GREMLIN Database
XRE - HTH-type transcriptional regulator Xre
UniProt: P23789 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 113 (104)
Sequences: 1130 (1000)
Seq/√Len: 98.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
18_I29_Y3.2681.00
16_E20_S3.0881.00
49_D61_G2.8751.00
16_E26_R2.6941.00
10_R33_E2.5591.00
25_S28_R2.3121.00
21_H50_Y2.2861.00
24_V29_Y2.2491.00
87_S90_S2.1301.00
27_A31_H2.1141.00
2_I6_L2.1111.00
38_E41_Y2.0651.00
3_G35_G2.0531.00
12_K65_K2.0481.00
55_T59_L1.9111.00
9_L51_F1.8131.00
31_H36_R1.7131.00
18_I51_F1.7061.00
48_A61_G1.5851.00
90_S105_E1.5801.00
97_F101_L1.5751.00
93_Q100_Y1.5511.00
97_F105_E1.4631.00
27_A30_S1.4301.00
28_R31_H1.3950.99
26_R30_S1.3760.99
30_S34_N1.3710.99
56_D61_G1.3600.99
25_S31_H1.3250.99
93_Q104_K1.3240.99
31_H37_S1.2890.99
97_F100_Y1.2260.99
87_S105_E1.2190.99
15_Q26_R1.2180.99
24_V28_R1.2170.99
5_R57_Y1.1750.98
62_K65_K1.1590.98
2_I41_Y1.1550.98
73_D76_L1.1490.98
5_R63_D1.1480.98
41_Y44_L1.1230.98
32_Y37_S1.0860.97
93_Q101_L1.0830.97
32_Y43_T1.0770.97
31_H34_N1.0740.97
26_R29_Y1.0710.97
4_G35_G1.0690.97
6_L29_Y1.0690.97
93_Q97_F1.0620.97
18_I47_L1.0500.96
101_L104_K1.0450.96
40_D43_T1.0340.96
26_R34_N1.0320.96
17_E20_S1.0130.96
44_L55_T1.0060.95
18_I50_Y0.9790.95
39_P56_D0.9780.95
96_E100_Y0.9680.94
15_Q29_Y0.9640.94
23_G46_K0.9600.94
26_R36_R0.9550.94
5_R60_T0.9440.93
90_S93_Q0.9430.93
97_F104_K0.9430.93
86_F98_I0.9380.93
26_R31_H0.9020.92
94_A98_I0.8980.92
78_L81_R0.8890.91
100_Y103_E0.8860.91
17_E21_H0.8800.91
19_A29_Y0.8720.90
22_I47_L0.8610.90
38_E43_T0.8600.90
24_V27_A0.8560.90
100_Y104_K0.8370.89
95_I98_I0.8250.88
80_Y83_M0.8030.86
101_L105_E0.7980.86
9_L53_V0.7970.86
6_L18_I0.7910.86
22_I50_Y0.7840.85
76_L79_A0.7700.84
94_A101_L0.7660.84
15_Q19_A0.7630.84
91_K102_K0.7610.83
93_Q105_E0.7450.82
96_E104_K0.7420.82
81_R85_D0.7400.82
2_I44_L0.7360.81
93_Q103_E0.7330.81
32_Y40_D0.7330.81
92_Q95_I0.7310.81
27_A34_N0.7290.81
72_S76_L0.7280.81
87_S93_Q0.7270.80
19_A31_H0.7240.80
14_T17_E0.7210.80
98_I101_L0.7160.79
80_Y94_A0.7110.79
43_T46_K0.7020.78
52_Q66_S0.6960.78
7_K33_E0.6880.77
92_Q96_E0.6840.76
7_K10_R0.6800.76
93_Q96_E0.6800.76
76_L83_M0.6640.74
34_N37_S0.6640.74
41_Y45_Q0.6630.74
97_F103_E0.6580.74
13_R21_H0.6540.73
83_M91_K0.6490.72
50_Y53_V0.6380.71
2_I51_F0.6330.71
25_S30_S0.6310.70
83_M87_S0.6270.70
79_A84_Q0.6240.70
81_R103_E0.6190.69
37_S40_D0.6170.69
32_Y39_P0.6150.68
74_P80_Y0.6150.68
77_Q95_I0.6090.68
96_E103_E0.6060.67
25_S37_S0.6020.67
19_A26_R0.6020.67
24_V32_Y0.6020.67
44_L59_L0.5940.66
90_S97_F0.5850.65
102_K105_E0.5770.64
25_S36_R0.5760.63
98_I102_K0.5760.63
11_G25_S0.5720.63
30_S39_P0.5680.62
64_K67_D0.5650.62
83_M96_E0.5560.61
77_Q80_Y0.5540.60
5_R61_G0.5530.60
82_D91_K0.5510.60
6_L43_T0.5490.60
82_D102_K0.5430.59
48_A55_T0.5380.58
15_Q33_E0.5360.58
18_I22_I0.5360.58
24_V47_L0.5310.57
79_A86_F0.5290.57
22_I51_F0.5220.56
13_R50_Y0.5170.55
45_Q61_G0.5160.55
8_S20_S0.5160.55
9_L50_Y0.5150.55
94_A97_F0.5090.54
27_A36_R0.5090.54
9_L57_Y0.5080.54
75_D78_L0.5050.54
86_F94_A0.5010.53
82_D95_I0.5010.53
28_R37_S0.5000.53
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 0.9558 99.7 0.391 Contact Map
3r1fA 2 0.9558 99.7 0.401 Contact Map
4o8bA 2 0.8407 99.7 0.424 Contact Map
3qwgA 2 0.6372 99.7 0.425 Contact Map
1b0nA 2 0.8673 99.7 0.426 Contact Map
4jcyA 2 0.7611 99.7 0.428 Contact Map
3op9A 4 0.9027 99.7 0.432 Contact Map
3ivpA 2 0.9204 99.6 0.448 Contact Map
2p5tA 2 0.4159 99.5 0.487 Contact Map
2ebyA 2 0.8496 99.5 0.496 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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