GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PGPGW - Putative transmembrane protein (PGPGW)
Pfam: PF09656 (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: 308
Seq/Len: 5.81
HH_delta: 0.845 (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
18_M28_V0.466432.663
11_L35_I0.401662.293
8_G32_G0.385242.199
9_W13_V0.328831.877
19_L29_I0.31861.819
12_V32_G0.316321.806
26_L30_F0.261041.490
4_V24_P0.254541.453
4_V39_E0.248351.418
16_I19_L0.244761.397
20_P26_L0.241371.378
37_A47_L0.231261.320
24_P28_V0.228041.302
3_G13_V0.206251.177
9_W31_L0.205091.171
12_V21_L0.203581.162
17_I21_L0.199571.139
8_G44_R0.186611.065
5_G40_F0.186191.063
3_G45_R0.184141.051
13_V17_I0.175821.004
2_I10_V0.175371.001
4_V40_F0.172660.986
4_V8_G0.170090.971
8_G36_L0.167790.958
30_F49_R0.165230.943
14_A18_M0.160570.917
8_G47_L0.160240.915
11_L28_V0.157850.901
18_M23_G0.157180.897
19_L27_L0.156430.893
9_W34_A0.154810.884
4_V38_T0.154720.883
23_G30_F0.153110.874
37_A40_F0.151890.867
24_P43_A0.150420.859
3_G41_P0.149510.853
11_L50_L0.147090.840
7_L48_R0.146280.835
26_L49_R0.145550.831
17_I20_P0.144720.826
2_I5_G0.144690.826
34_A45_R0.143640.820
4_V43_A0.142870.816
3_G6_V0.142850.815
12_V50_L0.141560.808
9_W45_R0.140910.804
3_G35_I0.140590.803
44_R48_R0.139360.796
12_V33_L0.139170.794
42_W46_L0.13730.784
21_L32_G0.134040.765
21_L28_V0.133120.760
2_I9_W0.132980.759
9_W33_L0.131760.752
40_F49_R0.130860.747
27_L30_F0.130560.745
15_G20_P0.129330.738
24_P27_L0.129290.738
12_V44_R0.129210.738
17_I42_W0.128940.736
23_G42_W0.128370.733
6_V21_L0.128070.731
8_G39_E0.127980.731
7_L29_I0.127790.729
19_L26_L0.127480.728
34_A44_R0.127230.726
41_P50_L0.126920.725
3_G9_W0.126430.722
43_A46_L0.124280.709
30_F45_R0.121590.694
2_I6_V0.12140.693
16_I45_R0.118820.678
31_L34_A0.118720.678
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
3ux4A0.60389.60.845
3qe7A19.20.847
4bk5C0.67928.50.848
2x11B0.67925.40.862
3b4rA0.90574.20.868
2j4tA0.66044.10.869
4fzhA0.62263.20.875
2amhA0.58492.90.877
3ixzA0.98112.90.877
1dlcA0.96232.60.88
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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