GREMLIN Database
RGHRB - Uncharacterized HTH-type transcriptional regulator RghRB
UniProt: O32237 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 139 (120)
Sequences: 1064 (968)
Seq/√Len: 88.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
22_L33_I3.8161.00
4_F8_L3.1521.00
20_N24_V2.9631.00
12_R37_E2.9191.00
17_L55_V2.7441.00
54_A66_A2.6971.00
35_K40_K2.6381.00
20_N30_S2.4881.00
5_G39_G2.4701.00
28_I33_I2.2161.00
31_A34_S2.1801.00
31_A35_K2.1031.00
14_A70_I1.9721.00
22_L56_L1.9391.00
46_P49_I1.9091.00
60_Y64_M1.8281.00
29_S32_T1.8271.00
11_L56_L1.8161.00
32_T35_K1.7191.00
61_E66_A1.7081.00
111_E114_S1.7021.00
30_S34_S1.6801.00
25_Y55_V1.6751.00
7_Q62_N1.6221.00
121_L124_Y1.6181.00
8_L56_L1.5981.00
36_I48_T1.5631.00
21_Q24_V1.5221.00
34_S38_N1.5161.00
7_Q68_G1.5111.00
8_L33_I1.5021.00
120_N124_Y1.4841.00
53_A66_A1.4200.99
19_V30_S1.4160.99
22_L52_L1.3880.99
4_F56_L1.3860.99
19_V23_A1.3820.99
117_D124_Y1.3520.99
121_L125_F1.3060.99
45_K48_T1.2830.99
19_V33_I1.2680.98
22_L55_V1.2430.98
7_Q65_A1.2420.98
43_T46_P1.2410.98
21_Q25_Y1.2280.98
67_A70_I1.1710.97
6_Q39_G1.1360.97
27_G51_K1.1060.96
34_S44_P1.0810.96
43_T48_T1.0740.96
29_S34_S1.0710.96
35_K38_N1.0650.95
114_S117_D1.0560.95
36_I44_P1.0530.95
121_L129_S1.0300.95
44_P61_E1.0100.94
30_S38_N1.0090.94
121_L128_L0.9920.93
44_P48_T0.9750.93
122_S126_D0.9680.92
29_S35_K0.9510.92
106_N119_E0.9430.91
11_L58_V0.9410.91
48_T51_K0.9360.91
124_Y128_L0.9280.91
17_L21_Q0.9220.91
26_S55_V0.9200.90
12_R19_V0.9170.90
26_S52_L0.9040.90
32_T36_I0.9030.90
26_S56_L0.8990.89
4_F44_P0.8850.89
110_W122_S0.8590.87
121_L127_F0.8490.87
30_S35_K0.8450.86
36_I45_K0.8400.86
44_P49_I0.8360.86
117_D121_L0.8310.85
117_D128_L0.8240.85
120_N128_L0.8240.85
17_L25_Y0.8210.85
49_I61_E0.8100.84
114_S129_S0.8060.84
62_N65_A0.7980.83
4_F49_I0.7810.82
49_I60_Y0.7800.82
28_I36_I0.7780.81
7_Q66_A0.7740.81
15_R25_Y0.7710.81
48_T52_L0.7670.80
126_D129_S0.7630.80
84_Y87_V0.7620.80
8_L22_L0.7620.80
69_H72_A0.7560.79
61_E64_M0.7560.79
112_H115_K0.7530.79
28_I32_T0.7490.79
4_F46_P0.7420.78
125_F129_S0.7420.78
123_K127_F0.7420.78
111_E129_S0.7360.78
23_A28_I0.7340.77
53_A60_Y0.7300.77
118_I122_S0.7070.75
55_V58_V0.7030.74
50_K54_A0.6890.73
118_I123_K0.6850.72
60_Y66_A0.6800.72
28_I31_A0.6790.72
26_S48_T0.6760.71
51_K54_A0.6740.71
104_I107_S0.6740.71
107_S115_K0.6730.71
23_A30_S0.6730.71
125_F128_L0.6680.71
107_S111_E0.6660.70
120_N127_F0.6650.70
105_F109_K0.6620.70
111_E117_D0.6530.69
23_A35_K0.6480.68
20_N34_S0.6440.68
90_I93_T0.6420.68
33_I36_I0.6400.67
30_S40_K0.6390.67
102_L110_W0.6380.67
10_E14_A0.6350.67
34_S45_K0.6340.67
90_I94_A0.6330.66
47_A51_K0.6320.66
50_K66_A0.6250.65
19_V35_K0.6220.65
85_Q88_Y0.6210.65
117_D120_N0.6200.65
23_A33_I0.6160.64
13_R33_I0.6150.64
89_E92_Q0.6120.64
4_F43_T0.6100.64
124_Y127_F0.6070.63
18_T21_Q0.6040.63
32_T40_K0.5990.62
119_E125_F0.5990.62
19_V37_E0.5930.61
30_S33_I0.5930.61
119_E122_S0.5870.61
9_R30_S0.5870.61
13_R29_S0.5790.60
59_P70_I0.5730.59
101_H120_N0.5720.59
85_Q89_E0.5690.58
27_G31_A0.5650.58
10_E24_V0.5600.57
104_I110_W0.5570.57
105_F112_H0.5570.57
61_E65_A0.5540.56
86_S92_Q0.5520.56
32_T43_T0.5480.55
110_W114_S0.5470.55
123_K128_L0.5470.55
58_V62_N0.5450.55
60_Y65_A0.5380.54
16_K25_Y0.5340.54
13_R16_K0.5320.53
122_S125_F0.5310.53
103_P106_N0.5250.52
7_Q10_E0.5240.52
84_Y89_E0.5210.52
35_K43_T0.5210.52
114_S126_D0.5190.52
106_N115_K0.5180.51
62_N70_I0.5160.51
17_L22_L0.5140.51
31_A40_K0.5130.51
119_E123_K0.5090.50
122_S129_S0.5060.50
49_I64_M0.5060.50
107_S119_E0.5060.50
23_A37_E0.5030.49
29_S48_T0.5020.49
102_L105_F0.5020.49
89_E93_T0.5000.49
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 0.8489 99.8 0.425 Contact Map
3r1fA 2 0.8489 99.8 0.432 Contact Map
3qwgA 2 0.5899 99.7 0.446 Contact Map
3op9A 4 0.7626 99.7 0.449 Contact Map
4o8bA 2 0.6978 99.7 0.464 Contact Map
3ivpA 2 0.777 99.7 0.465 Contact Map
1b0nA 2 0.7338 99.7 0.472 Contact Map
4jcyA 2 0.6331 99.7 0.475 Contact Map
3mlfA 2 0.6403 99.6 0.491 Contact Map
2ebyA 2 0.7194 99.6 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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