GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1275 - Protein of unknown function (DUF1275)
Pfam: PF06912 (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: 209
Sequences: 1107
Seq/Len: 5.3
HH_delta: 0.899 (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
123_Q137_T0.193812.095
34_T176_F0.191712.072
60_I148_G0.18461.995
65_L118_F0.177941.923
124_N138_T0.172951.869
16_A182_G0.157041.697
15_D35_V0.15381.662
95_I99_L0.150841.630
136_R139_F0.147521.594
189_L196_L0.14671.586
58_S114_F0.146451.583
30_M33_N0.14561.574
64_F151_L0.145381.571
139_F142_G0.142161.537
17_Y194_L0.140931.523
125_A138_T0.137751.489
124_N139_F0.134321.452
27_V120_M0.133651.445
97_A195_L0.130031.405
5_L174_S0.129811.403
89_E93_L0.128241.386
41_L180_I0.127661.380
140_M143_N0.125961.361
124_N136_R0.124451.345
102_A173_L0.124411.345
29_F145_T0.123761.338
142_G171_I0.123021.330
58_S62_G0.12261.325
145_T149_I0.121871.317
99_L177_I0.121821.317
6_L10_I0.121541.314
55_A179_A0.12121.310
7_L110_I0.120651.304
15_D139_F0.119851.295
9_F181_L0.117431.269
30_M144_L0.117371.269
57_L61_L0.116981.264
144_L172_I0.116811.263
91_I95_I0.114421.237
139_F145_T0.114181.234
96_A115_L0.11391.231
47_S95_I0.112341.214
30_M55_A0.112331.214
51_R117_A0.110851.198
86_L89_E0.110841.198
184_L189_L0.110051.189
89_E148_G0.10961.185
60_I147_L0.109561.184
27_V123_Q0.109381.182
29_F136_R0.109161.180
94_L181_L0.10881.176
184_L188_R0.108381.171
191_F195_L0.107991.167
94_L198_A0.107921.166
128_R167_R0.107571.163
8_T36_F0.10751.162
29_F137_T0.107231.159
34_T140_M0.106681.153
15_D146_D0.105971.145
147_L165_A0.105831.144
29_F124_N0.105761.143
124_N142_G0.104571.130
30_M140_M0.104231.127
11_A29_F0.102781.111
185_L196_L0.10271.110
4_A8_T0.10211.104
182_G198_A0.101921.102
47_S177_I0.10161.098
177_I181_L0.10141.096
27_V117_A0.101331.095
31_T164_R0.101261.094
15_D26_F0.100461.086
89_E123_Q0.100411.085
29_F139_F0.099471.075
35_V121_G0.099361.074
136_R146_D0.099341.074
62_G121_G0.099241.073
17_Y22_L0.098821.068
199_L203_L0.098741.067
28_S113_I0.098541.065
82_Y179_A0.098481.064
28_S120_M0.098011.059
34_T144_L0.097951.059
30_M120_M0.097531.054
138_T142_G0.097521.054
19_F129_R0.09751.054
40_A45_D0.097341.052
37_L49_A0.097321.052
36_F117_A0.097151.050
193_A197_P0.096831.047
146_D149_I0.096611.044
139_F146_D0.095311.030
124_N145_T0.094791.025
15_D142_G0.094531.022
29_F59_F0.094531.022
15_D136_R0.094411.020
90_A98_L0.094331.020
15_D82_Y0.094181.018
94_L192_W0.093931.015
59_F182_G0.093791.014
64_F152_A0.093681.013
81_W126_A0.093431.010
32_G59_F0.093331.009
150_D168_Y0.093131.007
69_I84_I0.09291.004
96_A100_P0.092841.003
138_T182_G0.092380.998
38_G42_A0.09230.998
127_F168_Y0.092020.995
28_S138_T0.091960.994
19_F140_M0.091920.994
91_I105_P0.091820.992
125_A145_T0.091660.991
97_A194_L0.091640.990
19_F24_G0.091510.989
143_N172_I0.091510.989
111_L188_R0.091470.989
120_M124_N0.09140.988
26_F128_R0.091280.987
4_A142_G0.091270.986
27_V96_A0.090980.983
193_A196_L0.090320.976
99_L203_L0.090320.976
5_L9_F0.090250.975
22_L27_V0.090040.973
31_T35_V0.090030.973
139_F171_I0.089680.969
20_L186_Y0.089570.968
63_A67_G0.088450.956
95_I102_A0.088380.955
86_L165_A0.088350.955
30_M124_N0.088330.955
137_T146_D0.088280.954
60_I173_L0.088210.953
95_I203_L0.087960.951
11_A175_F0.087880.950
42_A183_A0.087370.944
6_L200_L0.087310.944
91_I173_L0.087140.942
159_D169_L0.087110.942
28_S63_A0.086450.934
89_E138_T0.086170.931
10_I123_Q0.085970.929
18_S112_A0.08570.926
132_G145_T0.085670.926
29_F36_F0.085630.926
137_T145_T0.084980.918
18_S25_V0.084510.913
15_D32_G0.084240.910
90_A202_L0.08410.909
8_T171_I0.084070.909
11_A140_M0.083780.906
93_L116_L0.083560.903
3_L38_G0.083550.903
11_A182_G0.08320.899
14_I93_L0.083180.899
60_I144_L0.083120.898
163_R202_L0.083060.898
38_G180_I0.082920.896
124_N182_G0.082910.896
53_L122_M0.082640.893
45_D202_L0.082330.890
62_G118_F0.082290.889
15_D130_L0.082290.889
139_F179_A0.082230.889
50_L151_L0.082210.889
64_F148_G0.082160.888
14_I140_M0.082010.886
173_L188_R0.081990.886
35_V141_T0.081980.886
130_L133_V0.081940.886
38_G179_A0.081920.885
163_R203_L0.081850.885
26_F30_M0.08170.883
143_N175_F0.081410.880
63_A183_A0.081190.878
96_A112_A0.080950.875
29_F146_D0.080680.872
124_N148_G0.080420.869
57_L111_L0.080360.869
151_L170_L0.080310.868
110_I181_L0.080050.865
38_G128_R0.079940.864
97_A101_P0.079940.864
87_L202_L0.079880.863
94_L99_L0.07970.861
30_M127_F0.079670.861
102_A188_R0.079660.861
55_A136_R0.079620.861
75_R173_L0.079620.861
91_I156_R0.079580.860
47_S181_L0.079520.859
30_M34_T0.079410.858
111_L177_I0.079230.856
136_R145_T0.079060.855
110_I157_G0.079050.854
77_R203_L0.078820.852
26_F36_F0.078780.851
22_L100_P0.078660.850
25_V117_A0.078570.849
143_N168_Y0.078440.848
196_L199_L0.078340.847
18_S22_L0.078230.846
33_N55_A0.078230.846
28_S124_N0.078010.843
54_L114_F0.077680.840
24_G119_A0.077390.836
26_F33_N0.077280.835
128_R175_F0.077080.833
104_P177_I0.077040.833
128_R136_R0.076980.832
142_G146_D0.076870.831
158_K173_L0.076850.831
121_G138_T0.076840.831
47_S50_L0.076730.829
123_Q146_D0.076720.829
120_M138_T0.076620.828
44_G49_A0.07660.828
50_L172_I0.076560.827
173_L177_I0.076450.826
135_I145_T0.076410.826
28_S52_Y0.076360.825
14_I116_L0.076270.824
3_L97_A0.07620.824
63_A149_I0.076080.822
29_F67_G0.076040.822
177_I185_L0.0760.821
58_S61_L0.0760.821
177_I187_R0.075930.821
35_V139_F0.075830.820
61_L114_F0.075560.817
89_E182_G0.075540.816
16_A195_L0.075510.816
89_E137_T0.075430.815
5_L15_D0.075380.815
192_W195_L0.075210.813
82_Y89_E0.075170.812
6_L36_F0.075020.811
91_I177_I0.074970.810
37_L176_F0.074720.808
45_D95_I0.074530.806
61_L65_L0.074430.804
49_A98_L0.074350.804
28_S67_G0.074240.802
53_L177_I0.073870.798
22_L120_M0.073840.798
138_T148_G0.073810.798
128_R139_F0.073680.796
14_I141_T0.073530.795
17_Y193_A0.073480.794
90_A204_L0.073380.793
153_R157_G0.073380.793
10_I90_A0.073360.793
160_R177_I0.073290.792
28_S32_G0.073190.791
34_T127_F0.073180.791
56_I171_I0.073170.791
128_R146_D0.073160.791
25_V36_F0.073150.791
28_S35_V0.072970.789
65_L77_R0.072860.787
64_F155_L0.072690.786
66_A149_I0.072660.785
4_A135_I0.072550.784
34_T53_L0.072520.784
9_F182_G0.072510.784
142_G151_L0.072340.782
29_F168_Y0.07230.781
25_V128_R0.072250.781
61_L103_F0.072220.781
41_L158_K0.071980.778
94_L189_L0.071970.778
61_L78_R0.071970.778
45_D160_R0.071950.778
18_S81_W0.071870.777
18_S27_V0.071840.776
39_V183_A0.071780.776
155_L202_L0.07160.774
95_I115_L0.071580.774
65_L91_I0.071560.773
67_G153_R0.071520.773
99_L111_L0.071460.772
57_L87_L0.071410.772
37_L184_L0.07140.772
97_A192_W0.07140.772
159_D166_L0.07130.771
66_A122_M0.071140.769
89_E122_M0.071020.768
29_F175_F0.071010.768
5_L184_L0.070950.767
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
4j05A0.8852890.899
1pw4A0.846973.90.914
4apsA0.86660.90.921
2gfpA0.818250.40.926
2xutA0.861242.40.929
3o7qA0.846940.40.93
4gc0A0.913938.30.931
4iu9B0.8421130.944
4jr9A0.92829.80.947
2wjnM0.287160.951
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