GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
YGGT - YGGT family
Pfam: PF02325 (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: 75
Sequences: 1729
Seq/Len: 23.05
HH_delta: 0.88 (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
44_F61_A0.925842.915
15_R37_T0.88052.773
38_E42_R0.872232.747
5_L65_L0.771422.429
40_I43_P0.697522.196
40_I61_A0.667812.103
59_L66_Q0.595271.874
12_I61_A0.553671.743
45_R55_D0.542751.709
43_P47_I0.529351.667
44_F64_V0.501911.580
51_I56_F0.477091.502
6_S69_K0.475841.498
31_Q35_R0.45781.442
16_F58_P0.453271.427
2_N69_K0.434061.367
5_L69_K0.431831.360
8_Y40_I0.427681.347
38_E45_R0.426751.344
6_S10_W0.407751.284
12_I58_P0.406871.281
32_F36_I0.396771.249
27_N30_V0.376151.184
66_Q69_K0.375131.181
41_L57_S0.365991.152
19_S58_P0.361061.137
40_I44_F0.353831.114
11_L36_I0.350981.105
67_F71_I0.347471.094
9_I66_Q0.345441.088
2_N5_L0.34291.080
8_Y43_P0.337311.062
5_L9_I0.337111.062
60_V67_F0.33341.050
3_T7_I0.333331.050
12_I62_L0.32331.018
34_Y37_T0.321061.011
41_L58_P0.31280.985
66_Q70_I0.305140.961
16_F19_S0.300380.946
24_N30_V0.296420.933
6_S9_I0.296310.933
10_W14_L0.29490.929
13_I16_F0.293420.924
28_P31_Q0.292650.922
22_P30_V0.286460.902
8_Y11_L0.285860.900
11_L37_T0.269180.848
16_F20_W0.269060.847
2_N71_I0.268150.844
9_I62_L0.26530.835
56_F59_L0.265120.835
26_Y31_Q0.264530.833
8_Y65_L0.263990.831
21_F24_N0.263930.831
44_F60_V0.260160.819
33_I39_P0.25740.811
41_L61_A0.256470.808
62_L66_Q0.256010.806
12_I41_L0.254450.801
15_R38_E0.253610.799
2_N6_S0.250110.788
25_P30_V0.249880.787
15_R34_Y0.247690.780
2_N72_L0.245210.772
9_I65_L0.24520.772
25_P34_Y0.241370.760
59_L62_L0.240940.759
7_I11_L0.240150.756
12_I16_F0.233240.734
45_R57_S0.23250.732
68_L71_I0.230130.725
63_I66_Q0.223870.705
65_L69_K0.223040.702
67_F70_I0.222640.701
18_L30_V0.222630.701
9_I13_I0.222610.701
13_I17_I0.222440.700
3_T70_I0.21760.685
24_N27_N0.216770.683
34_Y38_E0.215960.680
32_F65_L0.215870.680
50_P53_G0.215660.679
15_R72_L0.213930.674
18_L22_P0.212180.668
17_I21_F0.2080.655
54_I58_P0.207720.654
33_I58_P0.206410.650
12_I37_T0.206290.650
6_S64_V0.204190.643
8_Y12_I0.203060.639
48_I51_I0.202930.639
8_Y32_F0.201930.636
59_L63_I0.201040.633
26_Y35_R0.200780.632
28_P35_R0.199620.629
20_W56_F0.198840.626
36_I70_I0.190750.601
45_R60_V0.190560.600
10_W16_F0.190150.599
12_I19_S0.188410.593
15_R41_L0.188010.592
15_R18_L0.187110.589
47_I50_P0.184190.580
6_S62_L0.18290.576
44_F48_I0.182530.575
39_P56_F0.182290.574
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
1nmbN0.448.50.88
3tiaA0.45336.50.886
4b7jA0.445.30.89
2nwlA0.90671.50.916
1ku5A0.57331.40.917
3w9iA0.94671.30.918
3k3fA0.65331.20.919
3j1rA0.26671.20.92
2ifoA0.360.90.924
1mhsA0.960.90.924
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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