GREMLIN Database
IMMR - HTH-type transcriptional regulator ImmR
UniProt: P96631 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 127 (110)
Sequences: 1284 (1179)
Seq/√Len: 112.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
3_L7_L3.0221.00
21_A32_L2.9591.00
16_Y53_L2.5281.00
19_K29_N2.4651.00
19_K23_E2.4281.00
21_A54_Y2.3781.00
4_G38_D2.3081.00
34_N39_Y2.2601.00
52_N64_K2.1051.00
11_R36_E2.0761.00
30_N34_N2.0551.00
24_K53_L2.0351.00
28_G31_N2.0241.00
27_I32_L1.9991.00
58_T62_L1.9011.00
7_L54_Y1.8411.00
10_A54_Y1.7451.00
29_N33_S1.7091.00
31_N34_N1.6671.00
21_A50_L1.6311.00
51_S64_K1.6211.00
34_N40_R1.6141.00
44_T47_L1.5701.00
6_R60_Y1.5521.00
30_N33_S1.5171.00
102_D105_T1.4911.00
35_Y46_T1.4841.00
10_A56_V1.4171.00
6_R63_G1.3831.00
43_D46_T1.3761.00
59_D64_K1.3681.00
56_V60_Y1.3611.00
7_L32_L1.3511.00
27_I31_N1.3271.00
8_K12_Q1.3191.00
20_E23_E1.3111.00
41_D44_T1.2690.99
108_L112_A1.2670.99
35_Y40_R1.2580.99
18_Q32_L1.2090.99
5_K38_D1.1760.99
13_K68_S1.1750.99
32_L35_Y1.1610.99
9_E13_K1.1570.99
16_Y20_E1.1390.99
65_D68_S1.1300.99
25_L50_L1.1120.98
6_R64_K1.1070.98
21_A53_L1.0950.98
47_L58_T1.0940.98
22_A34_N1.0730.98
105_T108_L1.0710.98
28_G34_N1.0440.98
6_R9_E1.0430.98
25_L53_L1.0290.97
34_N37_R1.0280.97
6_R66_E1.0230.97
16_Y24_K1.0050.97
18_Q22_A0.9830.96
3_L44_T0.9690.96
18_Q29_N0.9460.96
22_A30_N0.9430.95
14_A53_L0.9330.95
97_N100_E0.9260.95
105_T112_A0.9150.95
19_K34_N0.9070.94
42_P59_D0.9030.94
107_R111_K0.8990.94
11_R18_Q0.8990.94
7_L21_A0.8930.94
35_Y43_D0.8910.94
20_E24_K0.8900.94
34_N43_D0.8880.94
97_N101_F0.8820.94
10_A13_K0.8670.93
30_N40_R0.8620.93
33_S40_R0.8370.92
33_S42_P0.8350.92
3_L61_L0.8250.91
28_G39_Y0.8190.91
18_Q36_E0.8140.91
108_L111_K0.8130.90
22_A32_L0.8030.90
31_N37_R0.8020.90
28_G33_S0.7980.90
48_L64_K0.7940.89
94_L99_G0.7910.89
14_A24_K0.7900.89
17_T20_E0.7890.89
29_N46_T0.7840.89
51_S63_G0.7790.89
27_I30_N0.7700.88
33_S37_R0.7680.88
14_A55_N0.7670.88
87_L91_D0.7670.88
94_L97_N0.7620.87
21_A25_L0.7570.87
101_F105_T0.7510.87
103_E106_A0.7500.87
22_A36_E0.7380.86
19_K33_S0.7370.86
17_T29_N0.7360.86
33_S43_D0.7290.85
30_N35_Y0.7070.83
60_Y68_S0.7050.83
26_N49_K0.6980.82
105_T111_K0.6980.82
29_N32_L0.6970.82
27_I35_Y0.6970.82
11_R22_A0.6920.82
31_N35_Y0.6860.81
98_D106_A0.6810.81
48_L51_S0.6780.81
3_L41_D0.6760.80
87_L97_N0.6750.80
107_R110_K0.6670.79
81_N88_K0.6660.79
3_L54_Y0.6630.79
102_D108_L0.6590.79
60_Y66_E0.6540.78
26_N30_N0.6540.78
103_E107_R0.6530.78
35_Y44_T0.6330.76
46_T49_K0.6220.75
93_L110_K0.6170.74
80_I84_I0.6160.74
93_L98_D0.6160.74
51_S58_T0.6150.74
28_G42_P0.6080.73
80_I83_A0.6010.72
29_N39_Y0.5880.70
5_K37_R0.5850.70
88_K97_N0.5780.69
17_T37_R0.5770.69
95_F101_F0.5730.68
79_T82_E0.5720.68
82_E88_K0.5660.68
65_D70_K0.5640.67
45_D48_L0.5630.67
92_T112_A0.5610.67
42_P46_T0.5510.65
79_T83_A0.5510.65
40_R44_T0.5430.64
81_N84_I0.5390.64
6_R10_A0.5370.63
19_K31_N0.5340.63
91_D109_V0.5320.63
48_L52_N0.5320.63
48_L58_T0.5300.62
101_F109_V0.5280.62
53_L56_V0.5280.62
47_L62_L0.5250.62
27_I50_L0.5250.62
29_N43_D0.5230.61
49_K52_N0.5170.61
96_M99_G0.5160.60
79_T84_I0.5160.60
47_L59_D0.5120.60
29_N37_R0.5100.60
79_T92_T0.5100.60
8_K39_Y0.5090.59
91_D96_M0.5040.59
46_T50_L0.5030.59
85_Q89_D0.5020.58
10_A60_Y0.5000.58
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 0.9134 99.8 0.377 Contact Map
3r1fA 2 0.9213 99.8 0.386 Contact Map
3qwgA 2 0.6378 99.7 0.399 Contact Map
3op9A 4 0.8268 99.7 0.406 Contact Map
4o8bA 2 0.7638 99.7 0.408 Contact Map
3ivpA 2 0.8425 99.7 0.411 Contact Map
1b0nA 2 0.8031 99.7 0.43 Contact Map
3u3wA 2 0.9685 99.7 0.431 Contact Map
4jcyA 2 0.6929 99.7 0.436 Contact Map
4yv9A 3 0.937 99.6 0.46 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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