GREMLIN Database
YWDK - UPF0382 membrane protein YwdK
UniProt: P39619 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 123 (116)
Sequences: 1567 (1151)
Seq/√Len: 106.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
13_L109_I4.5941.00
39_H43_Q3.1171.00
75_M111_S2.4771.00
4_F72_G2.4661.00
17_G109_I2.4101.00
11_N49_A2.3961.00
12_A51_G2.1691.00
12_A49_A2.0961.00
51_G75_M2.0951.00
22_G38_W2.0161.00
13_L113_I2.0041.00
30_I90_S1.9801.00
74_L107_A1.9501.00
6_I116_V1.9191.00
8_G53_F1.8661.00
27_E33_K1.7961.00
37_V86_L1.7571.00
96_I99_A1.7371.00
67_S114_M1.7371.00
45_H87_Y1.7321.00
74_L110_I1.6591.00
79_I108_F1.6311.00
85_S101_T1.6301.00
113_I117_V1.6071.00
43_Q47_Y1.6061.00
7_L76_F1.6041.00
8_G49_A1.5971.00
89_L98_G1.5681.00
38_W41_G1.5101.00
11_N76_F1.5061.00
47_Y50_L1.5011.00
46_M50_L1.4811.00
55_V75_M1.4391.00
15_A46_M1.4231.00
33_K36_Q1.3561.00
8_G12_A1.3380.99
30_I35_L1.3080.99
77_A107_A1.2890.99
9_A116_V1.2680.99
6_I120_V1.2390.99
7_L11_N1.2340.99
70_T73_W1.2300.99
116_V120_V1.2280.99
36_Q39_H1.2030.99
70_T114_M1.1990.99
81_L99_A1.1780.99
99_A103_L1.1540.98
74_L111_S1.1390.98
23_A40_T1.1340.98
34_Y90_S1.1280.98
34_Y37_V1.1190.98
10_I14_L1.1100.98
42_V45_H1.0870.98
31_P34_Y1.0740.98
48_H108_F1.0680.97
48_H112_W1.0460.97
37_V89_L1.0440.97
97_L100_I1.0430.97
8_G56_A1.0400.97
50_L54_V1.0160.97
67_S118_A1.0150.97
22_G45_H0.9970.96
103_L107_A0.9900.96
33_K37_V0.9790.96
38_W43_Q0.9790.96
49_A79_I0.9770.96
22_G25_G0.9760.96
19_G44_Y0.9750.96
10_I116_V0.9610.95
6_I119_A0.9480.95
85_S89_L0.9340.95
106_V110_I0.9300.94
9_A115_I0.9280.94
16_V48_H0.8990.93
51_G111_S0.8840.93
25_G30_I0.8730.92
88_I92_T0.8550.91
38_W45_H0.8500.91
89_L99_A0.8450.91
81_L103_L0.8390.91
67_S117_V0.8340.90
15_A47_Y0.8270.90
65_I68_V0.8170.90
73_W77_A0.8070.89
4_F7_L0.8000.89
5_I56_A0.7940.88
68_V118_A0.7930.88
4_F73_W0.7910.88
13_L17_G0.7890.88
90_S94_I0.7860.88
32_D36_Q0.7840.88
26_L91_V0.7780.87
110_I114_M0.7750.87
21_F25_G0.7600.86
29_K66_G0.7500.85
41_G84_G0.7370.84
71_A118_A0.7340.84
26_L38_W0.7330.84
55_V68_V0.7320.84
12_A46_M0.7290.83
48_H79_I0.7270.83
13_L116_V0.7240.83
11_N79_I0.7200.83
5_I119_A0.7070.82
59_A68_V0.7040.81
15_A49_A0.6980.81
8_G54_V0.6960.81
71_A115_I0.6670.78
21_F86_L0.6660.78
88_I99_A0.6650.77
14_L18_L0.6630.77
38_W42_V0.6560.77
3_V29_K0.6530.76
55_V72_G0.6440.75
34_Y93_Q0.6430.75
37_V90_S0.6370.74
89_L101_T0.6330.74
52_L72_G0.6290.73
36_Q40_T0.6280.73
70_T74_L0.6260.73
16_V20_A0.6180.72
37_V42_V0.6170.72
7_L72_G0.6140.72
66_G70_T0.6140.72
25_G90_S0.6110.71
86_L99_A0.6100.71
8_G46_M0.6100.71
55_V58_L0.6000.70
4_F8_G0.5970.70
81_L85_S0.5960.69
75_M108_F0.5960.69
66_G69_T0.5910.69
57_F61_K0.5860.68
5_I58_L0.5860.68
53_F56_A0.5810.67
53_F57_F0.5800.67
81_L107_A0.5800.67
18_L25_G0.5770.67
43_Q115_I0.5750.67
41_G90_S0.5740.67
54_V57_F0.5720.66
38_W50_L0.5710.66
81_L100_I0.5640.65
11_N15_A0.5640.65
42_V46_M0.5630.65
86_L92_T0.5610.65
67_S70_T0.5610.65
85_S100_I0.5600.65
12_A47_Y0.5590.65
21_F27_E0.5560.64
42_V49_A0.5560.64
71_A111_S0.5510.63
18_L38_W0.5480.63
99_A107_A0.5460.63
13_L16_V0.5460.63
27_E83_S0.5440.62
11_N45_H0.5440.62
56_A119_A0.5430.62
9_A35_L0.5310.61
43_Q46_M0.5250.60
58_L115_I0.5180.59
15_A45_H0.5180.59
101_T106_V0.5170.59
69_T113_I0.5110.58
73_W76_F0.5090.57
36_Q81_L0.5070.57
41_G83_S0.5060.57
103_L106_V0.5050.57
10_I117_V0.5030.57
84_G117_V0.5030.57
88_I94_I0.5030.57
34_Y95_S0.5020.56
52_L83_S0.5010.56
15_A42_V0.5000.56
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  
3ayfA 2 0.9431 12.7 0.931 Contact Map
1v54A 1 0.9675 11.5 0.933 Contact Map
2gsmA 1 0.9268 7.2 0.938 Contact Map
2yevA 1 0.9675 6.9 0.939 Contact Map
3s8fA 1 0.9756 5.2 0.942 Contact Map
3mk7A 1 0.9756 5.2 0.942 Contact Map
3wfdB 1 0.9268 3.9 0.946 Contact Map
1fftA 1 0.9268 3.8 0.946 Contact Map
4i0uA 4 0.4797 1.6 0.956 Contact Map
4ev6A 3 0.4959 1.6 0.956 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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