GREMLIN Database
YUXN - Uncharacterized HTH-type transcriptional regulator YuxN
UniProt: P40950 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 291 (276)
Sequences: 426 (363)
Seq/√Len: 21.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
136_Y183_D7.1641.00
26_V40_F5.1051.00
19_K28_E4.3611.00
138_K141_E4.1921.00
30_A40_F3.4891.00
77_R183_D3.4561.00
270_T283_K3.3471.00
36_S40_F2.8880.99
254_K258_K2.8360.99
244_S268_N2.8230.99
37_K41_Y2.7520.99
247_I265_M2.7360.99
264_G268_N2.7160.99
11_T32_E2.6910.99
146_E177_I2.6780.99
72_K82_K2.6550.99
16_F24_T2.5960.98
247_I261_I2.4930.98
251_E258_K2.4800.98
31_K185_M2.3810.97
81_R176_D2.3730.97
241_L269_L2.3200.97
42_I264_G2.2470.96
23_S146_E2.2190.96
269_L282_L2.2170.96
177_I181_R2.2050.96
227_R249_E2.2000.96
184_D188_G2.1090.94
250_A254_K2.0470.93
11_T35_I2.0360.93
36_S39_A1.9850.92
247_I260_A1.9570.92
198_I250_A1.9270.91
94_H261_I1.8570.90
42_I45_P1.8360.89
85_T172_S1.8360.89
38_G83_Q1.8340.89
27_Q38_G1.8020.88
39_A42_I1.7800.87
244_S264_G1.7780.87
226_L230_I1.7670.87
26_V38_G1.7220.86
36_S41_Y1.6440.83
243_E260_A1.6140.82
38_G41_Y1.6110.81
219_T230_I1.5780.80
38_G46_S1.5410.78
204_S225_S1.5370.78
150_L154_I1.5090.77
83_Q131_S1.4950.76
275_L278_D1.4860.76
243_E247_I1.4740.75
7_L84_L1.4640.75
66_I69_I1.4630.75
240_E263_K1.4350.73
17_A28_E1.4220.72
83_Q135_I1.4070.72
29_I44_F1.4060.72
39_A175_A1.4040.72
3_E52_L1.4020.71
53_S261_I1.3940.71
4_K36_S1.3810.70
39_A157_I1.3700.70
42_I83_Q1.3610.69
137_G143_Y1.3550.69
69_I179_M1.3540.69
8_I136_Y1.3470.68
4_K8_I1.3410.68
260_A268_N1.3360.68
38_G42_I1.3350.68
16_F47_K1.3220.67
133_L144_T1.3200.67
9_I250_A1.3150.66
223_V226_L1.2930.65
27_Q37_K1.2910.65
230_I249_E1.2740.64
23_S174_L1.2700.64
262_I266_I1.2690.64
8_I22_N1.2660.63
142_P227_R1.2630.63
17_A98_I1.2460.62
8_I268_N1.2280.61
55_L107_L1.2140.60
25_S29_I1.2130.60
158_Y244_S1.2060.59
269_L283_K1.1960.59
27_Q31_K1.1950.59
37_K153_G1.1940.59
23_S262_I1.1930.59
53_S197_F1.1900.58
59_Y117_A1.1890.58
148_C157_I1.1850.58
181_R186_V1.1800.58
170_K221_S1.1790.58
39_A43_Y1.1790.58
12_A176_D1.1770.58
30_A48_E1.1750.57
5_E30_A1.1730.57
150_L177_I1.1700.57
94_H255_K1.1670.57
54_M100_M1.1640.57
37_K47_K1.1610.56
156_Q160_E1.1610.56
173_Q195_K1.1600.56
27_Q46_S1.1510.56
198_I203_A1.1410.55
50_L94_H1.1350.55
242_S266_I1.1280.54
100_M104_E1.1260.54
170_K245_L1.1180.54
181_R188_G1.1170.54
157_I268_N1.1080.53
52_L116_C1.1030.53
15_L40_F1.0930.52
49_A248_L1.0930.52
174_L197_F1.0840.51
112_E234_N1.0670.50
78_T190_S1.0650.50
33_C40_F1.0600.50
36_S42_I1.0550.49
12_A49_A1.0530.49
137_G140_A1.0390.48
75_S130_D1.0320.48
48_E66_I1.0290.48
5_E49_A1.0270.47
15_L24_T1.0270.47
95_K161_C1.0260.47
210_L248_L1.0240.47
43_Y97_F1.0100.46
21_Y157_I1.0080.46
21_Y48_E1.0060.46
46_S137_G1.0050.46
247_I268_N1.0000.46
17_A39_A0.9970.45
38_G45_P0.9940.45
273_E276_A0.9930.45
37_K97_F0.9910.45
43_Y135_I0.9860.45
256_T259_L0.9820.44
143_Y150_L0.9790.44
227_R270_T0.9790.44
143_Y186_V0.9760.44
260_A263_K0.9600.43
10_E26_V0.9570.43
50_L269_L0.9540.43
249_E265_M0.9490.42
24_T40_F0.9470.42
6_K151_I0.9450.42
137_G142_P0.9450.42
66_I161_C0.9440.42
33_C175_A0.9390.42
101_Q104_E0.9370.41
97_F101_Q0.9370.41
27_Q36_S0.9300.41
173_Q227_R0.9270.41
229_K278_D0.9240.41
8_I43_Y0.9230.41
28_E103_K0.9210.40
223_V282_L0.9200.40
237_S277_K0.9180.40
127_F131_S0.9160.40
233_L256_T0.9020.39
55_L179_M0.8970.39
55_L208_G0.8970.39
144_T148_C0.8950.39
111_E122_Q0.8940.39
158_Y177_I0.8880.38
69_I203_A0.8850.38
42_I268_N0.8820.38
170_K230_I0.8790.38
201_E233_L0.8790.38
27_Q83_Q0.8780.38
23_S116_C0.8770.38
132_L216_D0.8750.37
59_Y98_I0.8740.37
242_S259_L0.8730.37
258_K262_I0.8720.37
16_F20_G0.8670.37
5_E127_F0.8590.36
83_Q95_K0.8560.36
133_L242_S0.8520.36
250_A279_A0.8500.36
36_S96_D0.8490.36
226_L245_L0.8470.36
251_E269_L0.8400.35
17_A104_E0.8360.35
251_E257_P0.8340.35
243_E258_K0.8280.34
57_Y136_Y0.8260.34
250_A263_K0.8230.34
22_N51_L0.8180.34
147_L186_V0.8150.34
191_E216_D0.8140.34
130_D148_C0.8100.33
52_L122_Q0.8030.33
54_M61_K0.7990.33
12_A137_G0.7960.33
239_L242_S0.7950.32
48_E177_I0.7910.32
78_T159_L0.7880.32
65_R228_D0.7850.32
28_E96_D0.7830.32
73_G248_L0.7830.32
6_K59_Y0.7780.31
89_E93_E0.7700.31
137_G282_L0.7670.31
49_A70_K0.7660.31
80_Y88_Y0.7630.31
111_E136_Y0.7600.30
28_E77_R0.7580.30
51_L257_P0.7580.30
113_V247_I0.7570.30
8_I35_I0.7550.30
29_I46_S0.7550.30
88_Y104_E0.7520.30
30_A50_L0.7480.30
142_P190_S0.7480.30
8_I269_L0.7480.30
48_E110_T0.7470.30
40_F156_Q0.7450.30
43_Y252_M0.7440.30
263_K283_K0.7430.29
82_K256_T0.7430.29
118_K173_Q0.7420.29
219_T249_E0.7400.29
24_T163_I0.7390.29
93_E142_P0.7370.29
132_L195_K0.7360.29
97_F264_G0.7350.29
130_D162_M0.7330.29
154_I178_I0.7290.29
4_K99_S0.7290.29
72_K232_S0.7280.29
158_Y174_L0.7260.29
13_L21_Y0.7260.29
134_N230_I0.7260.29
274_A280_E0.7250.28
39_A58_Y0.7250.28
143_Y257_P0.7250.28
11_T61_K0.7210.28
97_F104_E0.7160.28
39_A97_F0.7120.28
3_E156_Q0.7040.27
45_P244_S0.7030.27
49_A197_F0.7000.27
41_Y47_K0.7000.27
37_K146_E0.6990.27
177_I189_M0.6940.27
260_A265_M0.6940.27
6_K113_V0.6900.27
35_I218_L0.6890.27
93_E198_I0.6880.26
249_E269_L0.6860.26
198_I206_L0.6860.26
20_G24_T0.6840.26
218_L224_K0.6840.26
42_I97_F0.6820.26
165_L172_S0.6810.26
87_L154_I0.6810.26
40_F50_L0.6790.26
135_I195_K0.6770.26
69_I155_S0.6720.26
77_R179_M0.6700.26
46_S146_E0.6690.25
276_A279_A0.6660.25
249_E257_P0.6660.25
240_E275_L0.6630.25
21_Y125_L0.6620.25
9_I220_E0.6620.25
43_Y83_Q0.6620.25
217_P222_I0.6580.25
130_D179_M0.6560.25
157_I264_G0.6530.25
42_I157_I0.6520.25
75_S178_I0.6450.24
21_Y51_L0.6430.24
9_I272_S0.6430.24
83_Q127_F0.6430.24
16_F37_K0.6420.24
32_E133_L0.6410.24
153_G181_R0.6400.24
30_A39_A0.6370.24
83_Q148_C0.6360.24
146_E260_A0.6340.24
25_S37_K0.6320.24
133_L192_R0.6290.23
100_M103_K0.6260.23
4_K62_T0.6220.23
32_E132_L0.6200.23
40_F43_Y0.6200.23
4_K264_G0.6190.23
41_Y80_Y0.6190.23
247_I264_G0.6180.23
27_Q100_M0.6150.23
130_D142_P0.6140.23
8_I45_P0.6090.23
77_R136_Y0.6090.23
54_M154_I0.6080.22
248_L262_I0.6070.22
149_F276_A0.6060.22
82_K227_R0.6050.22
5_E108_P0.6010.22
80_Y160_E0.6000.22
28_E104_E0.5970.22
17_A183_D0.5960.22
260_A267_H0.5950.22
29_I38_G0.5930.22
191_E255_K0.5910.22
33_C146_E0.5900.22
57_Y264_G0.5900.22
197_F266_I0.5900.22
79_A94_H0.5870.21
151_I258_K0.5870.21
86_V98_I0.5870.21
10_E34_K0.5860.21
143_Y156_Q0.5850.21
182_I217_P0.5800.21
170_K173_Q0.5780.21
22_N113_V0.5780.21
43_Y95_K0.5770.21
117_A211_T0.5760.21
98_I149_F0.5740.21
28_E116_C0.5730.21
155_S164_L0.5720.21
147_L189_M0.5700.21
17_A26_V0.5680.21
25_S36_S0.5680.21
4_K147_L0.5670.21
62_T245_L0.5670.21
57_Y97_F0.5660.21
30_A196_P0.5640.20
34_K196_P0.5640.20
147_L277_K0.5640.20
136_Y198_I0.5630.20
57_Y183_D0.5630.20
82_K231_N0.5620.20
75_S172_S0.5610.20
163_I231_N0.5600.20
146_E181_R0.5600.20
258_K269_L0.5600.20
7_L22_N0.5600.20
136_Y179_M0.5590.20
60_D222_I0.5580.20
219_T226_L0.5570.20
89_E171_P0.5560.20
6_K120_I0.5550.20
25_S44_F0.5550.20
52_L113_V0.5550.20
12_A34_K0.5540.20
35_I39_A0.5530.20
17_A100_M0.5530.20
265_M268_N0.5500.20
125_L159_L0.5500.20
256_T280_E0.5500.20
53_S229_K0.5500.20
182_I242_S0.5490.20
249_E271_E0.5470.20
37_K137_G0.5470.20
119_K195_K0.5450.20
152_E283_K0.5450.20
3_E198_I0.5450.20
35_I154_I0.5430.20
24_T35_I0.5420.20
177_I186_V0.5410.19
180_N194_D0.5400.19
37_K50_L0.5390.19
154_I233_L0.5380.19
95_K160_E0.5370.19
34_K271_E0.5370.19
197_F282_L0.5360.19
272_S276_A0.5360.19
195_K220_E0.5340.19
158_Y196_P0.5340.19
135_I139_K0.5330.19
62_T218_L0.5330.19
45_P240_E0.5310.19
60_D196_P0.5310.19
157_I261_I0.5310.19
93_E255_K0.5260.19
279_A282_L0.5260.19
32_E51_L0.5260.19
101_Q107_L0.5220.19
138_K145_A0.5200.19
20_G47_K0.5190.19
75_S206_L0.5190.19
107_L147_L0.5190.19
49_A145_A0.5190.19
39_A194_D0.5180.19
99_S102_L0.5160.18
230_I246_D0.5160.18
51_L264_G0.5140.18
132_L250_A0.5140.18
209_P240_E0.5120.18
19_K258_K0.5110.18
77_R94_H0.5110.18
93_E257_P0.5100.18
146_E150_L0.5100.18
25_S71_T0.5090.18
154_I230_I0.5090.18
82_K201_E0.5090.18
99_S148_C0.5070.18
80_Y140_A0.5070.18
131_S247_I0.5070.18
24_T34_K0.5050.18
73_G139_K0.5050.18
272_S281_Q0.5040.18
8_I40_F0.5040.18
88_Y97_F0.5040.18
59_Y120_I0.5030.18
222_I226_L0.5030.18
99_S178_I0.5020.18
245_L249_E0.5020.18
58_Y196_P0.5020.18
133_L166_G0.5000.18
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  
3dcfA 2 0.6254 100 0.622 Contact Map
2ibdA 2 0.646 100 0.624 Contact Map
4udsA 2 0.6254 100 0.626 Contact Map
2id6A 2 0.6495 100 0.629 Contact Map
2g3bA 2 0.6357 100 0.63 Contact Map
4gckA 2 0.6392 100 0.63 Contact Map
1vi0A 2 0.6392 100 0.631 Contact Map
3lsjA 2 0.6632 99.9 0.634 Contact Map
2genA 2 0.6392 99.9 0.636 Contact Map
3himA 2 0.646 99.9 0.636 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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