GREMLIN Database
RGHR - HTH-type transcriptional repressor RghR
UniProt: O32236 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 135 (118)
Sequences: 1121 (1019)
Seq/√Len: 93.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
4_F8_L3.4171.00
22_L33_I3.1781.00
12_R37_E2.7831.00
17_L55_A2.7481.00
54_E66_K2.6801.00
20_N24_T2.6671.00
5_G39_G2.6601.00
20_N30_A2.5251.00
35_R40_K2.1321.00
11_L56_L2.1301.00
28_V33_I2.0941.00
31_A35_R2.0691.00
7_Q62_G2.0171.00
46_P49_I1.9901.00
14_E70_I1.9491.00
22_L56_L1.9411.00
29_S32_G1.9011.00
25_Y55_A1.8631.00
60_Y64_M1.7841.00
31_A34_S1.7421.00
35_R41_R1.6881.00
32_G35_R1.6521.00
110_N113_D1.6161.00
36_I48_T1.6151.00
33_I36_I1.5911.00
21_Q24_T1.5131.00
120_Y123_F1.4971.00
53_A66_K1.4891.00
30_A34_S1.4851.00
22_L55_A1.4661.00
8_L56_L1.4230.99
120_Y124_I1.3980.99
45_K48_T1.3890.99
61_E66_K1.3830.99
116_M123_F1.3620.99
8_L33_I1.3540.99
7_Q65_Y1.3170.99
7_Q66_K1.3140.99
29_S34_S1.3000.99
22_L52_L1.2790.99
19_V23_A1.2760.99
11_L58_I1.2630.99
58_I62_G1.2440.99
36_I41_R1.2410.99
26_S55_A1.2200.98
103_N108_Y1.1810.98
119_H123_F1.1700.98
44_P61_E1.1680.98
26_S52_L1.1430.97
15_R25_Y1.1280.97
113_D116_M1.1230.97
7_Q68_G1.1220.97
6_E39_G1.1160.97
19_V30_A1.1010.97
116_M124_I1.0890.97
12_R19_V1.0870.97
43_V46_P1.0480.96
109_L121_F1.0460.96
22_L26_S1.0350.95
17_L25_Y1.0140.95
34_S44_P1.0030.95
35_R38_N0.9900.94
4_F46_P0.9590.93
28_V31_A0.9500.93
17_L21_Q0.9390.92
36_I45_K0.9310.92
19_V33_I0.9300.92
27_G51_K0.9210.92
117_L124_I0.9170.92
62_G68_G0.9100.91
9_R13_E0.9080.91
17_L22_L0.9040.91
19_V37_E0.9020.91
7_Q10_A0.8820.90
49_I60_Y0.8700.89
4_F56_L0.8670.89
34_S38_N0.8630.89
122_S125_S0.8580.89
15_R57_K0.8570.89
4_F44_P0.8540.88
67_A70_I0.8450.88
116_M125_S0.8280.87
8_L22_L0.8220.86
29_S35_R0.8200.86
118_D122_S0.8110.86
32_G36_I0.8070.85
10_A14_E0.8020.85
20_N34_S0.8010.85
44_P48_T0.7990.85
44_P49_I0.7920.84
4_F63_L0.7920.84
118_D121_F0.7890.84
36_I44_P0.7750.83
23_A35_R0.7600.82
28_V36_I0.7540.81
49_I61_E0.7500.81
23_A33_I0.7470.81
121_F125_S0.7470.81
41_R46_P0.7390.80
30_A40_K0.7280.79
28_V32_G0.7220.78
35_R45_K0.7210.78
53_A65_Y0.7110.77
116_M121_F0.6970.76
30_A38_N0.6950.76
118_D125_S0.6680.73
23_A31_A0.6680.73
113_D119_H0.6660.73
11_L62_G0.6590.72
116_M120_Y0.6580.72
99_A103_N0.6570.72
30_A33_I0.6480.71
53_A60_Y0.6410.70
21_Q25_Y0.6400.70
23_A37_E0.6380.69
121_F124_I0.6360.69
115_L119_H0.6310.69
12_R23_A0.6310.69
116_M119_H0.6180.67
48_T52_L0.6160.67
82_T89_K0.6130.66
19_V35_R0.6130.66
117_L121_F0.6120.66
30_A35_R0.6100.66
110_N116_M0.6080.66
36_I52_L0.6060.65
86_L89_K0.6030.65
61_E64_M0.6000.65
23_A28_V0.6000.65
65_Y68_G0.5930.64
31_A41_R0.5910.64
62_G67_A0.5870.63
103_N120_Y0.5870.63
104_E118_D0.5860.63
92_A113_D0.5850.63
120_Y125_S0.5850.63
34_S41_R0.5830.63
32_G40_K0.5810.62
55_A58_I0.5800.62
34_S45_K0.5780.62
49_I64_M0.5730.61
35_R46_P0.5730.61
109_L113_D0.5730.61
22_L25_Y0.5670.60
26_S56_L0.5660.60
87_L117_L0.5600.59
86_L90_A0.5480.58
15_R55_A0.5480.58
29_S44_P0.5470.58
60_Y66_K0.5420.57
69_Y72_E0.5420.57
23_A30_A0.5410.57
111_K114_L0.5410.57
85_K89_K0.5400.57
62_G65_Y0.5390.57
27_G31_A0.5380.56
6_E10_A0.5380.56
32_G38_N0.5360.56
31_A40_K0.5340.56
33_I43_V0.5330.56
113_D125_S0.5290.55
86_L100_L0.5280.55
5_G34_S0.5260.55
50_K66_K0.5240.54
90_A94_D0.5210.54
99_A102_E0.5200.54
65_Y70_I0.5200.54
38_N45_K0.5180.54
89_K100_L0.5180.54
7_Q11_L0.5150.53
58_I70_I0.5110.53
13_E33_I0.5100.53
103_N109_L0.5090.52
96_K101_L0.5050.52
93_Y97_N0.5010.51
62_G70_I0.5000.51
19_V32_G0.5000.51
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 0.8741 99.8 0.413 Contact Map
3r1fA 2 0.8741 99.7 0.419 Contact Map
3op9A 4 0.7852 99.7 0.432 Contact Map
3qwgA 2 0.6074 99.7 0.434 Contact Map
4o8bA 2 0.7185 99.7 0.436 Contact Map
3ivpA 2 0.8 99.7 0.441 Contact Map
1b0nA 2 0.7556 99.7 0.448 Contact Map
3mlfA 2 0.6593 99.7 0.454 Contact Map
4jcyA 2 0.6519 99.7 0.461 Contact Map
2ebyA 2 0.7407 99.6 0.469 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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