GREMLIN Database
YRAE - Uncharacterized protein YraE
UniProt: O06011 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 65 (60)
Sequences: 133 (103)
Seq/√Len: 13.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_F21_C2.7450.95
15_T52_L2.6590.94
45_V55_F2.4230.90
17_F44_D2.0540.80
19_T26_K1.9520.77
21_C44_D1.9020.75
36_K39_E1.8000.71
21_C31_L1.7470.68
6_H10_E1.7140.67
32_V35_P1.6380.63
24_K31_L1.6320.63
19_T49_T1.6160.62
4_A32_V1.5590.59
23_T27_T1.5530.59
10_E36_K1.4200.52
29_K42_Q1.4120.51
42_Q46_D1.3910.50
17_F25_S1.3840.50
19_T34_D1.3580.49
12_Q55_F1.3580.49
18_K44_D1.3120.46
5_L9_L1.2740.44
4_A14_M1.2680.44
8_V41_M1.2420.42
16_A26_K1.2350.42
25_S47_I1.2230.41
17_F53_Q1.2010.40
24_K32_V1.1920.40
14_M55_F1.1370.37
53_Q60_S1.1110.36
39_E58_I1.0810.34
16_A33_S0.9970.31
11_V58_I0.9960.30
35_P56_A0.9830.30
11_V35_P0.9790.30
5_L23_T0.9720.29
22_L60_S0.9610.29
47_I51_Q0.9500.28
51_Q54_E0.9410.28
22_L59_L0.9260.27
32_V58_I0.9230.27
24_K53_Q0.8690.25
48_T58_I0.8610.25
10_E15_T0.8200.23
27_T53_Q0.8140.23
11_V43_Q0.8070.23
48_T61_N0.7750.22
18_K21_C0.7570.21
30_A56_A0.7560.21
30_A33_S0.7490.21
5_L8_V0.7480.21
3_Y51_Q0.7400.20
52_L58_I0.7350.20
43_Q59_L0.7290.20
48_T51_Q0.7260.20
28_M37_L0.7190.20
34_D55_F0.7160.20
14_M51_Q0.7120.19
20_L24_K0.6890.19
23_T44_D0.6850.19
28_M62_A0.6580.18
33_S59_L0.6570.18
30_A40_I0.6570.18
23_T59_L0.6540.18
29_K55_F0.6540.18
3_Y15_T0.6520.17
23_T53_Q0.6450.17
10_E40_I0.6200.17
15_T22_L0.6190.16
22_L40_I0.6160.16
10_E51_Q0.6150.16
33_S62_A0.6120.16
26_K59_L0.5910.16
26_K43_Q0.5820.15
47_I53_Q0.5750.15
9_L44_D0.5740.15
16_A41_M0.5670.15
19_T29_K0.5580.15
41_M55_F0.5510.15
23_T28_M0.5490.15
9_L52_L0.5430.14
10_E24_K0.5370.14
25_S36_K0.5310.14
27_T30_A0.5290.14
5_L50_R0.5140.14
11_V42_Q0.5050.13
16_A43_Q0.5030.13
29_K34_D0.5020.13
25_S56_A0.5020.13
6_H9_L0.5000.13
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  
2rbdA 4 1 98.3 0.672 Contact Map
3oghB 2 0.9692 24.8 0.893 Contact Map
2gs4A 5 0.9692 21.1 0.897 Contact Map
3hiuA 3 0.9538 18.3 0.9 Contact Map
1ysmA 1 0.3846 14.6 0.904 Contact Map
2gyqA 2 1 13.8 0.905 Contact Map
4zuzA 1 0.8308 9.9 0.911 Contact Map
1xneA 1 0.9846 8.9 0.913 Contact Map
4etrA 1 0.9538 8.8 0.913 Contact Map
5al7A 2 0.9692 7.8 0.915 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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