GREMLIN Database
YCII - Protein YciI
UniProt: P0AB55 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11607
Length: 98 (93)
Sequences: 781 (443)
Seq/√Len: 45.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
2_L38_L3.8801.00
39_T62_I3.2971.00
15_E19_S3.1431.00
4_V60_T2.7861.00
8_Q90_S2.7661.00
4_V43_M2.6111.00
6_Y43_M2.3181.00
66_E70_A2.2681.00
72_Q76_D2.2541.00
29_Q32_H2.2191.00
67_S70_A2.1551.00
80_Y97_V1.9800.99
7_A61_V1.8540.99
43_M60_T1.8420.99
8_Q88_H1.8060.99
30_L34_E1.7460.98
15_E18_L1.7160.98
14_L18_L1.7030.98
68_L72_Q1.6720.98
39_T94_F1.6410.97
25_L29_Q1.6340.97
10_K13_S1.6060.97
69_E72_Q1.5940.97
29_Q33_D1.5930.97
26_A29_Q1.5860.97
38_L96_K1.5340.96
23_A26_A1.5300.96
69_E73_A1.4490.95
77_A82_A1.4430.95
3_Y47_D1.4400.94
78_D81_V1.3550.92
42_P97_V1.3280.92
13_S16_K1.2870.90
45_A57_T1.2750.90
73_A77_A1.2210.88
43_M92_K1.2050.87
49_N95_K1.1650.85
28_L37_L1.1450.84
16_K19_S1.1090.82
27_R65_F1.0430.78
71_A75_A1.0400.78
11_A87_E1.0370.78
20_V81_V1.0190.77
7_A43_M0.9920.75
28_L86_Y0.9860.74
20_V80_Y0.9410.71
27_R77_A0.9260.69
12_D16_K0.8770.65
16_K20_V0.8770.65
10_K16_K0.8740.65
7_A10_K0.8610.64
37_L40_A0.8600.64
5_I91_V0.8600.64
26_A30_L0.8560.63
81_V86_Y0.8520.63
42_P80_Y0.8480.62
45_A48_S0.8270.60
57_T92_K0.8110.59
18_L23_A0.7940.57
4_V89_V0.7890.57
17_R24_H0.7880.57
66_E88_H0.7880.57
31_L74_W0.7860.57
35_G74_W0.7860.57
10_K95_K0.7720.55
36_R65_F0.7470.53
9_D17_R0.7430.52
20_V23_A0.7260.51
69_E88_H0.7250.51
10_K87_E0.7230.50
9_D24_H0.7200.50
43_M57_T0.7200.50
4_V62_I0.7190.50
25_L97_V0.7190.50
8_Q92_K0.7100.49
12_D15_E0.7070.49
34_E70_A0.7060.49
45_A54_A0.7050.49
6_Y90_S0.6820.46
47_D68_L0.6760.46
55_G91_V0.6700.45
5_I75_A0.6650.45
14_L56_F0.6630.45
37_L63_A0.6620.44
33_D64_E0.6460.43
6_Y60_T0.6440.43
62_I94_F0.6360.42
26_A82_A0.6300.41
25_L28_L0.6280.41
75_A97_V0.6230.41
8_Q87_E0.6230.41
10_K88_H0.6220.41
7_A91_V0.6220.41
11_A66_E0.6210.41
8_Q57_T0.6160.40
27_R63_A0.6150.40
7_A81_V0.6120.40
8_Q11_A0.6040.39
2_L48_S0.6040.39
14_L55_G0.6010.39
22_P29_Q0.5960.38
35_G76_D0.5930.38
7_A16_K0.5800.37
7_A89_V0.5780.37
16_K87_E0.5760.36
44_P93_P0.5760.36
2_L96_K0.5730.36
78_D86_Y0.5690.36
46_V55_G0.5640.35
28_L40_A0.5640.35
36_R39_T0.5620.35
45_A55_G0.5620.35
48_S54_A0.5620.35
27_R85_V0.5610.35
36_R74_W0.5550.34
7_A90_S0.5510.34
5_I12_D0.5510.34
2_L49_N0.5470.34
37_L74_W0.5420.33
66_E69_E0.5410.33
24_H59_S0.5410.33
27_R36_R0.5350.33
83_A89_V0.5350.33
23_A82_A0.5320.32
22_P26_A0.5280.32
81_V85_V0.5260.32
67_S84_G0.5260.32
70_A73_A0.5180.31
5_I74_W0.5170.31
17_R59_S0.5130.31
37_L94_F0.5130.31
77_A85_V0.5100.31
3_Y93_P0.5060.30
17_R21_R0.5060.30
46_V68_L0.5040.30
11_A49_N0.5040.30
73_A82_A0.5040.30
27_R93_P0.5010.30
47_D91_V0.5000.30
46_V54_A0.5000.30
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  
1mwqA 2 1 99.9 0.423 Contact Map
4lbhA 4 0.9184 99.9 0.447 Contact Map
1s7iA 2 0.9694 99.7 0.565 Contact Map
3znuA 5 0.8673 98.3 0.765 Contact Map
1mliA 5 0.8673 98.1 0.776 Contact Map
2fiuA 2 0.898 86.2 0.881 Contact Map
3lo3A 3 0.9082 64.9 0.901 Contact Map
3hhlA 3 0.9388 60.9 0.904 Contact Map
4bq2A 4 0.4082 17.6 0.929 Contact Map
4bzyA 1 0.1122 16.9 0.929 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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