GREMLIN Database
YBFQ - Putative defective transposase YbfQ
UniProt: Q2EEQ8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14419
Length: 84 (75)
Sequences: 302 (247)
Seq/√Len: 28.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
18_Q21_K3.4501.00
73_T76_R3.3371.00
33_T74_I2.6651.00
18_Q22_V2.6010.99
26_L77_V2.5730.99
48_E52_E2.3210.99
55_L59_K2.2550.98
29_I77_V2.2300.98
25_K28_D1.7100.92
32_L51_G1.6540.91
28_D63_D1.5890.89
36_A51_G1.5860.89
32_L64_F1.5690.88
34_I38_I1.5680.88
32_L58_L1.5570.88
45_E75_A1.5390.87
51_G64_F1.5130.86
36_A47_I1.5090.86
6_L10_I1.4510.84
42_E46_D1.3640.80
19_A22_V1.3460.79
39_S54_H1.3270.78
74_I78_V1.3190.77
31_L57_F1.3030.76
43_G53_T1.2870.76
32_L74_I1.2840.75
32_L55_L1.1880.69
31_L64_F1.1530.67
46_D75_A1.1430.66
7_M10_I1.1420.66
28_D59_K1.1020.63
16_Y57_F1.0490.60
70_V78_V1.0460.59
36_A41_A1.0330.58
28_D65_E1.0160.57
7_M11_S0.9940.55
25_K63_D0.9930.55
28_D64_F0.9860.55
44_W78_V0.9820.54
43_G78_V0.9560.52
23_V34_I0.9450.52
38_I54_H0.9440.52
47_I58_L0.9420.51
45_E79_S0.9250.50
13_T30_L0.9200.50
48_E71_H0.9080.49
64_F67_G0.8980.48
41_A53_T0.8820.47
22_V39_S0.8750.46
41_A47_I0.8430.44
52_E56_D0.8300.43
13_T79_S0.8220.42
55_L64_F0.8120.41
46_D73_T0.8110.41
44_W75_A0.8060.41
62_G70_V0.8050.41
29_I32_L0.8050.41
44_W50_F0.7950.40
10_I13_T0.7800.39
31_L61_Y0.7750.39
24_H64_F0.7640.38
37_V40_G0.7570.37
24_H27_S0.7460.37
24_H33_T0.7400.36
62_G78_V0.7390.36
9_H34_I0.7350.36
12_I34_I0.7300.35
7_M61_Y0.7270.35
22_V35_C0.7190.35
35_C61_Y0.7140.34
8_E36_A0.7130.34
10_I79_S0.7090.34
50_F54_H0.7020.33
40_G45_E0.6810.32
47_I75_A0.6710.31
75_A79_S0.6670.31
57_F60_Q0.6530.30
26_L34_I0.6490.30
24_H65_E0.6450.30
48_E68_I0.6400.29
25_K35_C0.6370.29
6_L31_L0.6330.29
15_D70_V0.6330.29
33_T49_D0.6300.29
33_T47_I0.6240.28
31_L35_C0.6220.28
21_K79_S0.6180.28
33_T37_V0.6170.28
11_S38_I0.6100.27
28_D32_L0.5850.26
24_H28_D0.5840.26
59_K62_G0.5830.26
24_H50_F0.5810.26
49_D52_E0.5760.25
45_E59_K0.5700.25
5_K42_E0.5680.25
71_H79_S0.5660.25
27_S76_R0.5640.25
25_K59_K0.5560.24
14_P40_G0.5530.24
12_I39_S0.5400.23
6_L27_S0.5340.23
50_F69_P0.5260.23
28_D74_I0.5240.22
24_H30_L0.5160.22
46_D76_R0.5090.22
34_I57_F0.5090.22
8_E13_T0.5070.22
45_E53_T0.5070.22
15_D69_P0.5050.21
10_I72_D0.5030.21
37_V49_D0.5000.21
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  
2jqtA 1 0.3452 18.2 0.923 Contact Map
2yicA 2 0.8571 13.5 0.928 Contact Map
2xt6A 2 0.9524 11.5 0.93 Contact Map
4nyzA 1 0.631 11 0.93 Contact Map
4wfzA 1 0.8095 11 0.93 Contact Map
3n6mA 1 0.6548 9.4 0.933 Contact Map
4icgC 1 0.3452 9.1 0.933 Contact Map
4qnlA 3 0.7143 7.9 0.935 Contact Map
2kvcA 1 0.4643 7.4 0.936 Contact Map
4wznA 6 0.0595 7 0.936 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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