.080
132_I160_I0.26211.079
44_Y85_V0.259351.067
81_E108_G0.257261.059
43_I59_G0.253771.044
115_S131_H0.253111.042
45_G50_E0.252591.039
26_D29_R0.252171.038
45_G49_M0.247851.020
31_L84_R0.245271.009
15_R135_K0.243591.002
134_L151_F0.24070.990
103_Q107_Q0.23490.967
59_G62_P0.232230.956
33_Q110_P0.230040.947
89_S124_L0.229620.945
82_T110_P0.227830.938
60_A67_K0.226020.930
113_G131_H0.220640.908
22_E26_D0.217820.896
95_E99_A0.217260.894
44_Y100_L0.216450.891
34_A41_I0.215180.885
74_E96_E0.214310.882
101_A127_L0.207580.854
98_V124_L0.206510.850
40_T83_D0.205870.847
29_R32_A0.202930.835
42_Y85_V0.201450.829
26_D30_L0.200890.827
62_P67_K0.200670.826
97_A111_F0.199710.822
46_F96_E0.199560.821
8_Q153_H0.197360.812
60_A70_S0.19630.808
40_T69_L0.195840.806
15_R150_G0.192930.794
152_P156_A0.192780.793
108_G129_D0.189850.781
15_R18_E0.18890.777
87_L104_L0.188880.777
98_V113_G0.188430.775
90_P134_L0.18780.773
21_E25_E0.186960.769
142_P148_R0.186860.769
67_K70_S0.186840.769
150_G153_H0.18660.768
65_S68_R0.186320.767
43_I57_L0.18570.764
150_G159_Y0.18490.761
84_R110_P0.183510.755
44_Y75_N0.182650.752
44_Y87_L0.182330.750
155_M158_L0.181370.746
105_I127_L0.180120.741
76_F109_I0.179130.737
8_Q149_I0.178370.734
29_R81_E0.178310.734
27_A30_L0.177490.730
45_G53_E0.17660.727
64_P67_K0.175390.722
41_I84_R0.175330.721
137_P140_L0.174690.719
76_F85_V0.173060.712
74_E94_D0.172850.711
87_L100_L0.172810.711
85_V111_F0.172630.710
14_K17_S0.17240.709
30_L112_V0.172280.709
47_G92_S0.171770.707
76_F103_Q0.170080.700
134_L154_L0.169410.697
85_V101_A0.169390.697
116_P134_L0.16910.696
89_S94_D0.168690.694
63_L70_S0.168210.692
66_A69_L0.167610.690
89_S122_E0.166770.686
156_A160_I0.166190.684
42_Y71_E0.164890.679
8_Q11_G0.164860.678
153_H160_I0.164760.678
59_G67_K0.164580.677
148_R152_P0.162930.670
60_A66_A0.162810.670
58_Y148_R0.161090.663
125_E131_H0.158710.653
18_E135_K0.158020.650
121_E133_D0.15780.649
60_A63_L0.157070.646
12_I149_I0.157010.646
60_A64_P0.15620.643
108_G111_F0.155050.638
157_A161_Y0.154590.636
125_E133_D0.154450.636
76_F79_L0.154290.635
52_V151_F0.1540.634
138_K142_P0.15380.633
27_A132_I0.153440.631
147_D156_A0.153290.631
114_V154_L0.153030.630
158_L161_Y0.153030.630
45_G96_E0.152580.628
76_F100_L0.152330.627
151_F156_A0.152330.627
49_M88_F0.152120.626
62_P72_D0.151980.625
41_I68_R0.151560.624
64_P70_S0.151290.623
14_K137_P0.150740.620
58_Y61_E0.150040.617
94_D99_A0.149890.617
142_P159_Y0.149810.616
9_L16_I0.149620.616
93_T121_E0.148890.613
112_V130_V0.148520.611
49_M91_F0.147290.606
153_H156_A0.146790.604
62_P65_S0.145870.600
43_I60_A0.144710.595
30_L82_T0.143920.592
48_E65_S0.142680.587
76_F107_Q0.142070.585
90_P159_Y0.141990.584
59_G155_M0.141920.584
8_Q15_R0.14170.583
78_E155_M0.141650.583
90_P116_P0.141640.583
94_D140_L0.141560.583
98_V127_L0.141270.581
105_I111_F0.141030.580
153_H157_A0.141030.580
9_L12_I0.140990.580
62_P92_S0.140760.579
73_L100_L0.139780.575
48_E94_D0.139750.575
31_L34_A0.13880.571
13_F17_S0.138440.570
72_D151_F0.138440.570
19_K154_L0.138110.568
20_E26_D0.137960.568
52_V65_S0.137840.567
121_E126_D0.137590.566
66_A91_F0.137570.566
20_E135_K0.13730.565
62_P90_P0.136730.563
24_I28_A0.136310.561
63_L67_K0.136050.560
50_E96_E0.136020.560
91_F94_D0.135820.559
25_E161_Y0.135640.558
85_V97_A0.135630.558
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
1vimA0.941999.90.312
3shoA0.895399.90.315
3fxaA0.930299.90.319
3cvjA0.988499.90.334
3etnA0.953599.90.335
3jx9A0.953599.90.338
1m3sA0.959399.90.34
2xhzA0.924499.90.342
3trjA0.918699.90.346
2xblA0.924499.80.355

Page generated in 0.008 seconds.