GREMLIN Database
Lipoprotein_19 - YnbE-like lipoprotein
PFAM: PF13617 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 56 (55)
Sequences: 3849 (2148)
Seq/√Len: 289.6
META: 0.895

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
38_E42_K3.8261.00
45_K48_D3.0001.00
36_E40_R2.6291.00
47_L50_L2.2121.00
17_T21_E2.1641.00
47_L51_I2.0121.00
15_T19_K1.9471.00
25_K28_T1.7911.00
28_T32_N1.4921.00
21_E24_D1.4811.00
19_K24_D1.4621.00
52_S55_P1.4361.00
3_L10_L1.4171.00
7_L10_L1.3041.00
47_L54_N1.2851.00
6_L10_L1.2521.00
4_L7_L1.2241.00
46_D49_D1.1991.00
49_D52_S1.1591.00
44_D50_L1.1451.00
8_A11_L1.1431.00
43_V47_L1.1391.00
41_V45_K1.1371.00
4_L8_A1.0981.00
52_S56_D1.0731.00
21_E25_K1.0691.00
4_L10_L1.0421.00
43_V51_I1.0081.00
7_L12_A0.9951.00
6_L9_L0.9791.00
37_H41_V0.9671.00
46_D50_L0.9531.00
6_L11_L0.9131.00
5_L8_A0.9071.00
3_L7_L0.9061.00
20_V23_P0.8961.00
49_D53_E0.8921.00
40_R44_D0.8911.00
11_L15_T0.8611.00
44_D47_L0.8471.00
51_I54_N0.8411.00
3_L6_L0.8171.00
29_I37_H0.7620.99
5_L9_L0.7610.99
2_L5_L0.7590.99
29_I47_L0.7340.99
36_E41_V0.7340.99
34_K38_E0.7150.99
16_P19_K0.7140.99
23_P29_I0.7130.99
19_K25_K0.7100.99
4_L9_L0.7080.99
5_L10_L0.6880.98
35_I56_D0.6840.98
38_E43_V0.6820.98
9_L12_A0.6790.98
35_I41_V0.6700.98
33_V48_D0.6680.98
17_T20_V0.6620.98
42_K46_D0.6610.98
16_P23_P0.6530.98
6_L12_A0.6520.98
45_K55_P0.6370.97
31_L37_H0.6220.97
7_L11_L0.6160.97
2_L6_L0.6080.97
29_I40_R0.6080.97
3_L11_L0.5860.96
10_L13_A0.5750.95
37_H47_L0.5680.95
37_H46_D0.5650.95
42_K48_D0.5650.95
43_V48_D0.5500.94
40_R56_D0.5470.94
5_L11_L0.5390.93
29_I32_N0.5300.93
22_A28_T0.5250.92
6_L56_D0.5230.92
19_K22_A0.5110.91
30_N34_K0.5010.91
15_T18_V0.5010.91
11_L54_N0.5000.91
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  
3tlkA 1 0.5179 52.9 0.808 Contact Map
4r9fA 1 0.5714 44.6 0.817 Contact Map
3ombA 1 0.5893 40.6 0.822 Contact Map
4mfiA 1 0.6429 36.6 0.826 Contact Map
4kysA 1 0.5357 33.1 0.83 Contact Map
4r2fA 1 0.5357 31.7 0.832 Contact Map
4r6hA 1 0.625 27.4 0.837 Contact Map
4r6kA 1 0.5714 25.1 0.84 Contact Map
4utoA 1 0.5536 23.8 0.842 Contact Map
4n01A 1 0.5 22.9 0.843 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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