GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MAF_flag10 - Protein of unknown function DUF115
Pfam: PF01973 (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: 170
Sequences: 861
Seq/Len: 5.06
HH_delta: 0.581 (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
26_P157_P0.43144.196
27_A155_F0.331353.223
68_K93_D0.326123.172
53_I150_A0.30072.925
28_I50_A0.232592.262
51_I155_F0.217412.115
29_I150_A0.208572.029
28_I161_I0.199961.945
31_G163_Q0.198641.932
30_V161_I0.195151.898
143_A163_Q0.189341.842
32_A58_A0.183311.783
62_L67_I0.178021.732
53_I71_F0.171221.665
31_G143_A0.167231.627
83_E86_K0.166711.622
27_A53_I0.164481.600
51_I71_F0.161931.575
149_L153_L0.160081.557
26_P159_Y0.150471.464
30_V52_I0.148581.445
52_I62_L0.146861.429
27_A154_G0.138331.346
29_I160_L0.137511.338
73_V146_A0.137331.336
54_A59_L0.136241.325
40_I65_N0.135531.318
140_G144_N0.134041.304
35_S164_D0.133831.302
28_I43_L0.132681.291
47_R52_I0.13121.276
56_N72_V0.130891.273
38_K161_I0.126921.235
97_F149_L0.126391.229
29_I158_I0.126141.227
41_E65_N0.122781.194
55_V146_A0.122071.187
26_P50_A0.121951.186
78_Q84_H0.119681.164
31_G55_V0.119321.161
75_I142_V0.119041.158
55_V76_D0.114281.112
42_L46_N0.11421.111
160_L163_Q0.112791.097
98_F112_G0.111361.083
44_K161_I0.111311.083
71_F95_P0.11111.081
33_G39_N0.109481.065
102_A107_L0.109341.064
88_I93_D0.108771.058
71_F97_F0.108241.053
90_K110_F0.108031.051
125_F128_F0.108031.051
76_D81_N0.107521.046
28_I52_I0.10671.038
55_V58_A0.106121.032
44_K149_L0.105971.031
101_S141_S0.105551.027
34_P139_G0.105481.026
138_S148_Q0.105451.026
76_D142_V0.105441.026
46_N50_A0.105161.023
76_D98_F0.103361.005
40_I69_P0.10291.001
47_R50_A0.101930.991
54_A74_S0.101670.989
63_L149_L0.10150.987
74_S80_W0.100450.977
119_S141_S0.10040.977
26_P39_N0.100140.974
75_I98_F0.100140.974
32_A77_P0.099080.964
142_V145_T0.098730.960
45_E48_N0.098360.957
51_I70_D0.09810.954
163_Q166_A0.098030.954
57_S85_F0.097920.952
56_N84_H0.097290.946
68_K130_K0.097050.944
28_I159_Y0.096550.939
81_N106_I0.096390.938
25_K156_K0.095660.931
56_N74_S0.094650.921
147_L160_L0.094490.919
32_A163_Q0.09420.916
141_S144_N0.09420.916
102_A140_G0.093710.912
105_N109_K0.09370.911
75_I145_T0.093280.907
111_K115_I0.093140.906
57_S141_S0.092960.904
38_K157_P0.092420.899
57_S76_D0.092240.897
37_D147_L0.091540.890
39_N165_L0.091480.890
150_A158_I0.091440.889
76_D140_G0.090820.883
139_G154_G0.089990.875
113_P116_F0.089660.872
26_P155_F0.08910.867
68_K94_I0.088990.866
56_N147_L0.088840.864
54_A62_L0.088640.862
79_F105_N0.088510.861
35_S43_L0.088430.860
95_P98_F0.088080.857
100_S118_F0.087910.855
44_K65_N0.087090.847
45_E104_P0.086940.846
52_I67_I0.086690.843
122_Y137_Y0.086210.839
35_S163_Q0.085930.836
74_S84_H0.08580.835
70_D127_W0.085160.828
39_N161_I0.085030.827
90_K117_F0.084860.825
55_V142_V0.084820.825
47_R70_D0.084580.823
133_G149_L0.084350.820
53_I73_V0.084310.820
31_G38_K0.083960.817
98_F114_K0.083720.814
50_A159_Y0.083340.811
44_K66_G0.083070.808
37_D146_A0.083040.808
58_A65_N0.082890.806
94_I157_P0.08270.804
43_L167_Y0.082570.803
60_K89_N0.082320.801
29_I143_A0.082240.800
50_A70_D0.082220.800
120_N137_Y0.08220.800
75_I143_A0.082040.798
27_A45_E0.081960.797
53_I149_L0.081660.794
30_V58_A0.081280.791
30_V39_N0.08120.790
25_K158_I0.081120.789
36_L163_Q0.081090.789
45_E68_K0.080490.783
72_V76_D0.080440.782
26_P52_I0.080190.780
48_N153_L0.080110.779
138_S154_G0.080010.778
108_R133_G0.079770.776
33_G61_A0.079490.773
57_S142_V0.079460.773
52_I166_A0.07920.770
141_S165_L0.079140.770
117_F121_S0.07840.763
108_R120_N0.078260.761
85_F100_S0.078230.761
101_S127_W0.077450.753
58_A142_V0.077310.752
119_S127_W0.07730.752
32_A76_D0.077290.752
73_V149_L0.07720.751
148_Q152_Y0.077170.751
29_I53_I0.07710.750
36_L164_D0.077050.749
32_A57_S0.076460.744
38_K42_L0.076380.743
43_L130_K0.076370.743
71_F149_L0.076370.743
75_I103_N0.076280.742
101_S120_N0.076240.742
110_F166_A0.076150.741
29_I156_K0.076110.740
27_A66_G0.075780.737
99_A119_S0.07540.733
41_E158_I0.075270.732
116_F134_Y0.075210.732
147_L158_I0.075190.731
111_K152_Y0.074970.729
105_N128_F0.074880.728
102_A144_N0.074790.727
56_N62_L0.074690.727
34_P164_D0.074470.724
70_D156_K0.074360.723
35_S44_K0.074310.723
28_I38_K0.074260.722
32_A56_N0.074170.721
40_I44_K0.074110.721
32_A164_D0.074080.721
38_K94_I0.074070.720
88_I114_K0.074070.720
70_D97_F0.073890.719
118_F121_S0.07380.718
35_S104_P0.073620.716
39_N163_Q0.073510.715
46_N158_I0.072970.710
128_F148_Q0.072870.709
65_N156_K0.072870.709
49_K65_N0.072820.708
29_I113_P0.07280.708
102_A128_F0.072540.706
115_I120_N0.072450.705
30_V43_L0.072430.705
53_I63_L0.072380.704
60_K64_K0.072180.702
148_Q151_Y0.072180.702
56_N75_I0.072170.702
69_P94_I0.072060.701
136_L161_I0.071940.700
81_N121_S0.071920.700
73_V97_F0.071820.699
98_F107_L0.071650.697
82_Y120_N0.07160.696
26_P156_K0.071570.696
78_Q119_S0.071550.696
82_Y109_K0.071390.694
41_E156_K0.071370.694
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
2wqqA0.835399.50.581
2p2vA0.929499.40.59
1ro7A0.841299.30.628
2omkA0.694197.60.796
3k94A0.617697.60.798
3lm8A0.623597.40.807
3cq9A0.635397.30.813
3l8mA0.611897.20.817
3melA0.629496.50.835
3s4yA0.741295.90.845
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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