GREMLIN Database
YVNA - Uncharacterized HTH-type transcriptional regulator YvnA
UniProt: O34692 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 157 (125)
Sequences: 1213 (974)
Seq/√Len: 87.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
120_H124_H3.0941.00
53_H120_H3.0741.00
138_F152_L2.8881.00
58_I93_I2.8591.00
51_Q90_H2.6931.00
84_V93_I2.5231.00
146_V149_F2.5111.00
58_I64_V2.4871.00
59_H117_A2.4591.00
53_H124_H2.3171.00
65_N68_F2.2961.00
139_S142_D2.1871.00
79_A82_K2.1161.00
96_T108_T2.1131.00
75_I80_V2.0951.00
101_N104_E2.0651.00
94_T108_T1.8941.00
67_S77_K1.7921.00
98_K103_K1.7751.00
64_V72_R1.7561.00
144_K148_A1.6901.00
66_N107_Y1.6401.00
95_V102_K1.6391.00
59_H109_L1.6141.00
65_N104_E1.5771.00
61_S64_V1.5561.00
88_L107_Y1.5491.00
114_R118_A1.4510.99
141_D144_K1.3990.99
112_S115_K1.3750.99
122_Q126_K1.3580.99
142_D148_A1.3400.99
84_V88_L1.3390.99
137_E152_L1.3320.99
81_S101_N1.3140.99
65_N106_F1.3130.99
111_D114_R1.3000.99
126_K129_E1.2930.99
66_N84_V1.2780.98
91_N112_S1.2720.98
58_I105_I1.2670.98
98_K101_N1.2520.98
138_F149_F1.2520.98
63_N108_T1.2250.98
125_E129_E1.2240.98
54_I83_A1.2230.98
28_V31_P1.2150.98
55_V59_H1.2020.98
52_L116_L1.1970.98
142_D145_T1.1550.97
91_N94_T1.1390.97
148_A152_L1.1210.96
117_A121_E1.1210.96
51_Q76_S1.1110.96
27_K138_F1.1110.96
97_K105_I1.1080.96
88_L95_V1.0960.96
81_S95_V1.0930.96
56_S121_E1.0910.96
88_L93_I1.0510.95
55_V117_A1.0420.95
27_K31_P1.0330.94
141_D145_T1.0320.94
60_T118_A1.0210.94
61_S72_R1.0120.94
111_D115_K1.0060.94
50_T54_I0.9990.93
53_H59_H0.9770.93
57_C69_L0.9760.93
79_A83_A0.9730.92
76_S79_A0.9680.92
57_C73_L0.9510.92
66_N81_S0.9500.91
98_K104_E0.9380.91
145_T148_A0.9320.91
46_D90_H0.9230.90
55_V109_L0.9180.90
84_V107_Y0.9170.90
142_D152_L0.8980.89
36_S42_H0.8910.89
56_S124_H0.8890.89
49_L127_A0.8870.88
48_T86_A0.8750.88
48_T51_Q0.8580.87
118_A122_Q0.8550.87
66_N95_V0.8510.86
84_V121_E0.8340.85
129_E136_N0.8250.85
37_S41_D0.8240.84
92_I112_S0.8100.83
56_S117_A0.7970.82
56_S60_T0.7960.82
118_A121_E0.7880.82
93_I112_S0.7790.81
82_K103_K0.7730.80
51_Q78_A0.7730.80
112_S125_E0.7720.80
81_S104_E0.7660.80
69_L108_T0.7650.80
147_T151_N0.7640.80
83_A86_A0.7570.79
88_L125_E0.7550.79
85_H89_K0.7430.78
75_I124_H0.7400.77
66_N80_V0.7370.77
28_V32_S0.7280.76
66_N78_A0.7270.76
29_Q33_I0.7260.76
35_I109_L0.7240.76
95_V105_I0.7230.76
60_T117_A0.7180.75
123_L127_A0.6990.73
69_L107_Y0.6900.72
62_Q108_T0.6840.72
45_K60_T0.6830.72
82_K102_K0.6820.72
103_K128_K0.6740.71
95_V107_Y0.6710.70
77_K85_H0.6660.70
133_Q136_N0.6620.69
38_Q41_D0.6570.69
28_V52_L0.6520.68
66_N76_S0.6510.68
52_L58_I0.6510.68
54_I84_V0.6510.68
52_L120_H0.6490.68
70_A95_V0.6470.68
50_T86_A0.6420.67
100_G125_E0.6410.67
70_A100_G0.6400.67
76_S86_A0.6390.67
63_N133_Q0.6380.66
59_H69_L0.6370.66
95_V128_K0.6320.66
38_Q119_L0.6300.65
47_W153_W0.6260.65
78_A123_L0.6260.65
39_H49_L0.6190.64
49_L86_A0.6180.64
82_K101_N0.6160.64
126_K150_F0.6150.64
67_S79_A0.6130.63
77_K86_A0.6110.63
44_K52_L0.6020.62
91_N110_T0.5960.61
61_S148_A0.5900.60
100_G129_E0.5900.60
122_Q125_E0.5880.60
64_V68_F0.5870.60
62_Q107_Y0.5820.59
69_L121_E0.5800.59
37_S74_H0.5780.59
136_N141_D0.5780.59
65_N101_N0.5770.59
50_T66_N0.5760.59
91_N115_K0.5750.58
136_N144_K0.5710.58
81_S85_H0.5690.58
43_L115_K0.5680.58
33_I144_K0.5670.57
47_W92_I0.5660.57
83_A119_L0.5590.56
47_W116_L0.5560.56
59_H114_R0.5550.56
137_E148_A0.5500.55
50_T73_L0.5490.55
125_E148_A0.5480.55
70_A147_T0.5480.55
118_A151_N0.5450.54
148_A151_N0.5440.54
94_T111_D0.5370.53
82_K107_Y0.5350.53
100_G103_K0.5280.52
30_I74_H0.5270.52
103_K107_Y0.5260.52
50_T76_S0.5250.52
47_W133_Q0.5230.52
80_V123_L0.5170.51
68_F80_V0.5170.51
118_A141_D0.5170.51
76_S82_K0.5160.51
82_K85_H0.5100.50
75_I79_A0.5070.49
90_H153_W0.5050.49
56_S146_V0.5040.49
92_I116_L0.5030.49
93_I144_K0.5010.49
68_F71_S0.5000.48
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  
3nqoA 2 0.9172 99.8 0.477 Contact Map
4yifA 2 0.8726 99.8 0.487 Contact Map
2fbkA 2 0.9045 99.8 0.496 Contact Map
3bj6A 2 0.9045 99.8 0.497 Contact Map
1s3jA 2 0.8981 99.8 0.498 Contact Map
3bjaA 2 0.879 99.8 0.499 Contact Map
3u2rA 4 0.8344 99.8 0.5 Contact Map
1lj9A 2 0.8535 99.8 0.501 Contact Map
3cjnA 2 0.8726 99.8 0.502 Contact Map
2rdpA 2 0.879 99.8 0.504 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.

Page generated in 0.0074 seconds.