GREMLIN Database
YADS - UPF0126 inner membrane protein YadS
UniProt: P0AFP0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12333
Length: 207 (195)
Sequences: 2533 (1765)
Seq/√Len: 126.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
102_V154_C3.8561.00
25_L140_E3.6521.00
36_G72_S3.4901.00
35_L138_A3.4191.00
160_V182_V3.1651.00
12_A71_T3.1551.00
189_A193_W3.0661.00
157_G183_T3.0281.00
38_V137_L2.8281.00
99_A184_L2.7041.00
45_T58_W2.6121.00
96_V184_L2.5591.00
184_L188_L2.4531.00
106_V158_G2.3231.00
110_F119_A2.3041.00
98_L127_G2.2951.00
27_M138_A2.2381.00
91_P191_I2.2081.00
92_V188_L2.1491.00
124_V155_I2.1071.00
189_A195_L2.0811.00
149_I153_A2.0101.00
21_L138_A1.9961.00
177_M181_V1.8671.00
98_L154_C1.8621.00
4_Y8_I1.7691.00
164_A170_V1.7291.00
51_L114_A1.7171.00
40_A68_A1.6951.00
140_E146_R1.6861.00
14_F97_G1.6021.00
106_V119_A1.6011.00
16_I75_T1.5861.00
109_A122_M1.5491.00
41_V68_A1.5361.00
106_V162_A1.5171.00
52_D55_P1.5171.00
156_I186_I1.5151.00
7_D64_D1.5121.00
62_P66_V1.5091.00
153_A186_I1.5051.00
37_V68_A1.4971.00
114_A118_I1.4961.00
120_V162_A1.4761.00
119_A162_A1.4751.00
120_V159_I1.4121.00
10_G14_F1.3761.00
164_A175_A1.3671.00
181_V185_L1.3631.00
66_V70_V1.3631.00
50_A59_V1.3621.00
33_L69_M1.3561.00
108_K112_A1.3451.00
26_R199_T1.3401.00
29_P76_I1.3331.00
190_A195_L1.3321.00
4_Y61_D1.3301.00
46_I129_G1.3271.00
46_I125_I1.3181.00
128_V144_I1.3171.00
51_L112_A1.2661.00
30_F151_A1.2621.00
176_S180_M1.2531.00
38_V133_I1.2491.00
137_L145_L1.2441.00
36_G68_A1.2441.00
122_M126_T1.2391.00
99_A180_M1.2300.99
163_T168_F1.2180.99
102_V106_V1.2030.99
95_A188_L1.1970.99
4_Y63_T1.1910.99
71_T75_T1.1890.99
132_I144_I1.1840.99
99_A103_G1.1780.99
42_G133_I1.1700.99
175_A179_G1.1690.99
33_L72_S1.1520.99
45_T129_G1.1460.99
102_V183_T1.1400.99
99_A157_G1.1300.99
103_G183_T1.1190.99
32_V76_I1.1170.99
116_P162_A1.1080.99
153_A157_G1.0880.99
12_A67_V1.0840.99
163_T167_T1.0800.99
95_A184_L1.0690.99
102_V158_G1.0620.99
69_M73_M1.0550.98
152_T197_L1.0440.98
54_G108_K1.0340.98
190_A194_H1.0250.98
34_V151_A1.0230.98
11_T14_F1.0180.98
156_I182_V1.0160.98
116_P120_V1.0130.98
23_G32_V1.0060.98
6_L100_V0.9980.98
19_V32_V0.9980.98
147_T196_K0.9970.98
91_P95_A0.9970.98
97_G101_F0.9970.98
106_V161_H0.9910.98
58_W129_G0.9870.98
159_I163_T0.9790.97
34_V145_L0.9620.97
106_V123_G0.9570.97
107_N111_N0.9500.97
11_T41_V0.9450.97
46_I133_I0.9310.97
186_I195_L0.9310.97
17_S93_L0.9240.96
13_V97_G0.9240.96
188_L192_R0.9200.96
100_V180_M0.9170.96
11_T15_A0.9140.96
157_G179_G0.9100.96
58_W118_I0.9100.96
103_G179_G0.9080.96
12_A16_I0.8950.96
161_H179_G0.8940.96
142_P145_L0.8910.96
16_I93_L0.8890.96
37_V65_L0.8850.95
90_L93_L0.8780.95
14_F17_S0.8700.95
10_G101_F0.8690.95
45_T57_F0.8680.95
123_G179_G0.8660.95
16_I71_T0.8620.95
124_V128_V0.8590.95
171_P174_T0.8510.94
99_A183_T0.8480.94
127_G183_T0.8470.94
100_V104_I0.8450.94
170_V174_T0.8390.94
160_V164_A0.8320.94
30_F128_V0.8240.93
22_A32_V0.8230.93
27_M141_I0.8170.93
149_I186_I0.8150.93
30_F34_V0.8100.93
96_V100_V0.8010.92
51_L109_A0.7860.92
182_V186_I0.7830.91
103_G164_A0.7810.91
196_K199_T0.7720.91
45_T50_A0.7710.91
132_I145_L0.7690.91
56_V59_V0.7590.90
115_G122_M0.7580.90
54_G112_A0.7540.90
6_L180_M0.7520.90
120_V155_I0.7460.89
7_D21_L0.7450.89
25_L106_V0.7450.89
68_A71_T0.7440.89
149_I197_L0.7410.89
74_L163_T0.7380.89
66_V117_L0.7300.88
160_V179_G0.7250.88
57_F64_D0.7240.88
107_N161_H0.7080.87
72_S76_I0.7050.87
124_V151_A0.7040.86
70_V74_L0.7020.86
141_I144_I0.7000.86
99_A123_G0.6910.85
28_D142_P0.6910.85
103_G161_H0.6890.85
132_I137_L0.6890.85
58_W161_H0.6830.85
8_I67_V0.6810.85
35_L133_I0.6790.84
68_A72_S0.6740.84
119_A123_G0.6690.84
21_L25_L0.6660.83
9_V195_L0.6660.83
160_V178_M0.6640.83
101_F127_G0.6640.83
165_Y175_A0.6630.83
106_V183_T0.6630.83
165_Y172_L0.6580.83
51_L54_G0.6550.82
76_I200_F0.6550.82
7_D16_I0.6530.82
160_V168_F0.6510.82
65_L117_L0.6470.81
68_A76_I0.6470.81
19_V72_S0.6430.81
7_D14_F0.6420.81
3_V100_V0.6420.81
77_V83_R0.6400.81
132_I174_T0.6360.80
35_L139_R0.6360.80
170_V178_M0.6340.80
18_G144_I0.6340.80
65_L121_C0.6310.80
62_P115_G0.6290.80
118_I122_M0.6270.79
23_G200_F0.6220.79
19_V23_G0.6190.79
19_V75_T0.6110.78
17_S97_G0.6100.78
156_I188_L0.6080.77
37_V41_V0.6070.77
114_A119_A0.6050.77
57_F126_T0.6050.77
132_I143_M0.6040.77
155_I158_G0.6030.77
50_A125_I0.6030.77
162_A165_Y0.5990.76
98_L183_T0.5970.76
170_V175_A0.5950.76
57_F61_D0.5950.76
141_I146_R0.5940.76
128_V151_A0.5930.76
9_V13_V0.5910.75
13_V67_V0.5910.75
30_F147_T0.5880.75
23_G79_V0.5880.75
104_I126_T0.5860.75
161_H165_Y0.5860.75
28_D150_Y0.5840.74
51_L108_K0.5820.74
19_V36_G0.5820.74
41_V65_L0.5820.74
46_I50_A0.5810.74
92_V96_V0.5810.74
8_I12_A0.5800.74
39_T42_G0.5800.74
24_K27_M0.5770.74
14_F18_G0.5690.73
41_V153_A0.5690.73
147_T183_T0.5670.72
153_A190_A0.5660.72
102_V157_G0.5620.72
104_I179_G0.5610.71
18_G155_I0.5610.71
110_F165_Y0.5610.71
139_R189_A0.5600.71
32_V72_S0.5590.71
30_F155_I0.5580.71
7_D90_L0.5570.71
31_G35_L0.5560.71
5_W9_V0.5560.71
57_F122_M0.5550.71
174_T177_M0.5550.71
69_M117_L0.5550.71
27_M145_L0.5550.71
11_T147_T0.5540.71
164_A179_G0.5540.71
148_E194_H0.5530.70
7_D11_T0.5530.70
146_R191_I0.5510.70
101_F187_R0.5500.70
63_T67_V0.5490.70
38_V42_G0.5490.70
188_L191_I0.5480.70
59_V118_I0.5450.69
10_G93_L0.5430.69
74_L159_I0.5420.69
37_V72_S0.5410.69
29_P192_R0.5410.69
178_M182_V0.5350.68
174_T178_M0.5320.67
24_K36_G0.5310.67
9_V37_V0.5300.67
7_D121_C0.5290.67
77_V81_Q0.5220.66
69_M72_S0.5200.66
7_D104_I0.5190.66
108_K119_A0.5180.65
120_V158_G0.5170.65
92_V191_I0.5140.65
70_V113_E0.5140.65
91_P143_M0.5120.65
45_T49_M0.5120.65
59_V114_A0.5120.65
37_V40_A0.5120.65
111_N116_P0.5120.65
175_A183_T0.5100.64
163_T169_S0.5100.64
100_V108_K0.5100.64
106_V154_C0.5100.64
27_M31_G0.5040.63
143_M147_T0.5030.63
74_L172_L0.5020.63
23_G75_T0.5010.63
70_V178_M0.5010.63
103_G176_S0.5000.63
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  
2f2bA 4 0.4058 6.1 0.962 Contact Map
3llqA 3 0.401 3.7 0.966 Contact Map
3gd8A 4 0.4106 1.9 0.971 Contact Map
2o9gA 3 0.401 1.5 0.973 Contact Map
1s4zC 1 0.1401 1.5 0.973 Contact Map
4b19A 1 0.1449 1.5 0.973 Contact Map
3j1zP 8 0.7585 1.3 0.973 Contact Map
4pypA 1 0.6618 1.2 0.974 Contact Map
4uisB 1 0.3865 0.9 0.976 Contact Map
3wu2J 1 0.1884 0.9 0.976 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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