GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF3341 - Protein of unknown function (DUF3341)
Pfam: PF11821 (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: 173
Sequences: 1174
Seq/Len: 6.79
HH_delta: 0.884 (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
27_Y157_T0.378553.250
11_D14_A0.364433.129
21_K163_S0.262022.249
7_A166_A0.229261.968
9_F164_L0.227341.952
9_F18_A0.212731.826
105_F109_G0.204051.752
156_K159_A0.198461.704
55_I59_G0.198331.703
73_Y76_A0.192351.651
101_L105_F0.191681.646
153_D156_K0.180181.547
18_A161_L0.178651.534
71_Q74_T0.177751.526
22_L160_F0.177551.524
17_H164_L0.175411.506
21_K25_A0.175341.505
8_E142_F0.170911.467
158_R162_E0.165081.417
69_L73_Y0.163831.406
12_P16_L0.163081.400
7_A161_L0.161761.389
159_A163_S0.157221.350
21_K164_L0.15061.293
31_D148_D0.148371.274
21_K24_D0.147221.264
103_V107_A0.146941.261
58_V62_T0.146781.260
8_E140_R0.14531.247
98_T109_G0.145021.245
19_A143_L0.144951.244
102_T114_M0.144091.237
65_A69_L0.142661.225
125_H128_F0.13591.167
13_E163_S0.135191.161
38_V41_L0.134831.158
63_G67_A0.134661.156
69_L74_T0.131941.133
109_G113_G0.131461.129
106_A109_G0.131121.126
103_V163_S0.130751.122
7_A18_A0.129461.111
136_A139_D0.129131.109
29_I32_V0.129011.108
122_R126_P0.128441.103
42_D46_G0.127261.093
75_N109_G0.126011.082
15_L141_F0.125271.075
150_P156_K0.124971.073
57_L60_G0.124221.066
147_A154_E0.123331.059
70_L74_T0.123021.056
55_I68_F0.122741.054
8_E131_P0.122131.048
103_V114_M0.121041.039
22_L143_L0.120841.037
64_F69_L0.120031.030
157_T160_F0.119581.027
59_G63_G0.119391.025
8_E39_H0.119011.022
7_A157_T0.117941.013
59_G105_F0.117721.011
16_L20_R0.117111.005
61_L64_F0.117021.005
5_L51_R0.116951.004
19_A32_V0.116791.003
20_R24_D0.116431.000
155_E159_A0.115720.993
49_R52_L0.114890.986
73_Y104_L0.11430.981
107_A165_G0.114140.980
64_F71_Q0.113920.978
51_R54_W0.113910.978
31_D100_E0.113880.978
32_V43_E0.113860.977
37_P40_G0.113640.976
22_L125_H0.113520.975
102_T106_A0.111540.958
22_L145_I0.111450.957
15_L34_T0.111240.955
111_V114_M0.111070.954
56_A110_T0.111040.953
62_T65_A0.110930.952
70_L112_L0.110650.950
54_W62_T0.110630.950
5_L166_A0.110290.947
59_G113_G0.110220.946
55_I114_M0.110210.946
53_P57_L0.109980.944
20_R164_L0.108910.935
59_G128_F0.108860.935
62_T66_T0.108750.934
66_T105_F0.108560.932
125_H136_A0.106650.916
130_D138_D0.106610.915
23_R160_F0.106440.914
46_G51_R0.106430.914
59_G122_R0.106220.912
23_R29_I0.105860.909
114_M118_N0.105550.906
5_L8_E0.10540.905
64_F74_T0.105140.903
4_G144_A0.105130.903
112_L129_N0.10490.901
131_P140_R0.10490.901
60_G106_A0.104810.900
58_V71_Q0.104630.898
74_T101_L0.104510.897
10_D26_G0.104350.896
110_T113_G0.104260.895
55_I113_G0.104210.895
104_L108_L0.104210.895
124_Y127_L0.104210.895
25_A156_K0.104190.894
128_F142_F0.104120.894
4_G146_E0.104110.894
27_Y32_V0.103780.891
66_T69_L0.103730.891
12_P141_F0.103590.889
35_P139_D0.103280.887
60_G102_T0.102230.878
62_T70_L0.101990.876
13_E20_R0.101610.872
75_N101_L0.101530.872
21_K160_F0.101490.871
115_L125_H0.10090.866
25_A160_F0.100780.865
10_D161_L0.100740.865
37_P163_S0.10.858
103_V106_A0.099950.858
127_L141_F0.099540.855
5_L145_I0.09890.849
10_D140_R0.098040.842
64_F73_Y0.0980.841
136_A142_F0.09780.840
17_H21_K0.09770.839
123_L130_D0.097580.838
37_P41_L0.097240.835
31_D149_D0.096960.832
5_L147_A0.096460.828
44_A47_L0.096350.827
66_T113_G0.096230.826
131_P136_A0.095520.820
52_L111_V0.095190.817
149_D163_S0.095120.817
53_P56_A0.094510.811
7_A120_L0.093760.805
105_F114_M0.09350.803
13_E148_D0.093370.802
40_G49_R0.093070.799
31_D140_R0.092660.795
10_D148_D0.09250.794
65_A72_W0.092210.792
128_F136_A0.091710.787
28_R112_L0.091560.786
77_V119_G0.091470.785
9_F136_A0.09140.785
15_L35_P0.091170.783
10_D14_A0.091010.781
25_A163_S0.090930.781
73_Y77_V0.090720.779
73_Y128_F0.090680.778
35_P136_A0.090630.778
62_T74_T0.090630.778
105_F115_L0.090510.777
46_G141_F0.089920.772
102_T115_L0.089440.768
41_L44_A0.089360.767
26_G121_P0.089290.767
148_D153_D0.089260.766
68_F130_D0.089040.764
27_Y160_F0.088850.763
69_L72_W0.088770.762
107_A141_F0.088590.761
17_H20_R0.088350.758
30_W34_T0.088350.758
105_F113_G0.088340.758
104_L107_A0.088010.756
6_L144_A0.08790.755
33_Y99_F0.087760.753
52_L109_G0.087710.753
8_E128_F0.087540.752
48_K52_L0.087020.747
62_T101_L0.086770.745
160_F163_S0.086710.744
32_V146_E0.086620.744
72_W158_R0.086140.740
117_L139_D0.086030.739
108_L129_N0.085490.734
12_P19_A0.085170.731
37_P137_T0.085140.731
49_R162_E0.085030.730
52_L73_Y0.084950.729
6_L166_A0.084860.729
64_F75_N0.084850.728
27_Y147_A0.084780.728
108_L128_F0.084530.726
129_N137_T0.084360.724
48_K51_R0.084210.723
30_W66_T0.084170.723
49_R140_R0.083760.719
54_W57_L0.083490.717
118_N127_L0.083450.716
67_A103_V0.08340.716
100_E104_L0.083240.715
76_A101_L0.08310.713
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
3ldtA0.4104760.884
1x60A0.202354.40.899
1utaA0.213949.10.902
2dguA0.346839.40.907
3trhA0.849736.80.909
2ywxA0.855526.70.915
1u6fA0.3295220.918
2h31A0.832421.40.918
4ay3A0.826620.60.919
3thaA0.890219.70.92
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

Page generated in 0.0276 seconds.