GREMLIN Database
YDEI - Uncharacterized protein YdeI
UniProt: P31130 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11644
Length: 130 (125)
Sequences: 294 (227)
Seq/√Len: 20.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
67_R109_N4.0511.00
110_I123_V3.6121.00
90_V110_I2.7450.99
117_K121_A2.7030.98
93_P124_R2.5880.98
69_N107_M2.3580.96
84_K110_I2.2300.95
79_Y92_I2.1880.94
40_G43_G2.1720.94
78_R89_N2.0750.93
61_G124_R2.0510.92
71_I82_R2.0040.91
50_M54_F1.9230.89
114_L123_V1.8680.88
64_V123_V1.7940.86
115_D125_V1.7890.86
55_A110_I1.6570.81
115_D124_R1.5960.78
73_H76_E1.5930.78
92_I102_V1.5830.78
88_I123_V1.5710.77
77_D93_P1.5330.75
4_Q8_L1.5300.75
70_L90_V1.4700.72
110_I128_L1.4340.70
100_R108_I1.4340.70
77_D113_S1.4300.70
104_P116_K1.4190.69
95_A126_T1.4140.69
62_A114_L1.4100.69
72_S80_V1.4070.69
52_V85_S1.4050.69
7_V12_L1.3680.66
60_D115_D1.3400.65
40_G104_P1.3320.64
109_N129_Q1.3160.63
38_E95_A1.3010.62
6_I9_A1.2980.62
58_M62_A1.2880.62
80_V87_E1.2880.62
91_V124_R1.2480.59
41_Y116_K1.2370.58
41_Y97_F1.2370.58
91_V121_A1.2330.58
78_R91_V1.2150.57
9_A109_N1.2130.57
53_D56_K1.1860.55
52_V55_A1.1480.53
71_I80_V1.1460.53
16_Y19_A1.1350.52
38_E114_L1.1320.52
100_R106_Q1.1230.51
12_L19_A1.1210.51
44_T75_G1.1190.51
59_H78_R1.1110.50
58_M114_L1.1060.50
79_Y108_I1.1040.50
66_L88_I1.0930.49
49_K65_S1.0910.49
5_A14_M1.0790.48
10_S18_L1.0730.48
14_M18_L1.0660.47
49_K54_F1.0600.47
56_K73_H1.0550.47
90_V128_L1.0220.44
111_S127_H1.0030.43
100_R128_L0.9890.42
3_F39_D0.9890.42
96_V100_R0.9530.40
39_D101_E0.9450.40
7_V52_V0.9430.39
59_H128_L0.9420.39
8_L12_L0.9420.39
58_M67_R0.9230.38
117_K120_P0.9150.38
72_S122_V0.9110.37
113_S126_T0.8960.37
94_A97_F0.8920.36
26_K100_R0.8910.36
95_A113_S0.8910.36
41_Y104_P0.8790.36
69_N82_R0.8790.36
59_H62_A0.8770.35
11_F14_M0.8740.35
114_L118_S0.8580.34
41_Y118_S0.8550.34
55_A60_D0.8440.33
74_K97_F0.8390.33
14_M90_V0.8350.33
67_R122_V0.8350.33
13_V17_A0.8350.33
6_I18_L0.8340.33
26_K29_A0.8310.33
10_S85_S0.8310.33
43_G79_Y0.8250.32
6_I12_L0.8250.32
70_L128_L0.8190.32
55_A62_A0.8070.31
72_S105_D0.8010.31
4_Q76_E0.7880.30
73_H77_D0.7870.30
64_V79_Y0.7820.30
4_Q10_S0.7810.30
36_A88_I0.7810.30
53_D57_T0.7740.30
7_V11_F0.7650.29
75_G126_T0.7640.29
68_G83_D0.7600.29
93_P113_S0.7580.29
75_G108_I0.7530.28
100_R129_Q0.7480.28
63_S74_K0.7440.28
17_A20_D0.7380.28
92_I96_V0.7360.28
52_V81_F0.7350.27
110_I129_Q0.7260.27
108_I122_V0.7200.27
50_M97_F0.7190.27
51_T62_A0.7180.27
16_Y126_T0.7180.27
43_G64_V0.7170.27
59_H71_I0.7110.26
55_A58_M0.7090.26
102_V108_I0.7090.26
15_P18_L0.7060.26
15_P20_D0.7020.26
71_I91_V0.6990.26
18_L22_Q0.6990.26
69_N128_L0.6930.25
64_V73_H0.6880.25
10_S13_V0.6870.25
74_K80_V0.6860.25
56_K118_S0.6860.25
43_G116_K0.6850.25
62_A107_M0.6800.25
91_V115_D0.6740.24
25_L28_D0.6710.24
91_V122_V0.6700.24
58_M76_E0.6680.24
36_A85_S0.6660.24
58_M87_E0.6650.24
45_D80_V0.6610.24
24_G69_N0.6610.24
72_S106_Q0.6580.24
79_Y96_V0.6490.23
25_L41_Y0.6490.23
42_R129_Q0.6480.23
65_S123_V0.6480.23
65_S110_I0.6380.23
75_G79_Y0.6330.22
72_S86_G0.6250.22
66_L86_G0.6150.22
113_S129_Q0.6130.22
39_D116_K0.6070.21
43_G128_L0.6050.21
24_G40_G0.6050.21
98_D101_E0.6020.21
23_G87_E0.5910.21
109_N127_H0.5870.20
119_A123_V0.5790.20
111_S118_S0.5720.20
38_E107_M0.5710.20
43_G73_H0.5700.20
54_F62_A0.5680.20
4_Q17_A0.5620.19
52_V60_D0.5600.19
82_R114_L0.5570.19
77_D94_A0.5550.19
36_A51_T0.5510.19
78_R118_S0.5410.19
107_M124_R0.5390.18
42_R45_D0.5380.18
39_D43_G0.5270.18
75_G102_V0.5270.18
9_A16_Y0.5260.18
82_R121_A0.5260.18
50_M108_I0.5260.18
22_Q35_H0.5220.18
105_D117_K0.5220.18
59_H121_A0.5170.18
97_F114_L0.5150.18
97_F128_L0.5110.17
90_V93_P0.5100.17
105_D121_A0.5070.17
72_S78_R0.5060.17
6_I29_A0.5040.17
7_V13_V0.5030.17
51_T55_A0.5000.17
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  
1nnxA 1 0.7077 100 0.241 Contact Map
4gnxB 1 0.6231 95.7 0.862 Contact Map
2pi2A 1 0.6615 95.3 0.866 Contact Map
3kdfD 2 0.6154 95 0.868 Contact Map
3e0eA 1 0.5769 93.8 0.875 Contact Map
2xgtA 2 0.6154 93.8 0.875 Contact Map
4owtB 1 0.3923 93.8 0.876 Contact Map
3nemA 2 0.6538 93.7 0.876 Contact Map
1c0aA 1 0.6462 93.6 0.876 Contact Map
1n9wA 2 0.6 93.5 0.877 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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