GREMLIN Database
Q9HMM5 - Nitrogen fixation protein
UniProt: Q9HMM5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 142 (120)
Sequences: 2627 (1319)
Seq/√Len: 120.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_D57_A4.8861.00
20_R78_E3.5651.00
75_M99_M3.3501.00
21_N81_P2.9281.00
84_T87_E2.7441.00
83_M87_E2.6561.00
25_L60_A2.5301.00
58_H81_P2.4471.00
33_E44_E2.3091.00
24_E62_R2.2521.00
21_N77_S2.2271.00
14_D20_R2.1731.00
59_V80_L2.1161.00
48_A58_H2.0281.00
56_I88_V1.9091.00
23_G60_A1.8271.00
55_T84_T1.8101.00
48_A57_A1.7841.00
80_L119_V1.7791.00
29_S48_A1.6871.00
24_E46_D1.6521.00
46_D60_A1.6241.00
49_L85_L1.6111.00
34_G118_V1.6091.00
15_H74_S1.5871.00
27_E48_A1.5761.00
73_A115_S1.5471.00
74_S77_S1.4931.00
15_H20_R1.4841.00
61_F77_S1.4831.00
85_L123_A1.4761.00
76_L119_V1.4471.00
87_E90_A1.4141.00
20_R74_S1.4051.00
33_E42_E1.3471.00
30_F122_G1.3201.00
21_N74_S1.2721.00
12_I68_I1.2651.00
31_T46_D1.2460.99
59_V77_S1.2440.99
89_D120_Q1.2160.99
25_L46_D1.1910.99
75_M96_I1.1700.99
75_M79_E1.1610.99
32_H45_F1.1500.99
120_Q124_E1.1200.99
97_L109_I1.1120.99
42_E64_D1.1110.99
9_R13_L1.0980.99
22_Q70_Q1.0970.99
76_L116_E1.0950.99
89_D124_E1.0760.98
85_L89_D1.0700.98
89_D127_T1.0570.98
32_H118_V1.0360.98
22_Q63_G1.0290.98
124_E127_T0.9960.97
119_V123_A0.9760.97
15_H78_E0.9620.97
47_V59_V0.9550.97
68_I112_A0.9420.96
95_D98_D0.9400.96
125_I129_D0.9380.96
36_N106_P0.9220.96
25_L29_S0.9090.95
72_S116_E0.9010.95
21_N78_E0.8990.95
43_L63_G0.8780.95
50_D53_G0.8760.94
109_I113_V0.8620.94
9_R101_G0.8540.94
24_E60_A0.8510.94
11_Q98_D0.8360.93
45_F76_L0.8240.92
56_I119_V0.8220.92
101_G104_V0.8220.92
80_L88_V0.8200.92
20_R77_S0.8190.92
29_S49_L0.8170.92
34_G67_A0.8170.92
113_V117_K0.8160.92
61_F69_S0.8120.92
68_I72_S0.8100.92
35_Y42_E0.8080.92
31_T44_E0.8020.91
50_D55_T0.8010.91
8_Y40_G0.7970.91
86_A89_D0.7950.91
77_S81_P0.7830.90
79_E91_L0.7810.90
13_L17_R0.7790.90
22_Q62_R0.7740.90
79_E83_M0.7690.90
39_C114_L0.7640.89
39_C110_K0.7500.88
100_L103_E0.7460.88
72_S115_S0.7450.88
104_V120_Q0.7300.87
15_H19_P0.7280.87
86_A127_T0.7260.87
71_A99_M0.7230.87
19_P74_S0.7100.86
124_E128_G0.7010.85
121_D124_E0.6990.85
25_L48_A0.6980.85
30_F125_I0.6960.84
100_L104_V0.6850.83
88_V119_V0.6830.83
11_Q14_D0.6780.83
97_L113_V0.6690.82
28_P84_T0.6630.81
76_L80_L0.6630.81
125_I128_G0.6600.81
68_I108_R0.6580.81
23_G58_H0.6550.81
36_N63_G0.6510.80
79_E96_I0.6500.80
56_I80_L0.6490.80
38_S96_I0.6480.80
67_A109_I0.6480.80
34_G121_D0.6430.79
51_D86_A0.6420.79
103_E106_P0.6350.79
109_I114_L0.6330.78
63_G69_S0.6320.78
36_N68_I0.6320.78
46_D62_R0.6310.78
9_R17_R0.6300.78
110_K114_L0.6270.78
69_S108_R0.6230.77
23_G62_R0.6210.77
65_G69_S0.6160.76
89_D123_A0.6140.76
9_R109_I0.6120.76
49_L122_G0.6110.76
25_L61_F0.5990.74
35_Y121_D0.5980.74
51_D55_T0.5980.74
12_I71_A0.5980.74
22_Q61_F0.5890.73
40_G65_G0.5850.73
14_D18_N0.5830.72
59_V74_S0.5810.72
44_E62_R0.5790.72
24_E31_T0.5780.72
106_P110_K0.5740.71
101_G122_G0.5720.71
30_F47_V0.5710.71
63_G108_R0.5640.70
76_L91_L0.5620.70
79_E99_M0.5510.68
37_P40_G0.5480.68
68_I110_K0.5470.68
101_G112_A0.5450.67
36_N116_E0.5450.67
84_T123_A0.5450.67
76_L115_S0.5430.67
11_Q16_Y0.5390.67
26_P128_G0.5390.67
17_R67_A0.5360.66
19_P22_Q0.5280.65
83_M91_L0.5280.65
42_E109_I0.5260.65
11_Q109_I0.5260.65
11_Q99_M0.5230.64
101_G117_K0.5220.64
15_H21_N0.5210.64
48_A55_T0.5190.64
49_L57_A0.5170.63
98_D103_E0.5160.63
39_C66_C0.5120.63
101_G105_T0.5120.63
9_R117_K0.5090.62
56_I59_V0.5090.62
63_G68_I0.5080.62
9_R105_T0.5060.62
12_I98_D0.5040.61
86_A92_D0.5040.61
15_H77_S0.5020.61
107_M115_S0.5000.61
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  
1su0B 1 0.838 100 0.169 Contact Map
1xjsA 1 0.8944 100 0.17 Contact Map
2qq4A 5 0.8592 100 0.186 Contact Map
2z7eA 5 0.9366 100 0.188 Contact Map
3lvlA 1 0.8592 100 0.194 Contact Map
4eb5C 1 0.9085 100 0.213 Contact Map
3g0mA 1 0.838 97.1 0.848 Contact Map
2e5aA 1 0.7183 71.2 0.914 Contact Map
3a7rA 1 0.7746 52 0.924 Contact Map
4lw4C 1 0.8451 51.4 0.924 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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