GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF258 - Protein of unknown function DUF258
Pfam: PF03193 (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: CL0023
Length: 161
Sequences: 1804
Seq/Len: 11.2
HH_delta: 0.332 (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
150_P154_E0.562513.197
141_A145_N0.535253.042
125_K136_G0.469692.670
61_Q83_F0.438732.494
14_P32_L0.427342.429
67_S70_T0.417532.373
130_T133_H0.417282.372
6_E9_E0.389892.216
84_P90_Y0.373912.125
132_I157_L0.346941.972
138_A142_A0.346491.969
140_K144_E0.341091.939
120_L142_A0.332311.889
53_N63_T0.320341.821
19_S25_G0.306431.742
143_V153_Y0.303051.723
120_L148_I0.300461.708
153_Y157_L0.287791.636
56_L59_A0.278391.582
22_T25_G0.275661.567
105_I110_L0.273561.555
19_S50_S0.26491.506
56_L86_P0.263221.496
6_E10_K0.259611.476
61_Q79_H0.258361.469
132_I160_L0.256861.460
106_D109_E0.252251.434
31_E34_K0.251461.429
80_R92_I0.250881.426
40_L91_I0.25031.423
52_I91_I0.248481.412
23_G54_A0.246871.403
27_E30_K0.245831.397
123_Q138_A0.242051.376
20_A50_S0.240411.366
50_S63_T0.236641.345
7_Q10_K0.236441.344
33_L38_S0.232391.321
18_I50_S0.231741.317
16_F32_L0.229431.304
117_F121_A0.228061.296
86_P89_G0.227091.291
28_E31_E0.221451.259
49_S61_Q0.221061.256
116_E152_R0.21581.227
120_L138_A0.215791.227
130_T160_L0.213671.214
72_R97_F0.2121.205
39_V94_T0.211061.200
53_N61_Q0.2071.177
120_L147_E0.206821.176
25_G28_E0.206021.171
63_T79_H0.204221.161
66_I105_I0.202861.153
153_Y156_Y0.201361.145
134_E156_Y0.199131.132
23_G26_I0.196211.115
70_T74_K0.195911.114
8_Y155_S0.19411.103
155_S159_L0.193141.098
46_V50_S0.191671.089
138_A141_A0.191161.087
43_Q46_V0.19051.083
140_K153_Y0.188271.070
30_K87_D0.184961.051
70_T98_R0.184041.046
139_V153_Y0.183941.046
129_C137_C0.182851.039
66_I70_T0.182311.036
116_E148_I0.181631.032
27_E31_E0.181261.030
132_I161_D0.180831.028
82_L90_Y0.180761.027
141_A144_E0.179671.021
52_I101_G0.179511.020
151_E155_S0.179131.018
80_R97_F0.177561.009
83_F94_T0.175220.996
62_K78_T0.17420.990
98_R155_S0.173210.985
110_L160_L0.172850.982
115_P120_L0.172030.978
57_P60_K0.171630.976
37_T92_I0.17130.974
70_T97_F0.171040.972
144_E147_E0.170420.969
78_T98_R0.168720.959
124_C137_C0.167010.949
72_R98_R0.165890.943
140_K143_V0.164550.935
64_G74_K0.164250.934
122_G138_A0.164080.933
124_C129_C0.162590.924
114_F155_S0.16220.922
16_F28_E0.16050.912
102_L159_L0.158580.901
72_R94_T0.157980.898
71_G113_Y0.157520.895
43_Q82_L0.157260.894
154_E157_L0.157010.892
11_L116_E0.155990.887
154_E158_K0.155570.884
91_I109_E0.155090.882
61_Q91_I0.15340.872
105_I109_E0.15330.871
58_E86_P0.15290.869
19_S54_A0.152380.866
38_S89_G0.152110.865
78_T101_G0.151870.863
156_Y160_L0.151420.861
92_I98_R0.151090.859
9_E17_F0.150970.858
114_F152_R0.150380.855
64_G72_R0.150190.854
44_S81_E0.150120.853
59_A83_F0.149510.850
69_K72_R0.149460.850
30_K34_K0.1490.847
26_I30_K0.148630.845
7_Q149_S0.147210.837
9_E14_P0.147070.836
131_H137_C0.146570.833
8_Y80_R0.146430.832
141_A147_E0.146370.832
14_P36_K0.145020.824
16_F29_L0.144230.820
78_T128_D0.144210.820
140_K157_L0.143420.815
118_R121_A0.14340.815
107_P160_L0.143220.814
75_H98_R0.142710.811
44_S73_G0.142120.808
60_K63_T0.140940.801
132_I153_Y0.140040.796
34_K87_D0.139830.795
13_Y115_P0.139550.793
70_T155_S0.138720.788
23_G58_E0.137790.783
31_E35_G0.137280.780
110_L113_Y0.136870.778
124_C131_H0.136670.777
50_S62_K0.136630.777
21_K25_G0.135660.771
24_E27_E0.135630.771
125_K157_L0.135480.770
117_F148_I0.135080.768
155_S158_K0.134980.767
21_K50_S0.13450.764
33_L113_Y0.134090.762
6_E24_E0.133910.761
43_Q98_R0.133670.760
9_E27_E0.133570.759
19_S22_T0.133560.759
25_G136_G0.133530.759
41_L113_Y0.133480.759
109_E113_Y0.133470.759
40_L51_L0.13340.758
134_E140_K0.13240.753
142_A148_I0.132250.752
27_E55_L0.13220.751
45_G129_C0.13210.751
143_V150_P0.131390.747
52_I59_A0.131140.745
57_P61_Q0.131120.745
39_V72_R0.130840.744
35_G89_G0.130680.743
6_E32_L0.130430.741
46_V108_E0.130270.740
147_E150_P0.129860.738
56_L91_I0.129660.737
69_K126_F0.129480.736
41_L82_L0.129470.736
134_E139_V0.129070.734
45_G137_C0.12860.731
67_S72_R0.127690.726
66_I71_G0.127490.725
90_Y159_L0.127160.723
112_Q118_R0.127160.723
13_Y118_R0.127050.722
43_Q97_F0.12690.721
121_A139_V0.126860.721
56_L83_F0.126540.719
142_A147_E0.126020.716
99_S103_W0.125820.715
53_N59_A0.125450.713
34_K118_R0.125430.713
39_V101_G0.124820.709
53_N94_T0.124650.709
84_P89_G0.123510.702
117_F120_L0.12310.700
111_A117_F0.122650.697
43_Q103_W0.122590.697
19_S26_I0.122510.696
43_Q100_F0.122180.694
41_L91_I0.122090.694
43_Q127_R0.121420.690
98_R101_G0.121130.688
148_I156_Y0.120420.684
69_K97_F0.120260.684
72_R101_G0.120220.683
105_I113_Y0.119650.680
97_F100_F0.119620.680
39_V43_Q0.119610.680
123_Q141_A0.119030.677
110_L159_L0.118450.673
41_L46_V0.118450.673
38_S116_E0.118390.673
40_L99_S0.118270.672
26_I29_L0.117080.665
70_T101_G0.117070.665
24_E145_N0.116830.664
22_T91_I0.116550.662
117_F139_V0.116270.661
78_T97_F0.116250.661
39_V61_Q0.115860.659
59_A65_E0.115650.657
72_R99_S0.115510.657
55_L107_P0.115350.656
143_V161_D0.115240.655
8_Y109_E0.115030.654
45_G76_T0.114890.653
33_L161_D0.114540.651
45_G75_H0.114440.650
77_T134_E0.113640.646
42_G48_K0.113430.645
42_G93_D0.113430.645
42_G96_G0.113430.645
48_K93_D0.113430.645
48_K96_G0.113430.645
93_D96_G0.113430.645
24_E123_Q0.113410.645
103_W159_L0.1130.642
109_E112_Q0.112720.641
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
1t9hA0.99381000.332
2rcnA11000.352
2yv5A0.98141000.379
1u0lA0.98141000.453
3h2yA0.981499.80.659
3cnlA0.900699.80.66
3ec1A0.975299.80.661
1pujA0.944199.70.672
2hjgA0.950399.60.705
1mkyA0.950399.50.726

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