GREMLIN Database
DUF3039 - Protein of unknown function (DUF3039)
PFAM: PF11238 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 56 (55)
Sequences: 2078 (745)
Seq/√Len: 100.5
META: 0.886

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
48_E51_E3.9771.00
17_T21_V2.5271.00
18_E22_T2.4541.00
27_V33_V2.3711.00
50_K54_E2.1751.00
39_D42_K2.1411.00
25_P33_V2.0151.00
16_I20_A1.9481.00
18_E24_T1.9401.00
15_K18_E1.8321.00
11_V16_I1.8201.00
11_V26_V1.7761.00
20_A37_S1.7381.00
2_G5_E1.6631.00
7_F47_P1.5031.00
25_P35_V1.4951.00
12_R15_K1.3220.99
51_E55_S1.1740.98
19_S38_R1.1690.98
17_T20_A1.1490.98
10_Y50_K1.1100.98
19_S22_T1.0900.97
46_C49_C1.0380.96
4_H7_F1.0320.96
2_G6_R1.0310.96
11_V34_W0.9840.95
53_Y56_L0.9840.95
8_A36_P0.9660.95
45_V50_K0.9640.95
10_Y45_V0.9420.94
10_Y47_P0.9190.93
38_R43_F0.9160.93
30_C46_C0.8960.92
25_P34_W0.8850.92
7_F10_Y0.8610.90
12_R17_T0.8310.89
45_V53_Y0.8140.88
28_A34_W0.8010.87
3_D6_R0.7930.86
2_G34_W0.7890.86
24_T35_V0.7840.86
47_P50_K0.7730.85
25_P32_K0.7480.83
39_D43_F0.7470.83
16_I19_S0.7330.82
6_R38_R0.7240.81
16_I53_Y0.7170.80
36_P39_D0.7120.80
12_R56_L0.7010.79
14_D27_V0.6710.76
29_L33_V0.6680.76
13_K16_I0.6660.75
32_K48_E0.6290.71
32_K47_P0.5860.66
13_K20_A0.5860.66
52_I55_S0.5790.65
32_K43_F0.5780.65
35_V38_R0.5770.64
8_A40_P0.5750.64
15_K22_T0.5690.63
25_P28_A0.5660.63
21_V24_T0.5640.63
8_A41_K0.5640.63
10_Y20_A0.5630.63
41_K52_I0.5620.62
41_K55_S0.5580.62
26_V40_P0.5550.62
19_S36_P0.5540.61
29_L34_W0.5460.60
28_A40_P0.5450.60
12_R16_I0.5440.60
16_I22_T0.5410.60
4_H48_E0.5400.59
14_D17_T0.5380.59
6_R43_F0.5260.57
7_F32_K0.5260.57
14_D18_E0.5200.57
9_H30_C0.5130.56
30_C49_C0.5110.55
15_K19_S0.5040.54
16_I40_P0.5020.54
5_E43_F0.5000.54
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  
3rmqA 1 0.8929 76.6 0.8 Contact Map
2gmgA 1 0.9464 26.2 0.857 Contact Map
4lqxA 2 0.3571 14.3 0.873 Contact Map
3vthA 1 0.7857 11.1 0.879 Contact Map
4g9iA 1 0.7857 11 0.879 Contact Map
1wqaA 3 0.9286 8.8 0.884 Contact Map
4pqdA 1 0.7321 8.2 0.886 Contact Map
3ttcA 1 0.7857 7.8 0.887 Contact Map
4nqaB 1 0.7321 7.4 0.888 Contact Map
2f7lA 4 0.9286 5.9 0.893 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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