GREMLIN Database
YAAA - Uncharacterized protein YaaA
UniProt: P05650 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 71 (66)
Sequences: 781 (562)
Seq/√Len: 69.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
42_N57_D3.1311.00
17_F67_F2.6611.00
4_P68_Q2.5561.00
60_E66_S2.4991.00
24_I33_F2.2081.00
41_V46_D2.1291.00
41_V51_R2.1071.00
48_R51_R2.0931.00
11_M54_Y2.0381.00
40_L60_E2.0031.00
24_I30_A1.9531.00
22_D25_Q1.7881.00
11_M52_K1.7801.00
58_V68_Q1.7661.00
13_T52_K1.5490.99
17_F53_L1.5470.99
25_Q29_M1.5320.99
29_M32_W1.5200.99
33_F61_I1.5190.99
37_H47_N1.4230.98
22_D26_S1.3910.98
58_V66_S1.3470.98
5_I21_A1.3030.97
7_I20_L1.2910.97
46_D51_R1.2740.97
59_V69_V1.1990.95
16_Q46_D1.1580.94
33_F38_E1.0760.92
10_E54_Y1.0560.91
34_L37_H1.0490.91
7_I69_V1.0270.90
40_L45_P0.9760.87
17_F59_V0.9660.87
15_G46_D0.9550.86
40_L62_E0.9420.85
53_L69_V0.9260.84
7_I55_V0.9160.84
61_I64_F0.9090.83
43_D54_Y0.8910.82
17_F20_L0.8580.79
23_V35_S0.8510.79
23_V61_I0.8200.76
32_W62_E0.8090.75
17_F28_G0.8000.74
43_D66_S0.7850.73
23_V67_F0.7750.72
34_L45_P0.7710.72
18_L24_I0.7630.71
43_D51_R0.7470.69
8_D56_G0.7410.69
16_Q48_R0.7380.68
43_D58_V0.7370.68
13_T25_Q0.7260.67
34_L47_N0.7250.67
44_E48_R0.7150.66
29_M36_E0.7150.66
10_E43_D0.7100.65
26_S29_M0.7050.65
30_A34_L0.6990.64
7_I17_F0.6860.63
40_L58_V0.6730.61
13_T28_G0.6720.61
35_S56_G0.6690.61
51_R55_V0.6660.60
13_T50_G0.6610.60
38_E45_P0.6550.59
21_A41_V0.6550.59
24_I32_W0.6520.59
33_F37_H0.6500.59
3_N22_D0.6300.56
18_L59_V0.6220.55
48_R54_Y0.6200.55
39_V58_V0.6190.55
12_I17_F0.6190.55
20_L69_V0.6180.55
8_D38_E0.5990.53
23_V33_F0.5960.52
16_Q26_S0.5860.51
32_W36_E0.5820.50
12_I51_R0.5730.49
47_N61_I0.5670.49
19_K55_V0.5630.48
33_F64_F0.5620.48
9_T12_I0.5610.48
18_L28_G0.5530.47
6_S66_S0.5490.46
9_T20_L0.5460.46
31_K36_E0.5360.45
24_I38_E0.5310.44
12_I69_V0.5290.44
21_A67_F0.5220.43
3_N64_F0.5120.42
4_P58_V0.5100.42
21_A69_V0.5030.41
7_I39_V0.5030.41
28_G36_E0.5020.41
6_S63_G0.5010.41
60_E63_G0.5000.41
63_G67_F0.5000.41
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  
1p9kA 1 0.9718 98.1 0.717 Contact Map
1v9fA 1 0.0986 98 0.726 Contact Map
2k6pA 1 0.831 97.8 0.737 Contact Map
1dm9A 1 0.9014 97.8 0.74 Contact Map
4tp8D 1 1 97.7 0.744 Contact Map
1kskA 1 0.8732 97.7 0.745 Contact Map
3dh3A 1 0.8732 97.7 0.745 Contact Map
4rb5D 1 1 97.7 0.747 Contact Map
1vioA 2 0.8451 97.6 0.748 Contact Map
3bbnD 1 1 97.6 0.75 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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