GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
COX4_pro - Prokaryotic Cytochrome C oxidase subunit IV
Pfam: PF03626 (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: 818
Seq/Len: 10.91
HH_delta: 0.849 (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
65_W69_L0.363022.218
31_A35_V0.345642.112
8_L44_V0.321971.968
40_K44_V0.272091.663
2_V6_I0.267331.634
6_I10_V0.2611.595
47_Y52_R0.253991.552
60_L64_G0.246621.507
18_L32_L0.243081.485
30_V35_V0.229791.404
14_L32_L0.213971.308
65_W68_L0.20641.261
51_L59_R0.202461.237
15_S44_V0.199751.221
4_V8_L0.199221.217
8_L40_K0.196171.199
54_A58_F0.192611.177
6_I31_A0.190161.162
28_V32_L0.189811.160
50_H54_A0.188681.153
64_G68_L0.186481.140
15_S36_L0.185911.136
41_A44_V0.185681.135
54_A62_I0.183491.121
4_V47_Y0.181461.109
40_K69_L0.178021.088
19_A48_F0.177971.088
28_V36_L0.176381.078
42_R46_L0.175071.070
49_M53_H0.174991.069
28_V34_L0.174051.064
15_S37_A0.173941.063
16_F50_H0.172561.055
57_L66_L0.170341.041
3_I10_V0.16891.032
16_F41_A0.16691.020
9_L13_A0.165721.013
56_R67_V0.165321.010
34_L71_L0.163260.998
5_W42_R0.15960.975
8_L41_A0.159550.975
3_I14_L0.159410.974
16_F19_A0.15790.965
40_K48_F0.155680.951
49_M65_W0.155410.950
23_L26_G0.154760.946
50_H65_W0.154270.943
14_L36_L0.154210.942
8_L70_S0.152430.931
28_V31_A0.152310.931
23_L27_W0.151340.925
62_I66_L0.150570.920
45_L51_L0.148240.906
57_L60_L0.146490.895
34_L67_V0.146410.895
24_G35_V0.145610.890
51_L54_A0.14430.882
6_I39_V0.144040.880
3_I27_W0.142830.873
57_L61_L0.142820.873
21_S68_L0.142760.872
27_W53_H0.142610.871
17_A21_S0.141580.865
46_L59_R0.141440.864
6_I13_A0.141440.864
31_A64_G0.140830.861
36_L64_G0.138690.848
4_V43_L0.138080.844
4_V40_K0.137750.842
43_L49_M0.13760.841
9_L64_G0.136770.836
26_G49_M0.136360.833
27_W67_V0.135590.829
39_V43_L0.135210.826
47_Y50_H0.134210.820
32_L37_A0.133850.818
40_K45_L0.133740.817
44_V49_M0.133280.814
18_L24_G0.133220.814
21_S66_L0.132780.811
67_V70_S0.132730.811
58_F65_W0.131690.805
38_L63_L0.131690.805
30_V36_L0.131520.804
25_S28_V0.130310.796
18_L29_A0.129090.789
45_L61_L0.128680.786
15_S40_K0.128540.786
4_V70_S0.128490.785
32_L57_L0.126530.773
3_I6_I0.126170.771
25_S31_A0.126130.771
27_W31_A0.12610.771
9_L41_A0.125270.766
17_A20_Y0.124450.761
55_P71_L0.124210.759
16_F29_A0.124120.758
18_L22_H0.123590.755
29_A32_L0.123540.755
38_L57_L0.122490.749
18_L23_L0.121880.745
32_L36_L0.120440.736
34_L38_L0.119710.732
32_L62_I0.119680.731
10_V27_W0.119030.727
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
2cvcA0.333390.849
1z1nX0.33337.90.853
2e84A0.33336.50.858
3mp7A13.10.877
3j01B0.65332.90.879
2w3zA0.362.70.881
2iubA0.33332.10.887
3dl8G12.10.887
2j7aC0.3620.887
4i0uA0.333320.887
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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