GREMLIN Database
YGDR - Uncharacterized lipoprotein YgdR
UniProt: P65294 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13076
Length: 72 (70)
Sequences: 208 (125)
Seq/√Len: 14.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_D46_T2.8580.97
42_I49_V2.5230.94
19_G54_Q2.3620.91
27_A33_M2.2750.90
25_V33_M2.2430.89
52_H63_R2.0710.85
5_A8_I1.9490.81
35_L69_I1.8670.78
28_T60_Q1.8510.77
25_V57_N1.7610.74
50_S58_A1.7600.74
37_D59_M1.5240.62
12_G48_L1.4780.60
8_I13_L1.4380.58
49_V69_I1.4300.57
57_N65_D1.3950.55
30_D48_L1.3940.55
25_V38_G1.3770.54
36_T43_D1.3590.53
51_Y62_N1.3360.52
42_I63_R1.3150.51
26_M53_D1.3080.50
36_T55_Q1.2950.50
36_T48_L1.2470.47
8_I16_A1.2430.47
14_A66_V1.2030.44
33_M69_I1.2000.44
27_A59_M1.1600.42
37_D41_E1.1560.42
30_D60_Q1.1380.41
30_D67_S1.1360.41
33_M70_I1.1190.40
28_T46_T1.0930.38
38_G45_D1.0590.37
44_D63_R1.0530.36
7_I11_V1.0500.36
60_Q66_V1.0420.36
32_R53_D1.0290.35
61_I64_D1.0260.35
19_G37_D1.0250.35
32_R59_M1.0070.34
23_D33_M0.9970.33
14_A17_V0.9790.33
38_G67_S0.9460.31
30_D59_M0.9450.31
26_M42_I0.9350.30
12_G15_F0.9080.29
26_M35_L0.8820.28
35_L42_I0.8810.28
4_W7_I0.8580.27
11_V52_H0.8560.27
9_S34_I0.8530.27
8_I37_D0.8420.26
34_I49_V0.8380.26
16_A19_G0.8370.26
5_A10_A0.8300.26
22_S71_E0.8120.25
30_D49_V0.8080.25
5_A18_S0.7960.24
64_D67_S0.7940.24
5_A9_S0.7910.24
6_V16_A0.7850.24
9_S13_L0.7770.24
17_V32_R0.7720.23
4_W16_A0.7610.23
24_Y27_A0.7500.22
25_V62_N0.7350.22
33_M59_M0.7210.21
23_D35_L0.7010.21
24_Y59_M0.6970.20
35_L63_R0.6910.20
6_V17_V0.6810.20
23_D58_A0.6640.19
21_S52_H0.6600.19
26_M58_A0.6580.19
7_I16_A0.6580.19
58_A64_D0.6540.19
38_G52_H0.6510.19
29_K33_M0.6470.19
24_Y68_Q0.6460.19
13_L61_I0.6410.18
32_R61_I0.6330.18
5_A14_A0.6300.18
26_M70_I0.6230.18
24_Y70_I0.6170.18
2_K48_L0.6160.18
12_G17_V0.6030.17
49_V60_Q0.5990.17
43_D69_I0.5920.17
66_V70_I0.5800.17
29_K67_S0.5740.16
2_K15_F0.5640.16
7_I45_D0.5630.16
38_G62_N0.5580.16
23_D50_S0.5550.16
36_T50_S0.5490.16
61_I71_E0.5420.15
16_A71_E0.5300.15
55_Q66_V0.5270.15
43_D50_S0.5190.15
27_A35_L0.5170.15
36_T49_V0.5140.15
4_W29_K0.5030.14
14_A19_G0.5010.14
24_Y36_T0.5000.14
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  
2rb6A 2 0.7222 99.9 0.312 Contact Map
2jn0A 1 0.6944 99.9 0.32 Contact Map
2rd1A 2 0.7222 99.9 0.331 Contact Map
3bduA 3 0.7222 99.9 0.337 Contact Map
2k57A 1 0.7361 99.9 0.339 Contact Map
2ra2A 3 0.75 99.9 0.339 Contact Map
3tlkA 1 0.3056 94 0.828 Contact Map
3ombA 1 0.4722 92.3 0.838 Contact Map
4n01A 1 0.3472 90.2 0.846 Contact Map
1xt8A 1 0.6528 88.7 0.85 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.

Page generated in 0.0046 seconds.