GREMLIN Database
HYBF - Probable hydrogenase nickel incorporation protein HybF
UniProt: P0A703 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11804
Length: 113 (111)
Sequences: 1430 (1108)
Seq/√Len: 105.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_A63_H3.1581.00
48_F62_L2.8981.00
75_D96_R2.6901.00
32_E65_V2.5901.00
17_Q20_Q2.4471.00
32_E106_I2.3801.00
28_A61_D2.3291.00
52_C59_G2.2671.00
32_E108_K2.2311.00
78_Q91_L2.0731.00
54_G58_Q2.0381.00
48_F60_C2.0071.00
70_Q79_V1.9751.00
70_Q101_T1.9401.00
7_C44_V1.9231.00
35_A66_Y1.9071.00
30_W109_S1.8881.00
72_W79_V1.8721.00
14_I26_V1.8191.00
72_W77_S1.6941.00
74_W98_R1.6221.00
18_A23_V1.6211.00
18_A56_V1.6131.00
72_W98_R1.5451.00
25_R59_G1.5011.00
9_S13_I1.4611.00
43_A46_F1.4481.00
13_I107_V1.4461.00
6_L39_V1.4221.00
71_A97_L1.4121.00
30_W63_H1.3761.00
74_W96_R1.3370.99
43_A47_S1.2980.99
8_Q51_V1.2710.99
11_V57_A1.2500.99
12_E15_Q1.1940.99
10_A31_L1.1890.99
30_W65_V1.1800.99
71_A82_I1.1720.99
79_V100_D1.1720.99
33_I44_V1.1700.99
6_L38_C1.1630.98
15_Q19_E1.1580.98
71_A80_V1.1440.98
28_A111_E1.1370.98
72_W100_D1.1270.98
32_E67_K1.1140.98
14_I29_V1.1040.98
68_P81_E1.1010.98
67_K104_S1.0990.98
18_A26_V1.0960.98
14_I107_V1.0950.98
53_H58_Q1.0840.98
80_V90_P1.0500.97
17_Q21_H1.0380.97
35_A68_P1.0350.97
34_G102_G1.0270.97
75_D94_G1.0180.96
38_C47_S1.0160.96
11_V51_V1.0030.96
15_Q56_V0.9940.96
10_A107_V0.9800.96
45_R49_E0.9780.96
14_I23_V0.9780.96
101_T104_S0.9590.95
55_T58_Q0.9580.95
7_C43_A0.9540.95
29_V62_L0.9310.94
65_V108_K0.9280.94
107_V110_I0.9280.94
80_V97_L0.9270.94
41_E66_Y0.9200.94
9_S12_E0.9050.93
70_Q81_E0.8980.93
30_W108_K0.8920.93
6_L105_L0.8840.92
67_K101_T0.8800.92
39_V44_V0.8680.92
48_F52_C0.8680.92
11_V52_C0.8580.91
16_R19_E0.8540.91
26_V57_A0.8490.91
7_C51_V0.8250.90
4_L47_S0.8210.89
42_S45_R0.8070.89
38_C41_E0.7970.88
45_R61_D0.7970.88
7_C48_F0.7860.87
7_C10_A0.7850.87
49_E52_C0.7760.87
88_Q95_E0.7750.86
4_L51_V0.7720.86
57_A60_C0.7520.85
41_E45_R0.7510.85
14_I110_I0.7510.85
18_A57_A0.7490.85
35_A81_E0.7460.84
15_Q57_A0.7340.83
94_G97_L0.7210.82
47_S50_I0.7090.81
8_Q12_E0.7060.81
42_S46_F0.7050.81
29_V57_A0.7050.81
31_L64_I0.6990.80
24_K56_V0.6860.79
7_C47_S0.6780.78
18_A21_H0.6730.78
15_Q55_T0.6690.77
82_I97_L0.6690.77
7_C62_L0.6620.77
69_A99_V0.6550.76
14_I18_A0.6440.75
45_R64_I0.6430.74
67_K108_K0.6420.74
4_L43_A0.6360.74
11_V15_Q0.6350.74
45_R66_Y0.6320.73
35_A69_A0.6240.72
16_R20_Q0.6230.72
8_Q57_A0.6200.72
37_S43_A0.6180.72
23_V110_I0.6120.71
7_C37_S0.6080.70
10_A14_I0.6050.70
14_I56_V0.6030.70
47_S52_C0.5950.69
38_C43_A0.5880.68
13_I17_Q0.5840.67
33_I105_L0.5840.67
7_C46_F0.5840.67
24_K78_Q0.5830.67
6_L44_V0.5790.67
5_S38_C0.5740.66
69_A87_A0.5730.66
27_T111_E0.5670.65
36_L69_A0.5660.65
82_I87_A0.5640.65
5_S8_Q0.5630.64
5_S9_S0.5630.64
52_C57_A0.5590.64
41_E44_V0.5550.63
52_C62_L0.5480.62
40_E110_I0.5480.62
26_V56_V0.5470.62
74_W95_E0.5460.62
48_F111_E0.5390.61
13_I106_I0.5390.61
88_Q93_H0.5330.60
46_F51_V0.5330.60
82_I103_D0.5310.60
48_F57_A0.5310.60
74_W94_G0.5280.60
11_V55_T0.5230.59
40_E105_L0.5230.59
52_C55_T0.5210.59
35_A101_T0.5200.58
19_E22_D0.5200.58
50_I53_H0.5170.58
5_S37_S0.5120.57
20_Q26_V0.5080.57
19_E91_L0.5060.56
40_E43_A0.5060.56
25_R91_L0.5030.56
19_E23_V0.5030.56
89_C92_C0.5010.56
17_Q57_A0.5000.55
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  
5aunA 1 1 100 0.062 Contact Map
2kdxA 1 1 100 0.079 Contact Map
2k2dA 1 0.3982 99 0.67 Contact Map
4qiwP 1 0.3451 97.2 0.796 Contact Map
1lkoA 3 0.885 96.8 0.807 Contact Map
3pwfA 4 0.8319 96.6 0.811 Contact Map
2lcqA 1 0.9115 96.3 0.818 Contact Map
1yuzA 2 0.7965 96.2 0.819 Contact Map
4aybP 1 0.3451 94.6 0.838 Contact Map
3wwlA 1 0.3894 88.1 0.865 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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