GREMLIN Database
YKTA - UPF0223 protein YktA
UniProt: Q45497 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 88 (85)
Sequences: 350 (281)
Seq/√Len: 30.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
76_K80_E3.6471.00
47_K56_E3.0651.00
26_V39_L2.5130.99
18_D45_R2.4880.99
73_R76_K2.3140.99
60_C71_P2.1720.98
25_Q34_A2.0090.97
52_G55_E1.9100.96
45_R48_E1.8970.96
5_Y67_S1.8030.95
31_E69_Y1.7450.94
23_F71_P1.7070.93
39_L75_V1.6700.92
25_Q42_A1.6170.91
3_Y69_Y1.5290.88
39_L74_T1.5260.88
40_L78_A1.5080.88
22_F71_P1.4400.85
3_Y31_E1.4300.85
5_Y69_Y1.4150.84
29_A74_T1.3730.82
30_Y74_T1.3650.82
55_E58_K1.3570.82
23_F59_L1.3470.81
35_D38_E1.3450.81
45_R49_I1.3310.80
70_S73_R1.3290.80
7_M66_Q1.3180.80
50_V56_E1.2930.78
54_A57_K1.2820.78
63_F67_S1.2600.76
81_S84_A1.2120.74
15_E49_I1.1910.72
64_E70_S1.1730.71
36_R81_S1.1570.70
3_Y63_F1.1550.70
63_F69_Y1.1360.69
60_C73_R1.1000.66
60_C70_S1.0950.66
58_K70_S1.0950.66
7_M84_A1.0910.65
76_K79_R1.0880.65
36_R40_L1.0560.63
47_K50_V1.0550.63
15_E22_F1.0460.62
3_Y27_E1.0450.62
29_A34_A1.0260.61
21_A24_Q1.0020.59
35_D83_H0.9870.58
3_Y67_S0.9760.57
28_L32_K0.9490.55
5_Y27_E0.9470.54
17_V20_I0.9160.52
30_Y63_F0.9100.51
48_E51_P0.9050.51
5_Y63_F0.8870.50
7_M59_L0.8780.49
27_E63_F0.8510.47
29_A78_A0.8380.46
44_R75_V0.8300.45
77_Q80_E0.8200.44
32_K85_K0.8160.44
11_W19_V0.8120.44
26_V57_K0.8120.44
17_V24_Q0.8060.43
37_E41_K0.8030.43
58_K62_E0.7920.42
2_E83_H0.7910.42
35_D85_K0.7820.41
35_D65_E0.7790.41
3_Y8_N0.7640.40
18_D48_E0.7600.40
15_E52_G0.7550.39
9_E16_A0.7500.39
51_P54_A0.7350.38
64_E67_S0.7320.37
30_Y64_E0.7220.37
58_K61_G0.7210.37
53_K58_K0.7210.37
47_K52_G0.7210.37
81_S86_I0.7130.36
28_L38_E0.7020.35
59_L62_E0.6950.35
36_R44_R0.6950.35
26_V40_L0.6940.35
22_F26_V0.6880.34
14_E83_H0.6880.34
44_R48_E0.6810.34
19_V50_V0.6780.33
56_E75_V0.6740.33
13_T70_S0.6740.33
23_F51_P0.6650.33
77_Q81_S0.6640.32
2_E34_A0.6620.32
11_W70_S0.6540.32
41_K82_D0.6450.31
5_Y31_E0.6440.31
53_K79_R0.6420.31
53_K70_S0.6240.30
57_K60_C0.6210.30
4_Q7_M0.6190.29
39_L42_A0.6150.29
18_D49_I0.6120.29
10_D42_A0.6090.29
3_Y64_E0.6010.28
40_L74_T0.5990.28
15_E27_E0.5950.28
4_Q58_K0.5690.26
10_D20_I0.5670.26
19_V47_K0.5650.26
48_E86_I0.5640.26
44_R77_Q0.5640.26
46_F60_C0.5600.26
37_E83_H0.5600.26
20_I24_Q0.5560.25
29_A33_G0.5530.25
55_E60_C0.5510.25
28_L80_E0.5500.25
3_Y66_Q0.5470.25
32_K77_Q0.5370.24
28_L65_E0.5360.24
45_R51_P0.5230.23
19_V49_I0.5170.23
59_L71_P0.5120.23
50_V59_L0.5090.23
27_E30_Y0.5060.22
18_D33_G0.5040.22
25_Q41_K0.5000.22
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  
2oy9A 2 0.9659 100 0.023 Contact Map
2q07A 1 0.7386 19.9 0.925 Contact Map
4n5xA 1 0.8068 14.9 0.929 Contact Map
2opoA 2 0.8977 13.3 0.931 Contact Map
1c7vA 1 0.7614 9.5 0.935 Contact Map
2ox1A 2 0.75 9.5 0.935 Contact Map
4ociA 2 0.7727 6.5 0.94 Contact Map
1q80A 1 0.875 6.1 0.941 Contact Map
1ij5A 1 0.9091 5.9 0.941 Contact Map
3i5gC 1 0.8977 5.8 0.941 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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