GREMLIN Database
COX4 - Cytochrome c oxidase subunit 4B
UniProt: P24013 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 110 (101)
Sequences: 182 (131)
Seq/√Len: 13.1

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_Q75_F2.9760.96
30_L45_T2.4730.91
94_V98_F2.4590.90
27_Y80_Q2.4570.90
36_I61_I2.2330.85
33_G36_I2.2260.85
104_F107_I2.1640.83
56_T108_I2.0980.81
35_M75_F2.0910.81
94_V97_A2.0020.78
41_V52_G1.9500.76
65_A69_I1.9290.75
98_F102_L1.7510.68
27_Y30_L1.7250.67
102_L106_T1.7180.66
38_L45_T1.6580.63
26_K62_L1.6510.63
19_K38_L1.6100.61
73_Y91_Y1.5610.58
46_V56_T1.5600.58
14_L98_F1.4980.55
28_Q37_G1.4810.54
30_L54_W1.4640.53
96_V103_A1.4090.51
60_I72_L1.3830.49
59_F85_A1.3690.48
79_N83_H1.3680.48
60_I90_L1.3410.47
19_K92_S1.3400.47
38_L57_I1.3160.46
62_L66_I1.3110.45
18_K84_E1.2940.45
51_V62_L1.2660.43
16_F25_M1.2190.41
40_I48_T1.2050.40
85_A105_V1.1810.39
41_V59_F1.1720.38
53_S57_I1.1590.38
40_I51_V1.1540.37
83_H86_P1.1410.37
52_G108_I1.1230.36
20_K55_F1.1000.35
62_L106_T1.0990.35
33_G75_F1.0960.35
19_K78_M1.0750.34
96_V99_I1.0680.33
79_N82_G1.0590.33
19_K96_V1.0590.33
75_F107_I1.0470.32
78_M93_G1.0390.32
23_R74_Y1.0150.31
45_T59_F1.0110.31
25_M107_I1.0000.30
48_T64_A0.9990.30
41_V97_A0.9950.30
88_L96_V0.9930.30
52_G56_T0.9820.29
49_D98_F0.9780.29
26_K70_F0.9770.29
72_L103_A0.9740.29
47_A52_G0.9660.29
17_K57_I0.9650.29
62_L65_A0.9650.29
47_A57_I0.9530.28
32_F41_V0.9520.28
25_M28_Q0.9360.28
81_K90_L0.9270.27
17_K63_L0.9260.27
26_K60_I0.9230.27
74_Y83_H0.9150.27
92_S100_T0.9130.27
26_K34_L0.9110.26
35_M107_I0.8870.26
31_S99_I0.8830.25
38_L66_I0.8700.25
40_I44_L0.8640.25
17_K21_H0.8630.25
20_K24_E0.8610.24
18_K94_V0.8420.24
36_I94_V0.8260.23
11_N40_I0.8250.23
34_L56_T0.8200.23
81_K94_V0.8180.23
72_L91_Y0.8140.23
28_Q107_I0.8030.22
30_L34_L0.7970.22
45_T95_F0.7920.22
23_R60_I0.7910.22
47_A61_I0.7880.22
78_M94_V0.7750.21
26_K48_T0.7690.21
58_P75_F0.7670.21
31_S101_V0.7630.21
35_M73_Y0.7440.20
29_V56_T0.7310.20
30_L55_F0.7290.20
58_P63_L0.7290.20
15_E29_V0.7200.19
16_F102_L0.7200.19
36_I97_A0.6990.19
28_Q35_M0.6940.19
44_L55_F0.6920.19
31_S50_G0.6850.18
80_Q99_I0.6840.18
15_E86_P0.6840.18
48_T61_I0.6810.18
41_V68_V0.6800.18
32_F58_P0.6740.18
21_H108_I0.6710.18
15_E53_S0.6710.18
81_K101_V0.6680.18
30_L95_F0.6610.18
99_I103_A0.6550.17
55_F86_P0.6540.17
100_T108_I0.6470.17
98_F105_V0.6400.17
69_I88_L0.6380.17
56_T102_L0.6380.17
45_T80_Q0.6270.17
21_H95_F0.6240.16
94_V99_I0.6240.16
18_K22_A0.6190.16
12_S56_T0.6190.16
18_K29_V0.6170.16
52_G80_Q0.6140.16
9_H13_D0.6140.16
103_A108_I0.6130.16
26_K49_D0.6050.16
30_L33_G0.5980.16
33_G84_E0.5960.16
75_F89_F0.5860.15
24_E35_M0.5860.15
25_M75_F0.5800.15
84_E87_A0.5780.15
74_Y86_P0.5720.15
30_L53_S0.5710.15
26_K63_L0.5650.15
74_Y90_L0.5550.15
19_K55_F0.5530.15
18_K78_M0.5520.15
9_H14_L0.5490.14
13_D17_K0.5480.14
89_F97_A0.5460.14
68_V82_G0.5440.14
24_E107_I0.5380.14
25_M73_Y0.5350.14
58_P62_L0.5230.14
10_I13_D0.5210.14
69_I103_A0.5100.13
31_S34_L0.5030.13
12_S18_K0.5000.13
36_I100_T0.5000.13
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4q2eA 2 0.6818 38.5 0.929 Contact Map
4cofA 3 0.7818 22.3 0.937 Contact Map
2xq2A 2 0.6636 6.9 0.95 Contact Map
4c7rA 3 0.2545 5.6 0.952 Contact Map
2m20A 2 0.2273 5.2 0.953 Contact Map
2axcA 1 0.2636 4.9 0.953 Contact Map
4il3A 1 1 4.7 0.954 Contact Map
2kluA 1 0.2636 4.1 0.955 Contact Map
2kncB 1 0.2909 4.1 0.955 Contact Map
4aw6A 2 0.9909 4 0.955 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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