GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Complex1_LYR - Complex 1 protein (LYR family)
Pfam: PF05347 (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. )
Clan: CL0491
Length: 59
Sequences: 1481
Seq/Len: 25.1
HH_delta: 0.812 (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
40_E49_L0.841342.676
35_R38_R0.84042.673
6_L53_G0.683522.174
40_E45_K0.639542.034
10_L30_I0.574321.827
31_R35_R0.565781.799
7_Y31_R0.472151.502
33_E36_K0.461371.467
9_Q54_E0.459151.460
43_P47_E0.447311.423
10_L34_F0.436971.390
17_F26_I0.435221.384
37_N40_E0.423841.348
29_E33_E0.404451.286
14_A27_R0.391021.244
8_R12_R0.382591.217
29_E32_Q0.373421.188
49_L53_G0.370871.180
45_K48_E0.360371.146
27_R31_R0.351661.118
48_E52_K0.350371.114
11_L27_R0.342031.088
28_A32_Q0.34071.084
51_K55_E0.337861.075
14_A26_I0.336871.071
4_L47_E0.335971.069
5_S9_Q0.334691.064
32_Q36_K0.328451.045
11_L30_I0.322831.027
40_E46_I0.321461.022
48_E51_K0.31831.012
12_R15_R0.308080.980
25_Y29_E0.302960.964
2_R54_E0.302140.961
20_D24_E0.300470.956
37_N49_L0.300130.955
13_A16_S0.299360.952
49_L52_K0.296550.943
26_I29_E0.281480.895
41_T46_I0.277530.883
44_E48_E0.277520.883
6_L34_F0.276310.879
24_E28_A0.272710.867
42_D46_I0.270320.860
14_A30_I0.262870.836
18_P21_S0.260950.830
20_D23_R0.260120.827
33_E52_K0.258840.823
24_E32_Q0.257140.818
3_V50_L0.256440.816
4_L12_R0.254610.810
8_R18_P0.252640.803
47_E51_K0.25120.799
41_T45_K0.246720.785
35_R39_N0.232520.740
36_K55_E0.225010.716
9_Q26_I0.223440.711
24_E51_K0.218730.696
27_R53_G0.213350.679
19_D23_R0.211370.672
6_L10_L0.206430.657
50_L53_G0.204980.652
51_K54_E0.204640.651
45_K49_L0.203910.649
44_E47_E0.202970.646
4_L28_A0.20230.643
20_D27_R0.200640.638
23_R27_R0.200620.638
19_D24_E0.198310.631
7_Y11_L0.193710.616
23_R26_I0.193180.614
42_D45_K0.192050.611
46_I50_L0.191580.609
8_R15_R0.190580.606
17_F55_E0.190360.605
28_A35_R0.189460.603
11_L15_R0.188870.601
21_S28_A0.188810.600
3_V34_F0.18810.598
8_R31_R0.186210.592
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
1xl3C0.694912.50.812
4a5xA0.915311.20.817
2ymbA0.89839.60.822
2ke4A19.30.823
3fflA0.98318.60.825
2bidA0.59327.60.829
2w2uA0.81367.50.83
1ddbA0.59326.90.832
2ld7A0.94926.80.832
4af1A0.84756.20.835
If you are interested in a protein containing this domain,
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