GREMLIN Database
DUF4087 - Protein of unknown function (DUF4087)
PFAM: PF13316 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 96 (94)
Sequences: 661 (460)
Seq/√Len: 47.4
META: 0.853

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
52_E56_H4.2311.00
84_R88_A3.9741.00
29_G35_Q3.3371.00
66_V75_V2.7781.00
50_W60_G2.6031.00
9_F17_A2.5771.00
9_F42_W2.3641.00
9_F62_A2.3371.00
16_N31_Q2.2761.00
67_R77_R2.2331.00
13_T16_N2.0661.00
49_Q83_A2.0361.00
4_T65_R1.8200.99
28_I78_I1.7770.99
67_R79_K1.7420.98
17_A42_W1.6370.98
45_F60_G1.6330.98
24_G73_H1.6280.98
60_G83_A1.6040.97
45_F49_Q1.5550.97
17_A39_M1.5170.96
2_A79_K1.4850.96
69_D74_R1.4700.95
53_T56_H1.4510.95
64_L81_A1.3930.94
65_R80_S1.3100.92
86_L90_R1.2940.91
3_E70_R1.2880.91
85_P88_A1.2780.91
18_W27_T1.2780.91
54_N57_Y1.2610.90
31_Q57_Y1.2110.88
51_V59_Y1.2050.88
20_T25_E1.1770.87
11_N16_N1.1530.86
10_S20_T1.1490.85
89_C92_D1.1430.85
69_D72_T1.1320.85
13_T31_Q1.1050.83
68_V76_T1.1020.83
22_R81_A1.1010.83
12_P16_N1.0610.81
18_W30_V1.0400.79
22_R73_H1.0260.78
66_V79_K1.0040.77
87_S91_A0.9750.75
46_S81_A0.9480.72
36_A40_D0.9350.71
29_G72_T0.9150.70
37_E77_R0.9130.70
37_E76_T0.8910.68
4_T82_R0.8870.67
52_E57_Y0.8810.67
27_T30_V0.8680.66
2_A67_R0.8620.65
36_A66_V0.8600.65
15_A35_Q0.8350.63
87_S90_R0.8350.63
17_A40_D0.8330.62
15_A29_G0.8300.62
28_I39_M0.8300.62
12_P57_Y0.8240.62
13_T95_L0.8060.60
75_V79_K0.8000.59
68_V72_T0.7970.59
42_W45_F0.7790.57
41_D50_W0.7770.57
76_T79_K0.7750.57
34_Y67_R0.7670.56
18_W25_E0.7650.56
12_P18_W0.7620.56
48_G94_A0.7430.54
9_F81_A0.7420.54
66_V80_S0.7410.53
65_R71_E0.7320.53
12_P31_Q0.7260.52
16_N57_Y0.7240.52
3_E6_C0.7040.50
5_R8_W0.6990.49
42_W83_A0.6990.49
24_G81_A0.6960.49
22_R68_V0.6890.48
29_G82_R0.6820.48
72_T84_R0.6770.47
20_T68_V0.6710.47
49_Q69_D0.6660.46
44_D83_A0.6620.46
44_D81_A0.6610.46
14_P31_Q0.6600.45
71_E76_T0.6530.45
43_P62_A0.6500.44
19_L62_A0.6360.43
10_S28_I0.6360.43
37_E93_P0.6320.43
68_V75_V0.6300.42
30_V34_Y0.6300.42
10_S91_A0.6290.42
25_E31_Q0.6270.42
70_R87_S0.6230.42
33_G36_A0.6150.41
90_R95_L0.6110.41
25_E40_D0.6050.40
10_S73_H0.6040.40
21_D92_D0.5990.39
15_A30_V0.5930.39
51_V58_G0.5910.39
67_R70_R0.5890.39
13_T18_W0.5850.38
12_P59_Y0.5840.38
45_F83_A0.5830.38
14_P57_Y0.5750.37
20_T30_V0.5710.37
74_R82_R0.5670.36
75_V83_A0.5660.36
22_R93_P0.5660.36
61_C89_C0.5620.36
64_L82_R0.5570.36
30_V66_V0.5560.35
20_T23_D0.5540.35
70_R74_R0.5520.35
42_W59_Y0.5520.35
17_A38_G0.5500.35
62_A81_A0.5480.35
52_E93_P0.5460.35
3_E28_I0.5440.34
11_N31_Q0.5430.34
27_T34_Y0.5420.34
21_D63_C0.5360.34
5_R84_R0.5360.34
2_A77_R0.5350.34
16_N54_N0.5330.33
24_G29_G0.5300.33
92_D95_L0.5280.33
8_W86_L0.5240.33
18_W57_Y0.5220.32
74_R94_A0.5140.32
64_L75_V0.5130.32
50_W58_G0.5040.31
37_E82_R0.5010.31
33_G43_P0.5010.31
65_R79_K0.5000.31
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  
1d4bA 1 0.5 10.6 0.939 Contact Map
3s5tA 2 0.3021 6.9 0.944 Contact Map
2yijA 2 0.4167 6.7 0.944 Contact Map
2d7uA 2 0.7917 6.2 0.945 Contact Map
3r7tA 4 0.8854 6.2 0.945 Contact Map
3ue9A 2 0.8854 5.8 0.946 Contact Map
4m9dA 2 0.8854 5.5 0.946 Contact Map
2v40A 2 0.8958 4.4 0.949 Contact Map
1p9bA 2 0.8854 4.2 0.949 Contact Map
3j38A 1 0 3.9 0.95 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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