GREMLIN Database
YNAK - Uncharacterized protein YnaK
UniProt: P76068 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14296
Length: 87 (81)
Sequences: 362 (271)
Seq/√Len: 30.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
39_Q84_Q3.9891.00
54_I61_V3.6381.00
46_V61_V2.7531.00
33_L59_G2.4650.99
46_V54_I2.3970.99
49_D85_K2.3290.99
47_L56_A2.1700.98
10_R76_V2.0070.97
50_E78_S1.9720.97
34_V66_M1.8830.96
29_Q59_G1.8190.95
43_T77_L1.7780.94
44_N56_A1.7340.93
50_E79_G1.7120.93
44_N77_L1.6050.90
44_N47_L1.5960.90
10_R52_G1.5030.87
25_H29_Q1.5020.87
81_T84_Q1.4710.86
27_T66_M1.4360.85
10_R14_E1.3760.82
47_L77_L1.3550.81
31_A35_E1.3510.81
11_P14_E1.3330.80
9_Y71_S1.3240.79
23_R26_S1.2750.77
25_H59_G1.2580.76
23_R44_N1.2270.74
12_L61_V1.1940.72
29_Q33_L1.1870.71
31_A66_M1.1800.71
34_V67_L1.1710.70
64_A69_M1.1650.70
27_T86_Q1.1530.69
26_S59_G1.1390.68
55_I85_K1.1110.66
43_T47_L1.0820.64
35_E38_K1.0670.63
43_T79_G1.0330.61
32_Q86_Q1.0280.60
35_E39_Q0.9660.55
8_V76_V0.9620.55
34_V69_M0.8940.50
35_E83_E0.8910.49
9_Y12_L0.8900.49
28_E39_Q0.8690.48
48_I76_V0.8680.48
12_L72_V0.8670.48
18_Y80_L0.8640.47
16_S19_A0.8310.45
64_A73_P0.8310.45
26_S29_Q0.8190.44
26_S62_M0.8120.43
77_L80_L0.8110.43
55_I62_M0.8010.42
19_A52_G0.7950.42
48_I74_V0.7860.41
50_E76_V0.7790.41
67_L75_I0.7780.41
6_K52_G0.7690.40
53_E80_L0.7650.40
30_V62_M0.7650.40
31_A38_K0.7540.39
42_W64_A0.7500.38
43_T56_A0.7490.38
13_Q16_S0.7400.38
33_L36_S0.7390.38
40_F80_L0.7300.37
12_L15_L0.7300.37
23_R43_T0.7210.36
37_I69_M0.7170.36
54_I74_V0.7140.36
70_D82_D0.7100.35
9_Y69_M0.7100.35
23_R47_L0.7060.35
50_E85_K0.7020.35
48_I68_K0.7020.35
29_Q77_L0.6980.35
22_A29_Q0.6960.34
18_Y28_E0.6870.34
27_T39_Q0.6820.33
49_D53_E0.6790.33
55_I71_S0.6780.33
37_I67_L0.6750.33
6_K12_L0.6670.32
12_L65_E0.6630.32
24_T44_N0.6630.32
25_H33_L0.6610.32
62_M66_M0.6510.31
12_L30_V0.6500.31
9_Y73_P0.6480.31
16_S20_H0.6460.31
23_R56_A0.6440.31
46_V83_E0.6430.31
39_Q86_Q0.6360.30
16_S54_I0.6310.30
36_S40_F0.6100.29
18_Y86_Q0.6090.28
10_R74_V0.6060.28
56_A64_A0.6000.28
13_Q70_D0.5930.27
17_P35_E0.5810.27
23_R42_W0.5740.26
69_M82_D0.5740.26
15_L40_F0.5690.26
61_V71_S0.5660.26
32_Q59_G0.5620.26
50_E55_I0.5570.25
49_D54_I0.5460.25
75_I80_L0.5460.25
11_P78_S0.5430.24
7_I79_G0.5430.24
59_G62_M0.5420.24
13_Q20_H0.5320.24
23_R77_L0.5290.24
29_Q85_K0.5190.23
10_R13_Q0.5130.23
20_H51_K0.5120.23
70_D81_T0.5090.22
56_A61_V0.5050.22
11_P71_S0.5040.22
35_E65_E0.5000.22
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  
4umkA 2 0.8966 99.7 0.547 Contact Map
1vz0A 3 0.9195 99.7 0.554 Contact Map
1xw3A 1 0.9655 99.7 0.556 Contact Map
1yzsA 1 0.9655 99.7 0.56 Contact Map
1vk1A 1 0.931 99.6 0.605 Contact Map
2hwjA 5 0.931 96.1 0.835 Contact Map
3erwA 1 0.7701 44.9 0.911 Contact Map
2cvbA 1 0.8161 41.3 0.913 Contact Map
2b5xA 1 0.7931 39.9 0.914 Contact Map
2ywiA 1 0.8161 39.8 0.914 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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