GREMLIN Database
YUTI - Putative nitrogen fixation protein YutI
UniProt: O32119 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 111 (88)
Sequences: 706 (358)
Seq/√Len: 38.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
94_E98_L3.7571.00
71_V97_L3.6121.00
54_L80_G2.8681.00
54_L83_P2.7641.00
40_K44_Q2.4961.00
70_I106_E2.4551.00
53_F61_C2.0640.99
47_L93_I2.0580.99
36_E44_Q1.9250.98
73_L108_E1.8750.98
96_A100_E1.8410.98
60_D100_E1.8390.98
55_L60_D1.8310.98
64_V74_R1.7560.97
36_E40_K1.7250.97
49_K100_E1.7230.97
43_V66_V1.7220.97
61_C93_I1.7110.96
80_G83_P1.7070.96
78_A81_S1.6310.95
53_F78_A1.6020.95
73_L109_Q1.5950.95
76_L80_G1.5830.94
87_I91_A1.5370.94
86_T93_I1.3920.90
36_E46_V1.3460.88
54_L102_P1.3130.87
49_K99_E1.3090.86
54_L61_C1.3030.86
47_L72_K1.3010.86
55_L81_S1.2720.85
83_P102_P1.2430.83
72_K108_E1.1950.81
53_F94_E1.1780.80
46_V49_K1.1190.76
49_K73_L1.0730.73
23_N67_D1.0640.73
30_G64_V1.0490.72
93_I107_V1.0470.71
25_F28_T1.0440.71
76_L81_S1.0360.71
37_V40_K1.0270.70
25_F29_K1.0160.69
54_L95_R1.0080.68
69_G104_V1.0070.68
84_S87_I0.9770.66
45_E96_A0.9770.66
23_N27_T0.9550.64
95_R102_P0.9280.62
27_T31_A0.9030.60
79_C82_C0.8920.59
105_V108_E0.8880.59
70_I105_V0.8820.58
44_Q63_L0.8790.58
37_V47_L0.8710.57
42_Q50_L0.8590.56
32_N36_E0.8550.56
26_M33_V0.8460.55
61_C80_G0.8460.55
24_G27_T0.8300.53
89_L93_I0.8220.53
55_L74_R0.8100.52
26_M29_K0.7920.50
50_L86_T0.7860.49
37_V60_D0.7570.47
101_V105_V0.7560.47
62_E106_E0.7410.45
42_Q56_R0.7350.45
48_D76_L0.7310.45
25_F35_T0.7270.44
49_K60_D0.7260.44
83_P86_T0.7130.43
62_E74_R0.7070.42
63_L95_R0.6960.41
62_E75_L0.6930.41
79_C88_T0.6850.41
34_M50_L0.6830.40
66_V103_G0.6730.39
48_D86_T0.6580.38
31_A39_M0.6580.38
98_L105_V0.6570.38
90_K94_E0.6510.38
32_N41_E0.6460.37
35_T46_V0.6430.37
28_T33_V0.6420.37
50_L64_V0.6360.36
32_N47_L0.6330.36
65_D72_K0.6270.36
42_Q49_K0.6210.35
62_E95_R0.6190.35
23_N26_M0.6190.35
30_G109_Q0.6180.35
25_F30_G0.6170.35
55_L99_E0.6160.35
33_V36_E0.6080.34
31_A35_T0.6080.34
54_L81_S0.6080.34
57_D79_C0.6070.34
36_E69_G0.5950.33
76_L109_Q0.5940.33
40_K66_V0.5910.33
62_E76_L0.5900.33
84_S90_K0.5900.33
54_L62_E0.5900.33
34_M40_K0.5890.33
34_M63_L0.5870.32
66_V104_V0.5810.32
29_K33_V0.5780.32
82_C88_T0.5740.31
23_N31_A0.5690.31
60_D76_L0.5650.31
29_K32_N0.5600.30
40_K60_D0.5590.30
37_V41_E0.5570.30
39_M103_G0.5530.30
45_E48_D0.5480.29
25_F68_E0.5460.29
38_E43_V0.5410.29
30_G34_M0.5410.29
87_I98_L0.5340.28
56_R103_G0.5340.28
74_R103_G0.5330.28
23_N28_T0.5320.28
84_S92_G0.5270.28
105_V110_V0.5240.28
85_S89_L0.5170.27
81_S86_T0.5170.27
45_E49_K0.5170.27
40_K63_L0.5140.27
80_G98_L0.5120.27
24_G29_K0.5100.27
70_I102_P0.5000.26
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  
1vehA 1 0.7748 100 0.369 Contact Map
1xhjA 1 0.7207 100 0.374 Contact Map
2m5oA 1 0.8198 100 0.383 Contact Map
2z51A 2 0.6937 99.9 0.402 Contact Map
1th5A 1 0.6577 99.9 0.497 Contact Map
3lnoA 1 0.7207 98.1 0.792 Contact Map
1uwdA 1 0.6847 97.5 0.816 Contact Map
3cq1A 2 0.6757 97.4 0.82 Contact Map
3ux2A 2 0.7568 68.7 0.904 Contact Map
4q2lA 1 0.3423 33.5 0.923 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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