GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PhaG_MnhG_YufB - NaH antiporter subunit
Pfam: PF03334 (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: 81
Sequences: 929
Seq/Len: 11.47
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
10_L14_I0.512152.754
7_F11_I0.473222.544
20_P24_T0.431512.320
22_F79_A0.357741.923
5_G43_G0.353741.902
19_F27_H0.32641.755
6_A10_L0.322271.733
1_L42_I0.320181.721
21_D24_T0.317691.708
23_Y79_A0.316421.701
2_L43_G0.313281.684
4_L39_L0.30881.660
15_G28_A0.294171.582
19_F28_A0.293741.579
22_F75_I0.293681.579
30_S72_S0.293461.578
1_L39_L0.27461.476
5_G36_G0.259491.395
21_D31_K0.254331.367
12_G26_L0.248241.335
63_F67_T0.241111.296
45_A54_S0.222531.196
26_L76_A0.220431.185
77_R81_R0.220271.184
73_H77_R0.218711.176
6_A13_A0.217971.172
30_S60_I0.215671.160
5_G40_I0.212671.143
63_F69_P0.211931.139
15_G19_F0.210231.130
3_L6_A0.208461.121
34_T69_P0.20341.094
23_Y75_I0.200761.079
15_G18_R0.199491.073
33_D64_L0.193961.043
17_L28_A0.192411.034
8_F34_T0.191671.031
44_L57_L0.191321.029
9_M40_I0.188031.011
6_A9_M0.18661.003
12_G32_A0.185450.997
38_I61_I0.184580.992
16_L29_A0.181950.978
13_A25_R0.181760.977
37_A64_L0.178910.962
68_N74_A0.178590.960
15_G63_F0.178320.959
3_L7_F0.177690.955
42_I46_L0.176680.950
1_L62_L0.174730.939
29_A69_P0.174570.939
51_S59_L0.174190.937
1_L46_L0.17320.931
70_V76_A0.170430.916
4_L14_I0.168790.907
12_G33_D0.168790.907
17_L52_W0.167810.902
67_T70_V0.163590.880
26_L30_S0.163050.877
18_R63_F0.162450.873
42_I45_A0.161780.870
55_L76_A0.161720.869
8_F36_G0.1610.866
43_G57_L0.158480.852
29_A80_Y0.158210.851
65_L77_R0.156930.844
48_F74_A0.156620.842
32_A64_L0.155350.835
34_T64_L0.152690.821
33_D44_L0.152180.818
69_P73_H0.151310.814
44_L71_A0.150510.809
11_I14_I0.149440.803
38_I65_L0.149360.803
31_K72_S0.148680.799
37_A57_L0.148430.798
31_K34_T0.14810.796
45_A60_I0.147780.795
27_H33_D0.147490.793
43_G47_Y0.146540.788
48_F54_S0.146050.785
77_R80_Y0.143340.771
52_W65_L0.142030.764
12_G34_T0.141290.760
62_L81_R0.14110.759
50_S56_K0.140930.758
41_L45_A0.138770.746
8_F35_L0.138130.743
33_D57_L0.136520.734
26_L68_N0.134670.724
3_L43_G0.132540.713
30_S76_A0.13250.712
43_G48_F0.13220.711
66_L69_P0.131210.705
11_I19_F0.130610.702
8_F30_S0.130010.699
17_L44_L0.129370.696
11_I22_F0.12860.691
60_I73_H0.128410.690
49_G58_L0.127940.688
10_L13_A0.12710.683
24_T66_L0.12690.682
44_L56_K0.126530.680
13_A70_V0.126510.680
4_L8_F0.12650.680
14_I79_A0.124870.671
58_L61_I0.124670.670
4_L52_W0.124620.670
8_F47_Y0.12460.670
60_I76_A0.124190.668
71_A74_A0.123980.667
14_I75_I0.123690.665
9_M60_I0.123350.663
37_A65_L0.123310.663
2_L33_D0.123140.662
11_I44_L0.122630.659
31_K77_R0.122370.658
19_F60_I0.122160.657
35_L61_I0.121450.653
69_P72_S0.121030.651
44_L61_I0.12070.649
1_L36_G0.120080.646
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
4he8M0.827217.90.884
3rkoM0.987715.80.887
3rkoL0.790113.60.89
4he8L0.790111.10.894
3rkoN0.98775.40.908
3b5dA0.93832.80.919
1oedA0.34572.50.921
1zcdA0.97532.40.921
1fgjA0.33332.40.921
2cvcA0.44442.20.923
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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