GREMLIN Database
YecR - YecR-like lipoprotein
PFAM: PF13992 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 73 (73)
Sequences: 718 (585)
Seq/√Len: 68.4
META: 0.869

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
10_R70_E3.5841.00
3_S6_D3.5251.00
15_Y21_P2.7261.00
52_R65_W2.4401.00
33_T43_G2.3341.00
54_C62_C2.1631.00
25_E69_R2.1121.00
14_E64_R1.9401.00
10_R51_T1.7461.00
29_L33_T1.7411.00
55_S66_R1.7241.00
15_Y67_V1.7091.00
58_G63_L1.6370.99
27_Q31_L1.6110.99
12_S68_T1.5600.99
24_D27_Q1.4530.98
29_L46_P1.4120.98
25_E31_L1.4030.98
1_G9_V1.4020.98
14_E66_R1.3940.98
35_R45_E1.3540.98
34_Q45_E1.3000.97
34_Q43_G1.2990.97
14_E52_R1.2230.96
25_E29_L1.1750.95
35_R38_A1.1740.94
22_Q33_T1.1530.94
7_G69_R1.1460.94
26_A29_L1.1430.94
5_A47_F1.1360.93
34_Q37_A1.1160.93
13_Y67_V1.1160.93
26_A30_A1.0590.91
57_G61_G1.0570.91
58_G61_G1.0540.91
10_R68_T1.0320.90
12_S66_R1.0180.89
12_S49_G1.0170.89
4_R39_W1.0070.89
6_D47_F1.0040.88
46_P49_G0.9860.87
5_A41_Y0.9820.87
31_L48_G0.9440.85
38_A45_E0.9310.84
46_P71_Y0.9230.84
33_T37_A0.9200.84
19_E22_Q0.8860.81
57_G63_L0.8680.80
11_L31_L0.8680.80
37_A51_T0.8660.80
45_E49_G0.8620.79
37_A42_S0.8570.79
3_S47_F0.8530.79
33_T44_A0.8490.78
36_C40_G0.8480.78
55_S60_G0.8270.76
16_G64_R0.8270.76
47_F72_Q0.8190.76
1_G4_R0.8010.74
12_S35_R0.8000.74
37_A55_S0.7680.71
57_G60_G0.7620.70
16_G19_E0.7500.69
24_D40_G0.7340.68
2_G5_A0.7340.68
17_E63_L0.7330.67
28_A45_E0.7330.67
18_F65_W0.7300.67
56_N63_L0.7270.67
15_Y65_W0.6950.63
13_Y23_V0.6890.63
50_E69_R0.6860.62
2_G39_W0.6750.61
30_A33_T0.6740.61
65_W70_E0.6640.60
8_T70_E0.6430.57
29_L43_G0.6290.56
36_C39_W0.6250.55
8_T48_G0.6140.54
11_L68_T0.6080.53
4_R41_Y0.6000.52
5_A8_T0.5940.52
18_F23_V0.5850.50
22_Q52_R0.5850.50
24_D65_W0.5800.50
19_E24_D0.5790.50
3_S35_R0.5740.49
29_L42_S0.5730.49
38_A49_G0.5680.48
16_G61_G0.5670.48
51_T70_E0.5640.48
53_Q66_R0.5610.48
21_P58_G0.5550.47
7_G31_L0.5530.47
43_G58_G0.5520.46
6_D41_Y0.5490.46
11_L25_E0.5470.46
35_R49_G0.5410.45
55_S59_G0.5290.44
12_S29_L0.5260.43
19_E67_V0.5240.43
46_P72_Q0.5190.43
8_T12_S0.5170.42
28_A51_T0.5130.42
48_G51_T0.5110.42
8_T11_L0.5100.42
1_G6_D0.5090.41
12_S65_W0.5090.41
15_Y22_Q0.5080.41
36_C54_C0.5000.40
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  
2jopA 1 0.9041 74.9 0.823 Contact Map
5a2eA 1 0.8356 59.9 0.84 Contact Map
2ja4A 1 0.863 56.8 0.844 Contact Map
1by2A 1 0.9452 53.8 0.846 Contact Map
2oyaA 2 0.9315 36.2 0.862 Contact Map
2xrcA 2 0.9452 29.5 0.868 Contact Map
1r02A 1 0.1507 14.6 0.886 Contact Map
1z8gA 1 0.9726 14.3 0.886 Contact Map
1cq0A 1 0.1507 7.7 0.899 Contact Map
3rziA 3 0.5616 4.5 0.91 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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