GREMLIN Database
YGAP - Inner membrane protein YgaP
UniProt: P55734 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13288
Length: 174 (132)
Sequences: 1386 (1114)
Seq/√Len: 96.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
6_I10_D4.2231.00
33_E97_K3.7181.00
95_G99_A3.5931.00
7_S10_D3.2831.00
59_Q87_F3.1111.00
30_Y34_H3.0771.00
11_A61_I2.9691.00
8_P95_G2.5931.00
12_Q101_L2.4381.00
8_P99_A2.2841.00
20_K58_E2.1551.00
14_L17_R2.1001.00
50_G113_L1.9521.00
8_P101_L1.9361.00
25_R65_Q1.9131.00
10_D14_L1.8971.00
9_H13_E1.8211.00
22_I39_D1.8121.00
27_A31_L1.7771.00
5_T90_E1.7761.00
126_L129_V1.7631.00
127_I131_L1.6921.00
33_E105_V1.6861.00
61_I89_L1.6851.00
73_N76_K1.6611.00
26_D44_S1.5751.00
11_A89_L1.5521.00
93_I103_V1.5501.00
84_A120_A1.5211.00
49_S52_P1.5161.00
72_N76_K1.4991.00
49_S54_K1.4891.00
75_D79_A1.4841.00
14_L59_Q1.4401.00
36_P104_A1.3870.99
73_N78_A1.3690.99
24_I62_F1.3520.99
104_A108_S1.3290.99
35_I96_W1.3280.99
49_S78_A1.3080.99
125_I129_V1.2780.99
6_I14_L1.2750.99
29_E69_R1.2730.99
125_I133_Y1.1950.98
56_R116_Q1.1630.98
34_H104_A1.1510.98
35_I61_I1.1410.98
55_L113_L1.1350.98
130_V134_T1.1160.97
27_A40_L1.1090.97
104_A107_K1.0980.97
55_L58_E1.0980.97
11_A19_A1.0910.97
6_I11_A1.0830.97
30_Y40_L1.0640.96
80_I119_I1.0590.96
130_V135_V1.0530.96
125_I130_V1.0500.96
62_F74_A1.0420.96
59_Q85_E1.0190.96
91_D95_G1.0180.95
12_Q16_A1.0160.95
49_S53_A1.0040.95
19_A61_I0.9890.95
70_T74_A0.9880.95
114_M118_Q0.9860.95
25_R66_A0.9820.95
12_Q102_P0.9750.94
131_L134_T0.9560.94
9_H99_A0.9540.94
33_E93_I0.9250.93
66_A94_D0.9220.92
89_L96_W0.9160.92
72_N79_A0.9090.92
47_E76_K0.9080.92
50_G114_M0.9070.92
65_Q94_D0.9050.92
30_Y108_S0.8960.91
9_H101_L0.8950.91
122_G128_G0.8880.91
62_F70_T0.8860.91
63_H93_I0.8800.91
78_A86_I0.8770.90
64_C69_R0.8440.89
44_S67_G0.8400.88
112_P115_R0.8360.88
34_H38_A0.8350.88
97_K103_V0.8230.87
22_I54_K0.8160.87
24_I73_N0.8160.87
50_G54_K0.8070.86
129_V132_G0.8010.86
60_I83_P0.7970.86
6_I87_F0.7950.86
29_E66_A0.7920.85
70_T88_L0.7870.85
33_E38_A0.7860.85
120_A123_G0.7850.85
21_L63_H0.7790.84
94_D97_K0.7700.84
11_A14_L0.7670.83
50_G112_P0.7590.83
134_T137_S0.7590.83
36_P96_W0.7570.83
31_L106_N0.7540.82
35_I89_L0.7490.82
111_L116_Q0.7410.81
76_K79_A0.7360.81
127_I133_Y0.7360.81
20_K39_D0.7340.81
116_Q122_G0.7200.79
70_T73_N0.7180.79
38_A93_I0.7130.79
93_I97_K0.7100.78
113_L117_V0.7040.78
95_G98_K0.6920.77
111_L119_I0.6920.77
34_H40_L0.6910.77
65_Q112_P0.6860.76
38_A63_H0.6740.75
29_E65_Q0.6730.75
69_R117_V0.6650.74
36_P97_K0.6640.74
25_R69_R0.6620.73
71_S124_L0.6610.73
26_D40_L0.6510.72
12_Q99_A0.6500.72
7_S90_E0.6490.72
73_N79_A0.6480.72
67_G70_T0.6450.72
52_P55_L0.6450.72
11_A15_I0.6430.71
68_K74_A0.6390.71
96_W101_L0.6360.70
63_H89_L0.6360.70
54_K60_I0.6340.70
50_G55_L0.6270.69
71_S75_D0.6270.69
21_L58_E0.6230.69
11_A21_L0.6210.69
72_N78_A0.6180.68
6_I90_E0.6170.68
4_T87_F0.6160.68
54_K78_A0.6160.68
30_Y63_H0.6120.68
51_L57_H0.6070.67
64_C75_D0.6020.66
35_I63_H0.6020.66
33_E103_V0.5920.65
4_T85_E0.5870.64
57_H85_E0.5870.64
74_A78_A0.5850.64
43_L48_Q0.5830.64
49_S55_L0.5800.63
108_S115_R0.5780.63
11_A35_I0.5770.63
60_I86_I0.5770.63
18_G84_A0.5730.63
11_A96_W0.5720.62
95_G101_L0.5720.62
23_D29_E0.5650.61
9_H16_A0.5640.61
111_L128_G0.5580.60
111_L115_R0.5580.60
43_L125_I0.5570.60
23_D92_G0.5560.60
71_S74_A0.5550.60
92_G95_G0.5540.60
24_I69_R0.5530.60
56_R83_P0.5510.60
20_K109_Q0.5490.59
60_I94_D0.5450.59
117_V121_A0.5420.58
43_L64_C0.5400.58
38_A96_W0.5390.58
25_R77_L0.5370.58
51_L60_I0.5370.58
5_T95_G0.5360.57
10_D17_R0.5360.57
61_I96_W0.5350.57
54_K127_I0.5350.57
63_H97_K0.5330.57
67_G77_L0.5320.57
58_E71_S0.5320.57
34_H63_H0.5290.56
26_D29_E0.5280.56
32_R112_P0.5270.56
43_L122_G0.5260.56
111_L118_Q0.5260.56
130_V133_Y0.5250.56
68_K72_N0.5250.56
69_R77_L0.5250.56
32_R110_P0.5180.55
46_L124_L0.5160.55
73_N77_L0.5110.54
14_L61_I0.5040.53
74_A77_L0.5020.53
119_I122_G0.5000.52
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  
1rhsA 1 0.9713 100 0.489 Contact Map
1urhA 1 0.9655 100 0.498 Contact Map
4jgtA 1 0.977 100 0.5 Contact Map
1e0cA 1 0.9713 100 0.504 Contact Map
1okgA 1 0.8966 100 0.508 Contact Map
3aayA 1 0.9253 100 0.511 Contact Map
1uarA 1 0.9885 100 0.512 Contact Map
3utnX 1 0.9598 100 0.515 Contact Map
3hzuA 2 0.9253 99.9 0.528 Contact Map
1yt8A 1 0.9655 99.9 0.539 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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