GREMLIN Database
YAII - UPF0178 protein YaiI
UniProt: P0A8D3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13176
Length: 152 (143)
Sequences: 1461 (1006)
Seq/√Len: 84.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
60_E64_Q3.9201.00
80_A84_E2.9871.00
2_T30_V2.8901.00
82_A87_A2.7771.00
60_E63_R2.5691.00
5_V18_L2.5621.00
28_P46_R2.5031.00
134_Q138_A2.3291.00
82_A89_A2.3291.00
91_N97_Y2.3241.00
65_C87_A2.1921.00
24_R141_E2.1761.00
65_C71_V2.0321.00
19_Y31_L2.0011.00
20_R137_A1.9881.00
115_L120_I1.9361.00
67_A86_G1.8631.00
71_V82_A1.8011.00
48_L60_E1.7311.00
7_A31_L1.7061.00
27_M144_W1.6611.00
88_A143_W1.6421.00
18_L29_L1.6331.00
74_A92_P1.6101.00
14_I128_L1.5911.00
25_M141_E1.5901.00
119_G122_T1.5811.00
110_D114_T1.5421.00
32_V57_A1.5421.00
2_T28_P1.5371.00
129_S132_D1.5070.99
17_I133_R1.4830.99
128_L133_R1.4830.99
74_A91_N1.4730.99
26_Q44_F1.4700.99
113_D117_A1.4380.99
19_Y45_I1.3930.99
84_E103_R1.3900.99
48_L64_Q1.3610.99
59_N81_E1.3570.99
3_I22_A1.3510.99
30_V46_R1.3370.99
88_A146_E1.3280.99
3_I140_L1.3120.99
65_C82_A1.3000.98
96_R139_E1.2940.98
17_I137_A1.2940.98
77_P106_L1.2810.98
98_T101_T1.2650.98
23_E43_R1.2640.98
5_V31_L1.2600.98
141_E145_L1.2540.98
2_T66_E1.2450.98
80_A106_L1.2410.98
139_E142_K1.2330.98
83_I101_T1.2160.98
53_G56_V1.2040.97
132_D135_A1.1810.97
131_R135_A1.1660.97
31_L39_V1.1430.96
4_W30_V1.1310.96
21_A144_W1.1230.96
56_V59_N1.1060.96
2_T46_R1.1050.96
3_I18_L1.1050.96
89_A97_Y1.1010.96
72_I90_L1.0580.95
62_V85_K1.0410.94
70_L144_W1.0380.94
114_T118_S1.0320.94
90_L143_W1.0300.94
83_I102_I1.0240.94
107_T110_D1.0240.94
88_A96_R1.0090.93
35_Q47_T0.9960.93
112_M122_T0.9960.93
103_R110_D0.9940.93
55_D59_N0.9900.92
39_V47_T0.9870.92
21_A137_A0.9870.92
32_V61_I0.9750.92
25_M144_W0.9490.91
15_K31_L0.9480.91
103_R107_T0.9390.90
89_A96_R0.9250.90
70_L96_R0.9190.89
80_A103_R0.9160.89
91_N95_E0.9150.89
36_S52_A0.9100.89
4_W61_I0.9070.89
29_L45_I0.9060.89
32_V64_Q0.8980.88
118_S121_Q0.8970.88
5_V15_K0.8940.88
122_T125_P0.8810.87
50_V57_A0.8770.87
59_N63_R0.8760.87
130_Q133_R0.8740.87
42_S45_I0.8590.86
96_R143_W0.8560.86
142_K145_L0.8540.85
18_L140_L0.8500.85
70_L143_W0.8440.85
104_E108_M0.8350.84
86_G99_P0.8350.84
107_T111_F0.8320.84
23_E42_S0.8320.84
50_V60_E0.8260.84
63_R81_E0.8220.83
28_P44_F0.8150.83
110_D118_S0.8040.82
77_P110_D0.7840.80
114_T117_A0.7810.80
17_I25_M0.7800.80
71_V87_A0.7790.80
83_I110_D0.7760.80
83_I99_P0.7700.79
52_A56_V0.7660.79
93_R119_G0.7600.78
27_M30_V0.7590.78
107_T114_T0.7440.77
101_T105_R0.7420.76
90_L139_E0.7370.76
62_V82_A0.7330.76
76_I105_R0.7320.75
19_Y40_P0.7310.75
39_V45_I0.7250.75
2_T139_E0.7180.74
4_W60_E0.7110.73
14_I136_F0.7070.73
31_L47_T0.7050.73
23_E41_P0.7050.73
7_A33_A0.7040.73
79_A97_Y0.7020.72
21_A141_E0.7000.72
72_I85_K0.7000.72
139_E143_W0.6980.72
33_A47_T0.6970.72
14_I17_I0.6970.72
9_A31_L0.6870.71
137_A141_E0.6810.70
10_C14_I0.6750.69
138_A142_K0.6720.69
32_V50_V0.6710.69
37_L47_T0.6630.68
111_F115_L0.6620.68
22_A29_L0.6620.68
127_S133_R0.6580.67
66_E85_K0.6430.66
17_I128_L0.6420.66
51_A60_E0.6410.65
55_D63_R0.6350.65
83_I87_A0.6340.65
34_N56_V0.6330.64
5_V9_A0.6330.64
4_W32_V0.6270.64
98_T105_R0.6250.63
7_A11_P0.6220.63
27_M68_G0.6220.63
22_A44_F0.6160.62
54_F59_N0.6150.62
63_R128_L0.6110.62
105_R110_D0.6060.61
21_A24_R0.6060.61
5_V10_C0.6050.61
16_E40_P0.6040.61
18_L72_I0.6040.61
30_V64_Q0.6010.60
135_A139_E0.5920.59
31_L45_I0.5920.59
34_N61_I0.5900.59
76_I83_I0.5890.59
48_L99_P0.5870.59
18_L93_R0.5840.58
2_T143_W0.5770.57
69_D140_L0.5760.57
9_A116_R0.5750.57
56_V81_E0.5720.57
15_K33_A0.5700.56
23_E44_F0.5700.56
108_M111_F0.5630.56
110_D117_A0.5550.54
34_N50_V0.5550.54
134_Q137_A0.5530.54
15_K32_V0.5510.54
130_Q134_Q0.5440.53
26_Q43_R0.5420.53
96_R146_E0.5390.52
23_E26_Q0.5390.52
9_A92_P0.5380.52
118_S122_T0.5310.51
76_I106_L0.5290.51
69_D72_I0.5290.51
24_R40_P0.5260.51
142_K146_E0.5240.50
83_I114_T0.5230.50
26_Q42_S0.5190.50
88_A97_Y0.5170.49
5_V22_A0.5140.49
9_A33_A0.5140.49
97_Y101_T0.5130.49
24_R137_A0.5120.49
96_R142_K0.5100.49
52_A55_D0.5100.49
95_E108_M0.5090.48
74_A97_Y0.5080.48
93_R132_D0.5080.48
20_R24_R0.5080.48
21_A25_M0.5070.48
72_I92_P0.5070.48
11_P14_I0.5060.48
83_I121_Q0.5050.48
4_W65_C0.5010.47
28_P66_E0.5000.47
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  
4mj7A 2 0.6447 87.6 0.916 Contact Map
3hblA 4 0.9474 84.4 0.92 Contact Map
3ouzA 2 0.9474 79.7 0.924 Contact Map
2vpqA 2 0.9474 77.6 0.925 Contact Map
4qshA 4 0.7763 74.8 0.927 Contact Map
1w96A 1 0.9474 71.8 0.929 Contact Map
3u9tA 3 0.9276 70.3 0.929 Contact Map
2jjmA 4 0.8947 66 0.931 Contact Map
1uqtA 2 0.9408 65.4 0.932 Contact Map
1ulzA 2 0.9474 61.9 0.933 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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