GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DctQ - Tripartite ATP-independent periplasmic transporters DctQ component
Pfam: PF04290 (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: 133
Sequences: 3624
Seq/Len: 27.25
HH_delta: 0.913 (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
58_P61_L0.962342.907
10_V15_F0.871232.632
60_R63_R0.860912.601
51_D55_D0.838022.531
41_A46_G0.812132.453
7_A19_I0.805922.435
73_I123_A0.735732.222
74_L120_A0.708112.139
57_L61_L0.70622.133
10_V14_F0.699682.114
5_V26_A0.673392.034
122_Q125_L0.658251.988
81_A120_A0.637781.927
67_I127_L0.631991.909
32_W111_A0.608721.839
98_T101_L0.603691.824
77_F116_F0.537341.623
42_V119_M0.530321.602
78_A120_A0.529861.601
61_L64_I0.52831.596
11_L15_F0.527891.595
57_L65_L0.520951.574
78_A82_W0.49211.487
77_F120_A0.492051.486
81_A117_V0.478041.444
104_P107_W0.477591.443
7_A11_L0.476731.440
60_R64_I0.472221.426
64_I68_I0.471521.424
77_F119_M0.461611.394
39_A122_Q0.450541.361
84_G116_F0.425921.287
38_A119_M0.423711.280
49_R66_D0.419481.267
54_Y66_D0.415291.254
74_L127_L0.413771.250
110_L113_P0.406181.227
28_Y105_L0.399461.207
84_G113_P0.3931.187
8_Q23_E0.386531.168
40_Y44_R0.385391.164
89_L93_R0.384741.162
24_E98_T0.382711.156
59_P62_R0.380611.150
28_Y98_T0.377111.139
42_V123_A0.376621.138
23_E27_R0.374061.130
39_A115_G0.371341.122
9_V13_Y0.371111.121
110_L114_I0.367761.111
84_G112_I0.366181.106
6_F10_V0.362871.096
28_Y108_V0.362271.094
11_L19_I0.361671.093
30_F34_I0.357651.080
45_G126_R0.357091.079
94_S106_W0.349551.056
105_L108_V0.349441.056
88_A110_L0.345641.044
53_L57_L0.34261.035
68_I72_L0.340691.029
49_R54_Y0.335091.012
8_Q22_T0.333551.008
45_G49_R0.332931.006
2_V6_F0.330420.998
25_L101_L0.329860.996
98_T105_L0.326540.986
54_Y62_R0.324530.980
124_L128_V0.323020.976
64_I67_I0.320850.969
85_W89_L0.318020.961
54_Y65_L0.317720.960
3_L7_A0.314250.949
74_L123_A0.312660.944
26_A30_F0.30480.921
61_L65_L0.303930.918
91_A109_Y0.303020.915
43_R122_Q0.302830.915
81_A85_W0.302630.914
90_A93_R0.300010.906
98_T102_G0.299810.906
111_A115_G0.297390.898
32_W36_L0.296550.896
8_Q27_R0.295320.892
4_L29_L0.292560.884
125_L129_R0.291860.882
81_A116_F0.290980.879
77_F123_A0.29090.879
59_P63_R0.290150.876
45_G70_S0.288060.870
126_R129_R0.285450.862
65_L69_A0.28540.862
53_L56_R0.284160.858
52_L56_R0.280530.847
85_W113_P0.279790.845
58_P64_I0.279080.843
43_R125_L0.277830.839
71_L75_V0.277820.839
96_Q105_L0.27670.836
8_Q18_P0.275820.833
48_I51_D0.273220.825
99_P103_I0.272130.822
70_S126_R0.269820.815
8_Q11_L0.266640.805
4_L22_T0.265330.802
80_L116_F0.262820.794
92_F106_W0.261130.789
23_E26_A0.260880.788
26_A29_L0.260840.788
20_P35_F0.260570.787
79_V83_Y0.258330.780
115_G118_L0.257430.778
88_A92_F0.257290.777
6_F9_V0.256960.776
90_A94_S0.256430.775
54_Y57_L0.256270.774
11_L17_S0.254050.767
35_F112_I0.252940.764
21_W25_L0.251510.760
91_A94_S0.251450.760
42_V51_D0.250960.758
122_Q126_R0.249670.754
97_T102_G0.246920.746
41_A47_H0.246310.744
105_L109_Y0.243880.737
8_Q19_I0.242790.733
56_R62_R0.242140.731
84_G110_L0.239980.725
23_E100_I0.23910.722
88_A93_R0.238010.719
72_L75_V0.23780.718
38_A47_H0.237090.716
13_Y16_G0.236920.716
81_A84_G0.236390.714
89_L92_F0.235680.712
6_F33_M0.235650.712
55_D62_R0.235120.710
92_F96_Q0.233990.707
24_E28_Y0.233970.707
76_F80_L0.233640.706
11_L14_F0.232640.703
37_G41_A0.22940.693
63_R66_D0.22890.691
123_A126_R0.228820.691
31_V34_I0.226840.685
91_A96_Q0.226630.685
30_F33_M0.225830.682
4_L8_Q0.224310.678
69_A96_Q0.223790.676
31_V35_F0.223710.676
121_L125_L0.223680.676
19_I22_T0.22210.671
23_E31_V0.220170.665
41_A49_R0.219010.662
42_V126_R0.217960.658
69_A73_I0.214740.649
81_A113_P0.214250.647
27_R31_V0.213540.645
117_V121_L0.213530.645
114_I118_L0.210850.637
40_Y43_R0.210710.637
62_R66_D0.209940.634
7_A22_T0.209290.632
42_V122_Q0.208610.630
38_A42_V0.208170.629
92_F95_G0.20720.626
38_A41_A0.207130.626
111_A114_I0.205280.620
4_L25_L0.205070.619
5_V8_Q0.204750.619
8_Q26_A0.201480.609
32_W115_G0.201440.609
96_Q99_P0.200450.606
18_P24_E0.19940.602
80_L112_I0.198510.600
45_G66_D0.196930.595
62_R65_L0.195580.591
91_A95_G0.19550.591
39_A119_M0.194840.589
116_F120_A0.191750.579
67_I71_L0.191580.579
70_S127_L0.190230.575
88_A113_P0.188770.570
115_G119_M0.18850.569
23_E34_I0.18710.565
95_G98_T0.186350.563
4_L21_W0.185990.562
5_V9_V0.184630.558
97_T103_I0.184290.557
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:
PDB Cov Prob HH_delta
2odbB0.240610.90.913
2ov2I0.24069.50.915
2qmeI0.24817.60.919
2wswA0.63166.10.922
3nd0A0.87974.90.925
3orgA0.5944.60.926
3mk7C0.57144.30.927
3b5dA0.34594.10.928
2a65A0.89473.20.931
4eneA0.65412.90.932
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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