GREMLIN Database
HYBG - Hydrogenase-2 operon protein HybG
UniProt: P0AAM7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11805
Length: 82 (76)
Sequences: 326 (190)
Seq/√Len: 21.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
22_V51_V3.4331.00
20_A33_I3.1861.00
23_E28_K2.6500.99
24_V51_V2.5500.98
47_Q59_I2.4150.97
53_V56_A2.3100.97
13_G21_Q1.9620.92
7_G24_V1.8770.90
67_A70_D1.8620.90
3_I27_I1.8360.89
7_G72_L1.7550.87
32_N72_L1.7250.86
24_V72_L1.6490.83
4_G68_T1.6040.81
37_C41_P1.6000.81
46_G60_I1.5920.81
58_S62_E1.5730.80
53_V64_E1.5720.80
23_E57_M1.5580.79
63_D67_A1.4490.74
36_I58_S1.4420.73
21_Q30_D1.3770.70
19_L30_D1.3710.69
2_C6_P1.3170.66
1_M6_P1.3170.66
64_E67_A1.3050.66
34_A72_L1.2520.62
57_M60_I1.2050.59
35_L59_I1.2020.59
31_V51_V1.2000.59
12_V39_G1.1990.59
61_D68_T1.1460.55
8_Q14_E1.0770.51
49_V67_A1.0660.50
10_L47_Q1.0560.49
12_V35_L1.0360.48
20_A56_A1.0170.47
28_K71_A0.9900.45
3_I47_Q0.9850.44
28_K46_G0.9700.43
36_I47_Q0.9590.43
4_G7_G0.9530.42
17_H31_V0.9520.42
4_G51_V0.9440.42
33_I36_I0.9360.41
39_G43_D0.9280.41
13_G19_L0.9080.39
5_V77_Y0.9060.39
39_G62_E0.8990.39
63_D70_D0.8990.39
51_V56_A0.8820.38
38_E43_D0.8690.37
62_E66_K0.8640.37
4_G48_W0.8610.36
4_G36_I0.8580.36
18_Q33_I0.8510.36
21_Q67_A0.8400.35
9_V56_A0.8240.34
32_N58_S0.8090.33
3_I6_P0.7910.32
58_S64_E0.7620.30
58_S76_D0.7480.30
21_Q60_I0.7410.29
11_A43_D0.7230.28
3_I10_L0.7200.28
8_Q23_E0.7150.28
23_E49_V0.7130.28
17_H69_L0.7090.28
35_L43_D0.6830.26
4_G37_C0.6820.26
32_N36_I0.6810.26
42_A67_A0.6730.26
7_G25_C0.6720.26
27_I60_I0.6530.25
10_L23_E0.6490.24
51_V68_T0.6460.24
17_H30_D0.6380.24
11_A21_Q0.6350.24
48_W76_D0.6260.23
33_I41_P0.6230.23
7_G23_E0.6190.23
19_L61_D0.6180.23
10_L63_D0.6150.23
47_Q76_D0.6120.23
5_V24_V0.6070.22
56_A64_E0.6040.22
9_V70_D0.5890.22
20_A53_V0.5890.22
57_M71_A0.5870.21
11_A28_K0.5810.21
9_V16_I0.5800.21
23_E62_E0.5780.21
19_L34_A0.5760.21
40_N51_V0.5720.21
34_A59_I0.5640.20
68_T72_L0.5600.20
8_Q18_Q0.5540.20
40_N57_M0.5430.19
8_Q17_H0.5390.19
58_S71_A0.5370.19
22_V43_D0.5350.19
31_V56_A0.5350.19
9_V38_E0.5340.19
11_A18_Q0.5320.19
24_V76_D0.5300.19
15_D43_D0.5260.19
42_A66_K0.5230.19
5_V59_I0.5140.18
62_E70_D0.5130.18
55_F64_E0.5130.18
9_V15_D0.5080.18
18_Q32_N0.5020.18
49_V68_T0.5020.18
28_K66_K0.5000.18
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  
2ot2A 1 0.9634 100 0.29 Contact Map
3d3rA 4 0.9268 100 0.292 Contact Map
2z1cA 1 0.9024 99.9 0.322 Contact Map
1u0lA 1 0.8049 33.3 0.913 Contact Map
1ixrA 4 0.9146 14 0.927 Contact Map
3kfuF 2 0.878 11.8 0.93 Contact Map
2ztdA 4 0.939 10.5 0.931 Contact Map
2tpsA 1 0.378 10.2 0.931 Contact Map
2wfwA 3 0.9268 9.4 0.932 Contact Map
1cukA 3 0.9268 8.9 0.933 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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