GREMLIN Database
ABRB - Transition state regulatory protein AbrB
UniProt: P08874 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 96 (79)
Sequences: 836 (471)
Seq/√Len: 53.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
59_T77_S4.7891.00
77_S80_G4.7241.00
22_I26_R3.7681.00
59_T80_G3.7201.00
30_I36_L2.0991.00
56_C59_T2.0151.00
41_D44_K1.9571.00
56_C80_G1.9170.99
14_E33_K1.8890.99
26_R31_A1.8780.99
11_K14_E1.8490.99
39_Y48_K1.7850.99
31_A34_D1.7190.99
77_S81_A1.5530.98
61_E79_E1.4680.97
32_E38_I1.4610.97
33_K38_I1.3610.95
66_N78_K1.3550.95
44_K48_K1.3190.94
26_R34_D1.3060.94
71_G83_Q1.2890.93
82_E86_S1.2490.92
6_T27_T1.2420.92
56_C77_S1.2280.91
5_S52_P1.1930.90
14_E22_I1.1620.89
57_Q70_A1.1510.89
9_V45_I1.1300.88
58_V70_A1.1150.87
57_Q75_V1.1120.87
42_D82_E1.1010.86
58_V73_K1.0730.85
58_V62_V1.0320.82
29_G84_I1.0310.82
71_G84_I1.0110.81
8_I23_E0.9900.80
30_I49_K0.9890.80
20_I24_L0.9800.79
78_K82_E0.9700.78
80_G85_I0.9570.77
55_T59_T0.9250.75
6_T40_V0.9070.73
81_A85_I0.9050.73
12_V19_V0.8820.71
45_I66_N0.8750.71
79_E82_E0.8580.69
44_K63_S0.8380.67
9_V26_R0.8370.67
31_A44_K0.8340.67
69_L72_G0.8310.67
77_S85_I0.8300.67
48_K70_A0.8160.65
79_E83_Q0.8130.65
56_C60_G0.8050.64
8_I27_T0.7860.62
63_S78_K0.7750.61
58_V75_V0.7710.61
20_I33_K0.7700.61
36_L52_P0.7650.60
46_I72_G0.7640.60
58_V69_L0.7610.60
58_V80_G0.7610.60
16_G25_R0.7560.59
57_Q63_S0.7530.59
79_E84_I0.7500.59
11_K31_A0.7480.59
55_T62_V0.7440.58
15_L24_L0.7190.56
41_D47_L0.7060.54
67_L85_I0.7020.54
12_V22_I0.6930.53
33_K45_I0.6860.52
51_K68_K0.6840.52
13_D17_R0.6730.51
43_E61_E0.6630.50
18_V22_I0.6540.49
70_A85_I0.6530.49
12_V86_S0.6460.48
41_D46_I0.6270.46
69_L74_L0.6240.46
58_V67_L0.6220.45
18_V32_E0.6210.45
3_M6_T0.6150.45
5_S14_E0.6150.45
62_V67_L0.6070.44
31_A51_K0.6070.44
67_L74_L0.6050.44
8_I30_I0.6010.43
32_E46_I0.5970.43
30_I34_D0.5940.43
77_S83_Q0.5930.42
28_L40_V0.5930.42
5_S45_I0.5920.42
35_A50_Y0.5870.42
20_I57_Q0.5870.42
57_Q85_I0.5850.42
56_C70_A0.5760.41
67_L72_G0.5710.40
24_L86_S0.5690.40
21_P37_E0.5660.40
4_K42_D0.5660.40
51_K81_A0.5660.40
71_G81_A0.5590.39
80_G84_I0.5560.39
39_Y69_L0.5490.38
7_G23_E0.5460.38
28_L45_I0.5450.38
28_L35_A0.5420.37
27_T32_E0.5310.36
51_K55_T0.5310.36
61_E71_G0.5150.35
4_K24_L0.5140.35
15_L83_Q0.5140.35
3_M22_I0.5120.34
43_E71_G0.5110.34
6_T23_E0.5090.34
22_I35_A0.5070.34
38_I47_L0.5000.33
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  
2w1tA 2 0.9375 99.6 0.583 Contact Map
1yfbA 2 0.5417 99.4 0.631 Contact Map
2mrnA 2 0.5521 98.7 0.723 Contact Map
2l66A 2 0.5312 98.6 0.733 Contact Map
3o27A 2 0.5625 98 0.774 Contact Map
2mjgA 2 0.4792 97.7 0.789 Contact Map
1mvfD 1 0.4583 97.5 0.798 Contact Map
2glwA 1 0.5 97.4 0.799 Contact Map
1n0eA 5 0.75 76.4 0.888 Contact Map
3zvkE 2 0.5938 42.9 0.91 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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