GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TM2 - TM2 domain
Pfam: PF05154 (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: 51
Sequences: 1044
Seq/Len: 20.47
HH_delta: 0.875 (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
21_H34_Y0.888092.475
22_R30_K0.861122.400
12_S21_H0.755332.105
29_G33_L0.690831.925
8_A25_L0.670231.868
5_K9_Y0.644011.795
13_F50_L0.628471.751
37_T40_G0.603211.681
8_A24_Y0.601341.676
11_L24_Y0.595621.660
9_Y12_S0.591781.649
34_Y45_W0.572421.595
27_K30_K0.566781.579
23_F31_G0.527641.470
37_T42_L0.516851.440
6_W10_L0.491111.369
22_R49_D0.487341.358
9_Y50_L0.484861.351
23_F35_L0.481581.342
41_I45_W0.469811.309
3_K25_L0.463291.291
3_K8_A0.455821.270
9_Y13_F0.448771.251
15_L20_L0.424541.183
20_L31_G0.417911.165
46_W50_L0.39651.105
12_S51_I0.385721.075
12_S34_Y0.375441.046
5_K51_I0.3490.973
45_W49_D0.341110.951
8_A11_L0.334990.934
28_Y32_I0.320940.894
22_R34_Y0.320480.893
7_I11_L0.316770.883
38_F43_G0.303010.844
17_W37_T0.292560.815
32_I36_L0.288140.803
28_Y31_G0.278650.777
44_I48_I0.275430.768
30_K34_Y0.268210.747
4_S7_I0.264760.738
10_L14_F0.263640.735
33_L45_W0.259350.723
17_W43_G0.258990.722
30_K33_L0.255870.713
36_L42_L0.250630.698
9_Y51_I0.246540.687
22_R45_W0.243190.678
7_I24_Y0.238420.664
34_Y37_T0.232670.648
48_I51_I0.228140.636
7_I14_F0.225280.628
42_L45_W0.220840.615
18_F38_F0.219610.612
38_F41_I0.218070.608
29_G32_I0.216170.602
38_F42_L0.213550.595
37_T41_I0.213330.594
22_R27_K0.213210.594
37_T45_W0.206460.575
29_G44_I0.203160.566
7_I10_L0.201490.561
47_L50_L0.201440.561
20_L23_F0.197170.549
26_G44_I0.195530.545
7_I15_L0.19550.545
17_W20_L0.194030.541
2_Q5_K0.189730.529
19_G31_G0.186180.519
23_F28_Y0.18430.514
18_F21_H0.184130.513
32_I40_G0.183350.511
21_H27_K0.182650.509
26_G31_G0.181850.507
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
1eysM0.94123.10.875
2xzhA0.47062.40.881
2losA0.98042.20.883
1kf6D0.96082.20.884
3arcA0.90220.886
4gd5A0.94121.80.888
2wjnM0.86271.80.888
2qrdB0.33331.30.896
4jq6A0.88241.30.896
1rzhM0.88241.30.897
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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