GREMLIN Database
ApoO - Apolipoprotein O
PFAM: PF09769 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 130 (121)
Sequences: 598 (394)
Seq/√Len: 35.9
META: 0.125

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
21_S25_L4.4201.00
47_D51_S3.9631.00
59_L115_T2.8281.00
79_A82_I2.7261.00
87_R91_K2.7031.00
77_G100_G2.6571.00
113_K117_D2.5261.00
85_R96_P2.4781.00
123_E128_P2.1610.99
78_L103_A2.0890.99
48_L51_S1.9260.98
78_L82_I1.8980.98
88_S93_L1.7880.97
75_V79_A1.7810.97
72_Y76_A1.7450.96
121_D124_Q1.7400.96
45_I53_T1.7280.96
84_A95_Y1.7190.96
119_L124_Q1.6610.95
116_G127_Y1.6480.95
76_A103_A1.6430.95
88_S91_K1.5560.93
104_A112_A1.5470.93
42_K45_I1.5310.92
70_L73_I1.4870.91
73_I108_Y1.4840.91
73_I80_G1.4320.89
18_E40_S1.3890.88
37_A40_S1.3830.88
122_Y126_K1.3650.87
32_A56_Y1.3640.87
22_S30_Y1.3580.87
75_V82_I1.3470.86
90_F94_V1.3450.86
48_L53_T1.2750.83
39_N45_I1.2710.83
114_N118_L1.2630.82
72_Y123_E1.2580.82
80_G84_A1.2520.82
26_F37_A1.2230.80
80_G99_L1.2130.80
91_K95_Y1.2060.79
37_A41_V1.1950.79
84_A87_R1.1770.78
112_A116_G1.1610.77
50_Q99_L1.1310.75
20_I46_I1.1170.74
47_D50_Q1.1150.74
74_G81_S1.1060.73
71_G106_V1.0960.72
21_S119_L1.0870.72
64_E114_N1.0790.71
27_L92_R1.0600.70
59_L86_N1.0580.70
53_T57_A1.0580.70
44_K48_L1.0460.69
108_Y111_T1.0440.69
69_G107_C1.0230.67
61_N69_G1.0120.66
76_A107_C0.9920.65
26_F30_Y0.9890.64
51_S92_R0.9760.63
68_P75_V0.9730.63
45_I67_L0.9610.62
24_R109_P0.9590.62
34_C84_A0.9530.61
76_A99_L0.9440.61
54_D58_S0.9390.60
76_A85_R0.9350.60
118_L123_E0.9290.59
67_L95_Y0.9280.59
103_A107_C0.9230.59
49_E64_E0.9220.59
20_I102_L0.9210.59
35_E112_A0.9160.58
63_P110_Q0.9130.58
83_L117_D0.8970.57
66_L70_L0.8960.57
39_N53_T0.8870.56
46_I53_T0.8700.54
79_A83_L0.8680.54
61_N73_I0.8660.54
55_T114_N0.8640.54
41_V94_V0.8640.54
101_G110_Q0.8640.54
26_F120_Y0.8630.54
17_E29_P0.8570.53
110_Q126_K0.8390.52
105_S112_A0.8360.51
34_C111_T0.8120.49
98_G110_Q0.8030.49
121_D127_Y0.7920.48
124_Q128_P0.7920.48
60_A116_G0.7830.47
63_P126_K0.7820.47
27_L77_G0.7820.47
82_I100_G0.7810.47
125_Q129_A0.7790.47
31_T35_E0.7740.46
11_E17_E0.7700.46
47_D119_L0.7670.45
97_L112_A0.7590.45
25_L28_E0.7540.44
91_K94_V0.7520.44
55_T118_L0.7490.44
72_Y81_S0.7470.44
9_P97_L0.7450.44
19_Q47_D0.7410.43
121_D125_Q0.7410.43
102_L106_V0.7340.43
104_A115_T0.7320.43
38_V42_K0.7260.42
20_I24_R0.7240.42
13_P55_T0.7230.42
77_G83_L0.7190.41
70_L110_Q0.7160.41
77_G108_Y0.7140.41
53_T78_L0.7130.41
38_V116_G0.7090.41
49_E75_V0.7050.40
61_N79_A0.7020.40
91_K111_T0.7000.40
60_A127_Y0.6920.39
82_I91_K0.6860.39
62_P110_Q0.6860.39
60_A104_A0.6840.38
36_D39_N0.6770.38
70_L77_G0.6730.38
72_Y82_I0.6730.38
39_N51_S0.6710.37
55_T64_E0.6650.37
111_T114_N0.6630.37
114_N128_P0.6600.37
94_V111_T0.6520.36
67_L71_G0.6370.35
103_A116_G0.6340.34
13_P17_E0.6320.34
11_E27_L0.6280.34
26_F76_A0.6260.34
72_Y85_R0.6260.34
74_G102_L0.6220.34
43_D50_Q0.6120.33
92_R111_T0.6090.33
39_N42_K0.6060.32
9_P71_G0.5980.32
10_E82_I0.5950.31
124_Q129_A0.5940.31
93_L97_L0.5910.31
73_I104_A0.5900.31
69_G81_S0.5880.31
45_I54_D0.5830.31
87_R95_Y0.5780.30
31_T59_L0.5730.30
88_S94_V0.5710.30
27_L34_C0.5710.30
49_E52_G0.5700.30
40_S43_D0.5690.30
17_E107_C0.5550.29
72_Y103_A0.5540.28
49_E54_D0.5530.28
88_S101_G0.5490.28
16_L81_S0.5460.28
115_T120_Y0.5420.28
63_P117_D0.5360.27
68_P110_Q0.5340.27
79_A100_G0.5270.27
71_G74_G0.5270.27
17_E78_L0.5260.27
88_S96_P0.5210.26
31_T38_V0.5200.26
43_D67_L0.5180.26
19_Q22_S0.5170.26
84_A89_I0.5150.26
21_S44_K0.5130.26
75_V78_L0.5130.26
101_G119_L0.5110.26
85_R91_K0.5090.25
100_G128_P0.5070.25
28_E97_L0.5070.25
29_P83_L0.5060.25
64_E89_I0.5010.25
16_L57_A0.5000.25
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  
4qjvB 1 0.3846 13.5 0.922 Contact Map
4c2mK 1 0.4 12.4 0.923 Contact Map
2j69A 1 0.9154 11.7 0.924 Contact Map
2pa8L 1 0.3846 11.4 0.924 Contact Map
3sjrA 2 0.5 11.2 0.925 Contact Map
1twfK 1 0.4154 8.7 0.928 Contact Map
2bvfA 1 0.3769 7.3 0.93 Contact Map
1oefA 1 0.1846 7.2 0.93 Contact Map
4a01A 2 0.8462 5.5 0.934 Contact Map
1vimA 4 0.7846 5 0.936 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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