GREMLIN Database
YQAE - Uncharacterized HTH-type transcriptional regulator YqaE
UniProt: P45902 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 116 (107)
Sequences: 1343 (1205)
Seq/√Len: 116.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
20_M31_Y3.1331.00
18_Q22_D3.0031.00
18_Q28_R2.7851.00
2_F6_L2.7351.00
51_N63_G2.6651.00
3_S37_G2.4561.00
15_L52_I2.4341.00
27_T30_A2.1741.00
29_P33_A2.1541.00
57_L61_L2.1451.00
23_K52_I2.0931.00
26_I31_Y2.0401.00
9_C53_L2.0331.00
10_R35_E1.9701.00
12_Q67_E1.9021.00
93_T96_I1.8891.00
40_E43_Y1.8851.00
20_M53_L1.8671.00
33_A39_R1.7631.00
33_A38_S1.6981.00
103_I106_E1.6801.00
29_P32_T1.5801.00
99_A106_E1.5491.00
30_A33_A1.4961.00
58_D63_G1.4911.00
6_L31_Y1.4631.00
15_L23_K1.4281.00
17_Q28_R1.4261.00
26_I30_A1.3831.00
103_I107_Q1.3811.00
28_R32_T1.3791.00
50_S63_G1.3741.00
43_Y46_L1.3291.00
20_M49_I1.3021.00
5_N59_Y1.2800.99
102_E106_E1.2530.99
92_V104_I1.2460.99
64_E67_E1.1710.99
32_T36_L1.1660.99
34_Y39_R1.1590.99
86_A89_D1.1320.99
92_V97_L1.1230.99
27_T33_A1.1100.99
34_Y45_T1.1030.98
45_T48_N1.0950.98
42_D45_T1.0780.98
46_L57_L1.0780.98
5_N62_K1.0630.98
19_N22_D1.0610.98
99_A103_I1.0420.98
46_L61_L1.0310.98
40_E45_T1.0240.98
2_F43_Y1.0230.97
33_A36_L1.0190.97
28_R36_L1.0180.97
100_A104_I1.0060.97
96_I99_A0.9980.97
5_N63_G0.9940.97
16_T19_N0.9620.96
6_L53_L0.9590.96
25_G48_N0.9490.96
5_N65_S0.9490.96
24_L49_I0.9200.95
27_T32_T0.9190.95
5_N8_K0.8950.95
55_V59_Y0.8900.94
13_K23_K0.8900.94
41_P58_D0.8840.94
84_F89_D0.8780.94
99_A107_Q0.8760.94
100_A107_Q0.8700.94
21_A28_R0.8670.94
17_Q31_Y0.8630.93
50_S57_L0.8540.93
28_R33_A0.8380.92
26_I34_Y0.8310.92
20_M52_I0.8230.92
19_N23_K0.8180.91
66_N70_F0.8160.91
99_A102_E0.8110.91
105_T108_L0.8100.91
15_L19_N0.8020.91
4_E37_G0.7950.90
21_A33_A0.7950.90
2_F53_L0.7860.90
85_L88_K0.7660.89
32_T41_P0.7650.89
9_C55_V0.7570.88
101_L104_I0.7570.88
101_L105_T0.7560.88
83_T89_D0.7550.88
8_K12_Q0.7540.88
2_F60_L0.7330.86
17_Q21_A0.7280.86
101_L107_Q0.7250.86
21_A31_Y0.7190.85
28_R42_D0.7180.85
82_E89_D0.7030.84
82_E90_G0.6980.84
21_A29_P0.6920.83
24_L52_I0.6890.83
46_L58_D0.6860.82
26_I29_P0.6800.82
32_T39_R0.6790.82
28_R38_S0.6780.82
93_T99_A0.6540.79
32_T42_D0.6440.78
85_L103_I0.6430.78
9_C52_I0.6400.78
54_D68_K0.6370.78
34_Y41_P0.6360.77
74_A78_L0.6350.77
92_V100_A0.6280.77
104_I107_Q0.6260.76
50_S62_K0.6230.76
52_I55_V0.6120.75
103_I108_L0.5940.73
89_D97_L0.5910.72
91_E103_I0.5880.72
29_P39_R0.5860.72
6_L20_M0.5840.71
29_P43_Y0.5770.70
18_Q32_T0.5720.70
39_R42_D0.5710.70
7_K28_R0.5700.69
72_D80_D0.5680.69
39_R43_Y0.5620.68
44_K48_N0.5570.68
98_Q102_E0.5540.67
29_P36_L0.5530.67
29_P38_S0.5520.67
82_E88_K0.5500.67
84_F87_A0.5490.67
85_L101_L0.5470.66
26_I49_I0.5470.66
43_Y47_I0.5460.66
97_L101_L0.5440.66
75_K79_N0.5440.66
9_C59_Y0.5420.66
84_F88_K0.5420.66
73_E76_K0.5410.66
20_M23_K0.5390.65
81_P86_A0.5380.65
96_I102_E0.5310.64
7_K18_Q0.5310.64
20_M24_L0.5290.64
7_K10_R0.5280.64
96_I103_I0.5270.64
66_N69_V0.5240.63
4_E8_K0.5230.63
97_L108_L0.5120.61
74_A80_D0.5110.61
82_E104_I0.5110.61
74_A79_N0.5100.61
64_E69_V0.5100.61
89_D93_T0.5100.61
88_K105_T0.5050.60
68_K95_E0.5040.60
21_A48_N0.5030.60
83_T101_L0.5000.60
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  
4ndwA 2 0.9828 99.8 0.363 Contact Map
4o8bA 2 0.8362 99.8 0.376 Contact Map
3r1fA 2 0.9828 99.8 0.378 Contact Map
3qwgA 2 0.6724 99.8 0.397 Contact Map
4jcyA 2 0.7586 99.8 0.399 Contact Map
1b0nA 2 0.8621 99.8 0.4 Contact Map
3op9A 4 0.8966 99.7 0.408 Contact Map
3ivpA 2 0.9138 99.7 0.414 Contact Map
2ebyA 2 0.8448 99.7 0.437 Contact Map
2p5tA 2 0.3793 99.7 0.451 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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