GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
NADH_dehy_S2_C - NADH dehydrogenase subunit 2 C-terminus
Pfam: PF06444 (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: 56
Sequences: 6424
Seq/Len: 114.71
HH_delta: 0.685 (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
42_T46_L0.795982.166
34_N38_S0.756162.058
42_T45_I0.712871.940
34_N37_L0.683131.859
34_N39_I0.630231.715
41_T44_S0.570571.553
20_S23_M0.550621.498
22_S25_K0.533371.452
1_L4_Y0.493241.342
36_P39_I0.492531.340
10_S25_K0.480711.308
22_S27_R0.451111.228
40_L43_I0.443621.207
31_K36_P0.431951.176
2_F7_L0.43191.175
5_L8_T0.429191.168
3_F6_R0.420721.145
39_I42_T0.410761.118
15_L18_N0.402411.095
2_F21_N0.391531.066
11_M25_K0.379191.032
35_L38_S0.377931.029
18_N22_S0.37151.011
20_S24_T0.369521.006
38_S42_T0.368331.002
20_S30_P0.361340.983
9_Y14_T0.360010.980
24_T28_L0.3570.972
5_L12_T0.352650.960
20_S25_K0.349510.951
10_S13_L0.347840.947
2_F50_L0.346050.942
6_R26_W0.345680.941
21_N30_P0.342230.931
22_S29_K0.3390.923
7_L18_N0.338150.920
38_S41_T0.337510.919
10_S16_P0.336570.916
11_M22_S0.330630.900
48_L51_T0.326480.888
41_T45_I0.324330.883
19_T27_R0.318490.867
8_T16_P0.316170.860
1_L9_Y0.315030.857
8_T24_T0.314740.857
9_Y44_S0.313480.853
31_K34_N0.31260.851
47_G51_T0.307590.837
13_L25_K0.307270.836
16_P20_S0.305870.832
45_I48_L0.302270.823
43_I46_L0.302040.822
20_S27_R0.301190.820
35_L39_I0.298060.811
18_N23_M0.297450.809
36_P40_L0.292840.797
20_S46_L0.289350.787
5_L23_M0.286890.781
11_M27_R0.283460.771
9_Y26_W0.278120.757
22_S28_L0.274960.748
24_T29_K0.271690.739
8_T25_K0.266480.725
9_Y21_N0.265560.723
16_P24_T0.260870.710
44_S47_G0.260310.708
3_F39_I0.250960.683
21_N25_K0.249660.679
26_W49_P0.248730.677
20_S40_L0.248080.675
43_I47_G0.245510.668
18_N28_L0.244110.664
6_R9_Y0.244040.664
21_N43_I0.243550.663
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
4he8N0.87511.20.685
3rkoN0.92867.10.711
4he8M0.87530.756
3rkoL0.91072.20.77
2l2tA0.26790.90.814
3rkoM0.96430.80.819
3arcJ0.250.80.819
4he8L0.91070.50.84
3j3wP0.35710.40.85
3r8sP0.35710.40.85
If you are interested in a protein containing this domain,
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