GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2061 - Predicted membrane protein (DUF2061)
Pfam: PF09834 (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: 53
Sequences: 280
Seq/Len: 5.28
HH_delta: 0.878 (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
30_G33_A0.400162.318
16_F33_A0.382092.214
17_A21_A0.306331.775
25_S30_G0.291571.689
16_F30_G0.267971.552
6_S47_H0.266981.547
20_Y44_Y0.266541.544
8_R12_T0.262211.519
5_L9_V0.255561.481
10_I43_L0.243341.410
15_T40_K0.24311.408
36_E47_H0.234471.358
18_V35_I0.233731.354
2_A49_R0.230481.335
11_H37_P0.228991.327
10_I27_A0.219411.271
8_R41_T0.216151.252
19_A32_I0.208071.205
7_W41_T0.194941.129
14_V43_L0.193631.122
2_A53_R0.192181.113
25_S34_L0.191331.108
28_A34_L0.189691.099
31_A35_I0.184561.069
2_A39_V0.180241.044
38_V53_R0.17911.038
7_W40_K0.178891.036
5_L52_S0.178611.035
32_I45_Y0.176941.025
22_F28_A0.174581.011
10_I34_L0.170370.987
17_A22_F0.169380.981
13_T48_E0.164620.954
31_A34_L0.162820.943
14_V31_A0.162280.940
33_A40_K0.156350.906
15_T36_E0.155790.903
34_L53_R0.155430.900
7_W15_T0.152360.883
9_V17_A0.151090.875
5_L32_I0.150.869
6_S10_I0.148110.858
5_L38_V0.145910.845
38_V42_V0.144740.839
19_A27_A0.143210.830
8_R40_K0.143020.829
13_T17_A0.142410.825
10_I13_T0.141350.819
11_H15_T0.140770.816
9_V52_S0.137970.799
11_H40_K0.136050.788
32_I38_V0.135830.787
5_L50_A0.13480.781
2_A26_L0.134380.779
14_V39_V0.13410.777
21_A49_R0.132920.770
8_R15_T0.132550.768
46_F49_R0.132090.765
16_F45_Y0.132070.765
9_V38_V0.131360.761
24_G29_A0.130610.757
19_A25_S0.130530.756
12_T33_A0.130520.756
6_S36_E0.130050.753
37_P41_T0.127890.741
8_R48_E0.127120.736
32_I35_I0.125020.724
21_A26_L0.124740.723
17_A32_I0.122950.712
26_L44_Y0.121940.706
18_V24_G0.121620.705
14_V45_Y0.121170.702
17_A26_L0.121130.702
26_L38_V0.120010.695
19_A48_E0.119910.695
22_F53_R0.118320.685
44_Y48_E0.117790.682
1_L50_A0.117670.682
20_Y35_I0.117470.681
16_F28_A0.116340.674
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
3fewX0.96239.30.878
2qtsA0.90578.60.88
1ciiA0.98117.40.883
3qnqA0.98114.10.895
2i88A0.92452.90.902
1a87A0.98112.60.904
1jb0A0.96232.30.908
1sy7A0.962320.91
2yikA120.91
4bkxB0.41511.70.913
If you are interested in a protein containing this domain,
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