GREMLIN Database
Sigma_reg_N - Sigma factor regulator N-terminal
PFAM: PF13800 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 90 (88)
Sequences: 528 (420)
Seq/√Len: 44.8
META: 0.424

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_K9_R3.9101.00
33_T37_Y3.7361.00
23_F27_L3.4581.00
23_F26_L3.2041.00
24_L28_I2.6891.00
59_N83_K2.5521.00
40_K66_S2.2401.00
8_K12_R2.2251.00
70_T76_T2.0570.99
11_S14_R1.9440.99
34_N41_R1.9120.99
83_K87_G1.8830.99
9_R12_R1.8440.99
64_S82_Y1.5400.96
64_S69_N1.5120.95
16_I19_S1.5020.95
71_G75_G1.4950.95
37_Y73_F1.4910.95
41_R44_K1.4880.95
16_I53_I1.4620.95
12_R21_I1.3280.91
54_E57_E1.2540.88
50_S77_I1.2270.87
39_S44_K1.2030.86
8_K85_I1.1990.86
18_I22_V1.1680.85
20_L25_I1.1660.85
14_R67_T1.1510.84
45_L54_E1.1470.84
11_S78_E1.1460.83
5_K12_R1.1450.83
13_L21_I1.1400.83
31_I35_N1.1380.83
64_S68_D1.1350.83
16_I22_V1.1310.83
60_I81_L1.0990.81
17_L24_L1.0690.79
53_I57_E1.0680.79
22_V52_A1.0400.77
41_R45_L1.0370.77
16_I23_F1.0230.76
2_K28_I1.0180.75
48_V52_A1.0040.74
16_I44_K1.0020.74
42_S71_G0.9950.74
53_I86_G0.9880.73
53_I56_T0.9770.72
9_R20_L0.9730.72
51_L55_I0.9560.71
76_T79_Y0.9380.69
19_S87_G0.9320.69
52_A55_I0.9240.68
55_I83_K0.9220.68
10_K85_I0.9070.67
2_K9_R0.9060.67
42_S75_G0.8970.66
81_L87_G0.8870.65
12_R15_T0.8760.64
25_I72_F0.8640.63
80_D83_K0.8620.63
2_K23_F0.8590.62
44_K60_I0.8500.62
56_T65_G0.8430.61
53_I81_L0.8400.61
7_A14_R0.8340.60
14_R18_I0.8260.59
6_K29_I0.8120.58
3_I42_S0.8100.58
26_L80_D0.7850.55
51_L54_E0.7840.55
15_T74_G0.7820.55
8_K70_T0.7810.55
3_I7_A0.7710.54
23_F31_I0.7590.53
4_L7_A0.7360.51
50_S65_G0.7310.50
29_I36_Y0.7140.49
11_S88_K0.7080.48
33_T36_Y0.7070.48
8_K75_G0.6990.47
14_R19_S0.6980.47
13_L47_D0.6930.47
46_R50_S0.6910.46
24_L63_D0.6870.46
43_N68_D0.6690.44
32_I36_Y0.6640.44
34_N38_T0.6630.44
16_I20_L0.6590.43
25_I38_T0.6490.42
43_N78_E0.6480.42
11_S85_I0.6430.42
18_I21_I0.6430.42
50_S54_E0.6420.42
32_I42_S0.6210.40
9_R14_R0.6180.39
77_I85_I0.6180.39
13_L64_S0.6160.39
14_R61_Y0.6100.39
46_R77_I0.6090.39
47_D51_L0.6090.39
35_N82_Y0.6030.38
35_N89_P0.6000.38
41_R56_T0.5960.37
30_L77_I0.5820.36
20_L62_I0.5780.36
17_L25_I0.5780.36
17_L21_I0.5750.36
3_I40_K0.5700.35
46_R71_G0.5640.35
54_E74_G0.5610.34
23_F32_I0.5600.34
84_N88_K0.5590.34
65_G68_D0.5570.34
69_N82_Y0.5530.34
7_A86_G0.5500.33
56_T84_N0.5440.33
41_R51_L0.5370.32
84_N89_P0.5360.32
47_D61_Y0.5320.32
7_A34_N0.5260.31
60_I74_G0.5250.31
49_I84_N0.5240.31
16_I26_L0.5240.31
56_T87_G0.5220.31
27_L40_K0.5190.31
84_N87_G0.5190.31
4_L56_T0.5130.30
39_S42_S0.5110.30
71_G81_L0.5090.30
13_L89_P0.5050.30
48_V89_P0.5020.29
10_K84_N0.5000.29
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  
2kogA 1 0.4333 71.4 0.798 Contact Map
1rz2A 1 0.5333 52.2 0.821 Contact Map
3hd7A 1 0.4333 50.8 0.822 Contact Map
2m8rA 1 0.4111 22.2 0.854 Contact Map
2e84A 1 0.5556 15 0.865 Contact Map
4v3iA 2 0 11.2 0.872 Contact Map
3fymA 1 0 10.9 0.873 Contact Map
3j6dA 3 0.4778 10.2 0.874 Contact Map
3j39U 1 0.4556 8.9 0.877 Contact Map
2bs2C 2 0.6333 7.3 0.882 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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