GREMLIN Database
YAFQ - mRNA interferase YafQ
UniProt: Q47149 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13154
Length: 92 (86)
Sequences: 733 (613)
Seq/√Len: 66.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
49_D60_R4.7281.00
15_D83_R4.2151.00
61_D69_I3.9011.00
28_K65_E3.4151.00
35_L44_P2.5731.00
6_I37_I2.4711.00
49_D72_Y2.4681.00
22_R89_A2.2641.00
33_M81_F2.0431.00
68_W84_T2.0061.00
32_L47_Y1.8381.00
39_N74_L1.8381.00
8_Y13_S1.7901.00
60_R72_Y1.7491.00
10_G13_S1.5900.99
24_K65_E1.4420.98
84_T89_A1.4110.98
35_L40_T1.3990.98
44_P47_Y1.3640.97
73_K80_R1.3160.97
51_P60_R1.3130.97
59_Y82_E1.2880.96
59_Y73_K1.2640.96
32_L62_A1.2230.95
75_T78_L1.2110.95
56_W71_I1.1890.94
30_K34_T1.1390.93
56_W59_Y1.1180.92
29_L68_W1.0790.91
16_V30_K1.0680.90
28_K64_V1.0640.90
22_R84_T1.0630.90
20_Q26_M1.0600.90
19_A84_T1.0570.90
32_L70_L1.0540.90
40_T72_Y1.0300.89
17_K21_K1.0230.88
19_A22_R1.0190.88
25_D28_K1.0130.88
43_L49_D0.9950.87
9_S80_R0.9910.87
75_T80_R0.9850.86
8_Y16_V0.9740.86
16_V26_M0.9710.86
6_I81_F0.9480.84
32_L64_V0.9370.84
7_E78_L0.9270.83
71_I90_L0.9130.82
46_V66_P0.8950.81
43_L79_L0.8890.80
19_A24_K0.8790.79
37_I73_K0.8730.79
22_R68_W0.8690.79
48_K51_P0.8660.78
36_L44_P0.8610.78
6_I79_L0.8540.77
71_I85_G0.8390.76
49_D74_L0.8360.76
74_L82_E0.8360.76
39_N72_Y0.8210.75
10_G17_K0.8070.73
58_G83_R0.8050.73
22_R86_T0.8030.73
13_S17_K0.7820.71
33_M37_I0.7800.71
60_R74_L0.7780.71
62_A70_L0.7680.70
66_P70_L0.7660.69
15_D29_L0.7600.69
20_Q30_K0.7570.69
53_Q57_K0.7530.68
11_Q31_Y0.7510.68
83_R90_L0.7390.67
19_A68_W0.7300.66
85_G90_L0.7180.64
21_K68_W0.7060.63
65_E68_W0.6880.61
23_H84_T0.6840.61
19_A65_E0.6830.61
24_K86_T0.6830.61
59_Y71_I0.6730.59
29_L84_T0.6700.59
12_Y33_M0.6680.59
26_M29_L0.6480.57
5_D78_L0.6440.56
37_I75_T0.6350.55
18_L22_R0.6290.54
69_I90_L0.6270.54
27_N31_Y0.6130.52
5_D18_L0.6100.52
36_L79_L0.6080.52
23_H68_W0.6070.52
9_S62_A0.6060.52
48_K53_Q0.6050.52
30_K73_K0.6040.51
19_A86_T0.5940.50
22_R61_D0.5940.50
26_M68_W0.5900.50
8_Y26_M0.5820.49
33_M79_L0.5790.48
72_Y79_L0.5760.48
5_D10_G0.5710.48
20_Q29_L0.5690.47
7_E30_K0.5660.47
43_L62_A0.5640.47
5_D8_Y0.5610.46
17_K66_P0.5560.46
23_H88_A0.5560.46
19_A29_L0.5550.46
29_L33_M0.5510.45
38_N77_K0.5510.45
8_Y34_T0.5460.45
24_K84_T0.5440.44
51_P61_D0.5420.44
49_D79_L0.5390.44
8_Y12_Y0.5370.44
78_L86_T0.5360.43
36_L88_A0.5340.43
49_D64_V0.5280.42
24_K30_K0.5240.42
8_Y81_F0.5230.42
28_K31_Y0.5230.42
31_Y46_V0.5220.42
62_A91_F0.5190.41
50_H63_H0.5100.40
38_N45_A0.5060.40
16_V20_Q0.5010.39
5_D33_M0.5000.39
5_D31_Y0.5000.39
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  
4ml2A 1 0.9674 99.8 0.477 Contact Map
4lttA 1 0.9674 99.7 0.534 Contact Map
4nrnA 2 0.9565 99.7 0.539 Contact Map
3oeiC 2 0.913 99.6 0.584 Contact Map
3g5oB 1 0.8478 99.3 0.654 Contact Map
2a6sA 1 0.9022 99.3 0.658 Contact Map
3bpqB 1 0.8696 99.2 0.669 Contact Map
1wmiA 2 0.913 99.1 0.678 Contact Map
2kheA 1 0.913 99 0.697 Contact Map
4fxiA 2 0.8913 98.5 0.744 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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