GREMLIN Database
NRGB - Nitrogen regulatory PII-like protein
UniProt: Q07428 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 116 (112)
Sequences: 2950 (1594)
Seq/√Len: 150.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
102_N111_E4.4301.00
102_N112_G3.6091.00
68_V100_I3.5291.00
69_V77_V3.1131.00
70_S113_P2.7041.00
16_N19_K2.4701.00
73_P76_Q2.4281.00
20_L85_L2.3211.00
82_K86_K2.2871.00
27_I80_T2.2521.00
10_I81_A2.2341.00
33_T37_V2.1281.00
9_E98_Y2.0201.00
80_T84_V1.9711.00
79_E83_R1.9101.00
78_T97_V1.8301.00
70_S73_P1.7761.00
75_D79_E1.6651.00
12_T20_L1.6641.00
7_K68_V1.6261.00
17_F34_F1.5871.00
35_S66_E1.5791.00
6_F71_K1.4151.00
20_L65_I1.4031.00
76_Q80_T1.3791.00
35_S64_K1.3191.00
71_K113_P1.3011.00
8_V77_V1.2991.00
78_T95_I1.2951.00
79_E82_K1.2511.00
76_Q83_R1.2321.00
22_Q26_K1.2191.00
82_K111_E1.2151.00
9_E64_K1.2131.00
6_F99_E1.2001.00
8_V69_V1.1981.00
6_F101_S1.1891.00
7_K98_Y1.1891.00
12_T65_I1.1751.00
82_K95_I1.1651.00
68_V96_F1.1581.00
23_E26_K1.1561.00
11_V33_T1.1351.00
34_F59_V1.1210.99
21_K32_L1.1200.99
6_F74_V1.1190.99
23_E83_R1.1120.99
75_D111_E1.1070.99
105_N110_E1.0950.99
69_V74_V1.0950.99
75_D102_N1.0930.99
74_V78_T1.0760.99
43_Q60_Y1.0740.99
82_K104_I1.0650.99
6_F97_V1.0650.99
86_K109_G1.0460.99
9_E68_V1.0350.99
12_T17_F1.0240.99
23_E84_V0.9930.99
13_R90_P0.9930.99
24_L67_I0.9930.99
43_Q62_R0.9890.99
96_F106_I0.9840.99
17_F63_L0.9650.98
25_G40_C0.9550.98
46_H58_N0.9480.98
107_R110_E0.9470.98
40_C46_H0.9340.98
88_G92_D0.9280.98
76_Q79_E0.9230.98
27_I76_Q0.9120.98
8_V81_A0.9010.98
67_I77_V0.9000.98
13_R37_V0.8950.97
29_V67_I0.8900.97
73_P77_V0.8790.97
5_M71_K0.8690.97
87_T92_D0.8520.97
23_E80_T0.8510.97
40_C58_N0.8440.96
78_T104_I0.8400.96
51_R55_I0.8340.96
103_T115_A0.8320.96
31_S40_C0.7930.95
104_I111_E0.7900.95
11_V96_F0.7710.94
17_F58_N0.7670.94
24_L81_A0.7390.93
47_T54_K0.7340.92
50_Y53_V0.7240.92
40_C59_V0.7230.92
46_H53_V0.7180.92
10_I85_L0.7180.92
64_K96_F0.7180.92
10_I67_I0.7140.91
49_L89_S0.7140.91
20_L84_V0.7100.91
32_L65_I0.7090.91
15_A19_K0.7040.91
7_K100_I0.6960.90
29_V77_V0.6960.90
45_A62_R0.6850.90
46_H49_L0.6830.89
37_V64_K0.6640.88
41_G94_K0.6620.88
5_M12_T0.6550.87
31_S103_T0.6520.87
9_E66_E0.6480.87
24_L77_V0.6480.87
17_F59_V0.6430.86
19_K84_V0.6380.86
25_G44_K0.6320.86
12_T81_A0.6300.85
96_F103_T0.6300.85
49_L54_K0.6270.85
21_K58_N0.6250.85
70_S77_V0.6190.84
12_T16_N0.6150.84
42_L48_E0.6140.84
71_K74_V0.6120.84
36_N63_L0.6110.84
75_D82_K0.6100.83
15_A60_Y0.6010.83
26_K83_R0.5990.82
74_V99_E0.5970.82
49_L53_V0.5900.81
83_R86_K0.5900.81
40_C106_I0.5870.81
74_V102_N0.5870.81
54_K89_S0.5800.80
7_K96_F0.5770.80
21_K25_G0.5740.80
43_Q90_P0.5680.79
57_S116_L0.5610.78
49_L55_I0.5570.78
17_F56_E0.5570.78
38_H50_Y0.5570.78
9_E103_T0.5550.77
34_F65_I0.5490.77
74_V97_V0.5480.76
72_V83_R0.5470.76
104_I115_A0.5470.76
33_T48_E0.5460.76
17_F65_I0.5430.76
61_E89_S0.5420.76
49_L58_N0.5410.76
15_A59_V0.5410.76
47_T56_E0.5410.76
95_I104_I0.5390.75
83_R111_E0.5370.75
24_L65_I0.5370.75
32_L66_E0.5370.75
46_H54_K0.5360.75
13_R89_S0.5340.75
24_L76_Q0.5320.74
80_T83_R0.5260.73
29_V46_H0.5250.73
13_R86_K0.5240.73
13_R49_L0.5200.73
52_G55_I0.5190.73
18_E32_L0.5180.72
45_A60_Y0.5160.72
81_A85_L0.5140.72
7_K66_E0.5110.71
15_A55_I0.5080.71
78_T82_K0.5060.71
12_T72_V0.5000.70
31_S60_Y0.5000.70
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  
4ozjA 3 0.8793 100 0.2 Contact Map
2o66A 5 0.8707 100 0.204 Contact Map
3t9zA 3 0.8448 100 0.207 Contact Map
3ncqA 4 0.9655 100 0.216 Contact Map
4r25A 3 0.9828 100 0.22 Contact Map
1hwuA 6 0.9224 100 0.225 Contact Map
3bzqA 3 0.8534 100 0.225 Contact Map
1vfjA 3 0.9655 100 0.228 Contact Map
3l7pA 4 0.8017 100 0.232 Contact Map
2j9cA 3 0.9828 100 0.238 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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