GREMLIN Database
DUF3085 - Protein of unknown function (DUF3085)
PFAM: PF11284 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 90 (87)
Sequences: 755 (539)
Seq/√Len: 57.8
META: 0.764

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
2_G60_F3.6221.00
52_F57_F3.2101.00
7_K57_F2.9821.00
7_K48_K2.8211.00
7_K52_F2.6901.00
36_N39_T2.6471.00
48_K57_F2.5451.00
34_G40_D2.2271.00
49_R53_G1.9471.00
34_G57_F1.9221.00
9_E44_W1.8851.00
4_W58_A1.8701.00
46_E49_R1.8411.00
9_E38_D1.7900.99
11_V35_C1.7690.99
40_D47_R1.6460.99
67_E71_A1.6390.99
1_P16_N1.5960.99
82_L87_I1.5880.99
48_K52_F1.5000.98
4_W16_N1.4660.97
45_W49_R1.4570.97
35_C52_F1.4180.97
16_N60_F1.4110.97
35_C47_R1.3970.97
11_V52_F1.3210.95
35_C51_A1.3140.95
35_C44_W1.2540.94
13_L78_L1.2310.93
8_D12_Y1.1830.92
11_V51_A1.1750.91
2_G16_N1.0920.88
50_A53_G1.0710.87
48_K53_G1.0710.87
7_K11_V1.0580.87
6_V29_V1.0570.86
23_D27_P1.0360.85
6_V14_M1.0220.85
7_K51_A1.0210.85
11_V32_A1.0130.84
34_G47_R1.0090.84
44_W48_K1.0070.84
13_L44_W1.0030.83
16_N19_P0.9800.82
65_V69_L0.9770.82
50_A54_G0.9730.82
62_P65_V0.9380.79
33_E77_D0.9240.78
81_S88_S0.9120.77
15_S19_P0.9000.76
51_A82_L0.9000.76
44_W47_R0.8780.74
14_M32_A0.8700.74
51_A57_F0.8700.74
80_I87_I0.8590.73
47_R51_A0.8530.72
68_R71_A0.8420.71
83_T86_S0.8410.71
1_P17_G0.8230.70
46_E50_A0.8220.69
49_R54_G0.8180.69
49_R55_D0.8040.68
32_A52_F0.7950.67
71_A84_E0.7840.66
7_K47_R0.7780.65
34_G58_A0.7760.65
6_V32_A0.7500.62
55_D58_A0.7460.62
12_Y56_D0.7430.62
21_L64_E0.7410.61
85_T88_S0.7380.61
3_L15_S0.7350.61
45_W56_D0.7350.61
31_Y37_P0.7270.60
7_K35_C0.7180.59
63_L67_E0.7120.58
33_E41_P0.7120.58
44_W53_G0.7110.58
62_P78_L0.7020.57
13_L32_A0.7020.57
65_V68_R0.6890.56
43_D46_E0.6760.54
61_I84_E0.6740.54
83_T88_S0.6600.53
9_E51_A0.6580.52
33_E36_N0.6570.52
69_L80_I0.6540.52
26_R79_R0.6520.52
1_P19_P0.6510.52
31_Y55_D0.6430.51
1_P18_G0.6400.50
24_G27_P0.6390.50
30_A70_L0.6340.50
11_V15_S0.6260.49
4_W45_W0.6200.48
36_N40_D0.6180.48
29_V55_D0.6160.48
35_C53_G0.6080.47
79_R89_L0.6070.47
20_K23_D0.6010.46
52_F59_E0.5960.46
51_A87_I0.5950.45
6_V75_G0.5890.45
68_R80_I0.5820.44
38_D44_W0.5800.44
20_K66_L0.5710.43
55_D61_I0.5660.42
5_L24_G0.5640.42
10_G34_G0.5570.41
20_K39_T0.5560.41
40_D43_D0.5500.41
65_V78_L0.5490.41
30_A40_D0.5480.40
52_F82_L0.5400.40
66_L81_S0.5390.39
44_W51_A0.5390.39
61_I73_A0.5370.39
56_D83_T0.5360.39
36_N44_W0.5340.39
66_L74_G0.5320.39
23_D26_R0.5250.38
55_D59_E0.5210.38
34_G52_F0.5200.37
37_P73_A0.5120.37
8_D56_D0.5110.37
36_N69_L0.5040.36
24_G70_L0.5040.36
21_L27_P0.5030.36
35_C57_F0.5010.36
5_L52_F0.5000.35
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  
3c0uA 2 0.9667 24.7 0.901 Contact Map
2g3wA 2 0.9667 22.6 0.903 Contact Map
2ot9A 1 0.9444 19.3 0.906 Contact Map
4o4oA 2 0.6333 16.5 0.909 Contact Map
3s9jA 1 0.3889 9.4 0.918 Contact Map
3oakC 1 0.3333 6.1 0.925 Contact Map
2rh0A 2 0.5667 5.4 0.927 Contact Map
4epuA 2 0.9 5.3 0.927 Contact Map
2mxyA 1 0.8 4.4 0.929 Contact Map
2xsdC 1 0.3333 4.2 0.93 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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