GREMLIN Database
YFBU - UPF0304 protein YfbU
UniProt: P0A8W8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14105
Length: 164 (159)
Sequences: 186 (129)
Seq/√Len: 10.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_I134_W3.4500.97
72_L158_I3.3480.96
70_H119_H3.3390.96
61_T65_I3.1310.95
62_I66_M2.9620.93
79_L158_I2.9110.92
65_I95_F2.4730.84
4_T138_Q2.2950.79
75_S79_L2.2880.78
62_I100_E2.2780.78
61_T138_Q2.1610.74
96_D128_N2.0950.72
19_T33_Q2.0810.71
8_R106_Y2.0350.69
35_I109_F1.9460.66
96_D130_Q1.9340.65
68_M141_L1.8850.63
8_R56_E1.8720.63
35_I40_Y1.8020.60
58_T102_R1.7180.56
18_M44_M1.7170.56
63_I117_Y1.7100.55
36_I44_M1.6860.54
24_A64_D1.6660.53
3_M48_D1.6420.52
72_L90_V1.6030.50
58_T103_Y1.5330.47
35_I47_L1.5280.47
37_E40_Y1.5150.46
8_R40_Y1.5110.46
71_A107_V1.4740.44
59_C106_Y1.4660.44
29_Y39_G1.4620.44
96_D132_P1.4020.41
129_A155_A1.3900.41
69_Y103_Y1.3750.40
101_A128_N1.3610.39
61_T72_L1.3510.39
98_A130_Q1.3510.39
144_W151_Y1.3490.39
137_Y141_L1.3320.38
62_I103_Y1.3120.37
61_T134_W1.2930.36
120_F125_H1.2880.36
95_F132_P1.2710.35
69_Y125_H1.2500.35
36_I48_D1.2370.34
43_Q59_C1.2060.33
97_A130_Q1.2050.33
8_R18_M1.2030.33
147_C157_E1.2010.33
18_M106_Y1.1960.32
144_W148_P1.1760.32
14_Q31_R1.1760.32
13_N18_M1.1620.31
40_Y106_Y1.1430.30
85_I155_A1.1400.30
27_E80_Q1.1360.30
34_T61_T1.1330.30
126_G154_S1.1260.30
94_G137_Y1.1230.29
14_Q32_L1.1200.29
85_I143_V1.1120.29
15_Y29_Y1.1080.29
18_M36_I1.1060.29
98_A140_M1.1020.29
62_I107_V1.0920.28
15_Y158_I1.0840.28
95_F134_W1.0830.28
76_W82_Q1.0800.28
18_M39_G1.0750.28
103_Y138_Q1.0600.27
75_S158_I1.0550.27
106_Y144_W1.0400.26
14_Q18_M1.0380.26
75_S154_S1.0360.26
64_D75_S1.0330.26
7_Q127_F1.0320.26
97_A104_L1.0280.26
140_M144_W1.0180.26
79_L154_S1.0150.26
80_Q103_Y1.0140.25
117_Y128_N0.9980.25
67_E146_A0.9880.25
129_A133_M0.9870.25
35_I46_E0.9790.24
112_N117_Y0.9620.24
15_Y144_W0.9590.24
11_L75_S0.9560.23
60_R64_D0.9500.23
151_Y160_Q0.9390.23
42_L106_Y0.9360.23
34_T113_V0.9320.23
8_R44_M0.9240.22
48_D115_G0.9230.22
40_Y109_F0.9230.22
102_R124_T0.9210.22
3_M7_Q0.9140.22
23_P141_L0.9130.22
81_D117_Y0.8980.22
84_S141_L0.8970.22
23_P106_Y0.8920.21
51_F73_H0.8890.21
61_T103_Y0.8850.21
139_R160_Q0.8810.21
142_N155_A0.8810.21
133_M149_R0.8770.21
86_D146_A0.8750.21
36_I46_E0.8690.21
73_H125_H0.8670.21
104_L116_R0.8640.21
14_Q29_Y0.8530.20
129_A159_N0.8510.20
71_A144_W0.8470.20
17_M21_L0.8450.20
77_S111_V0.8410.20
14_Q144_W0.8370.20
69_Y73_H0.8360.20
72_L138_Q0.8340.20
4_T7_Q0.8340.20
99_T117_Y0.8340.20
14_Q47_L0.8330.20
64_D161_I0.8300.20
121_D125_H0.8300.20
97_A140_M0.8200.19
77_S81_D0.8190.19
67_E148_P0.8100.19
5_N47_L0.8050.19
70_H137_Y0.8020.19
133_M161_I0.7920.18
47_L114_E0.7910.18
72_L109_F0.7880.18
17_M137_Y0.7850.18
7_Q80_Q0.7810.18
42_L114_E0.7800.18
103_Y134_W0.7800.18
64_D83_Q0.7780.18
19_T85_I0.7730.18
63_I148_P0.7670.18
111_V127_F0.7610.18
8_R15_Y0.7610.18
29_Y48_D0.7570.18
43_Q106_Y0.7520.17
100_E161_I0.7520.17
96_D101_A0.7500.17
111_V120_F0.7500.17
104_L136_K0.7390.17
109_F120_F0.7390.17
55_K131_T0.7370.17
18_M34_T0.7360.17
14_Q106_Y0.7310.17
110_M161_I0.7290.17
8_R49_R0.7280.17
8_R39_G0.7190.17
65_I112_N0.7160.16
33_Q36_I0.7110.16
96_D129_A0.7100.16
35_I68_M0.7060.16
7_Q44_M0.7060.16
44_M65_I0.7050.16
79_L153_L0.7030.16
136_K139_R0.7020.16
7_Q143_V0.7020.16
44_M48_D0.7010.16
91_T104_L0.6990.16
100_E128_N0.6970.16
109_F135_E0.6950.16
67_E70_H0.6940.16
19_T35_I0.6930.16
5_N9_L0.6880.16
8_R54_L0.6860.16
16_K53_E0.6850.16
13_N69_Y0.6850.16
131_T154_S0.6840.16
27_E85_I0.6830.16
41_G72_L0.6810.16
8_R31_R0.6740.15
24_A132_P0.6700.15
134_W162_I0.6700.15
33_Q65_I0.6690.15
11_L54_L0.6670.15
19_T112_N0.6660.15
42_L59_C0.6650.15
71_A148_P0.6650.15
8_R59_C0.6500.15
69_Y162_I0.6460.15
14_Q17_M0.6440.15
119_H158_I0.6420.15
77_S110_M0.6410.15
52_G113_V0.6400.15
101_A133_M0.6350.14
18_M29_Y0.6340.14
143_V146_A0.6330.14
15_Y106_Y0.6320.14
65_I110_M0.6320.14
33_Q66_M0.6270.14
51_F157_E0.6260.14
57_E146_A0.6240.14
21_L72_L0.6190.14
61_T80_Q0.6120.14
98_A128_N0.6040.14
109_F112_N0.6030.14
122_A125_H0.6030.14
68_M126_G0.5980.14
115_G119_H0.5910.13
40_Y105_G0.5830.13
51_F111_V0.5790.13
6_A26_A0.5740.13
62_I145_H0.5690.13
64_D115_G0.5670.13
53_E95_F0.5650.13
4_T91_T0.5600.13
64_D145_H0.5530.13
32_L73_H0.5530.13
31_R69_Y0.5480.13
11_L136_K0.5450.13
70_H139_R0.5450.13
35_I59_C0.5440.13
66_M119_H0.5430.12
120_F139_R0.5400.12
4_T60_R0.5390.12
68_M109_F0.5380.12
62_I98_A0.5380.12
8_R23_P0.5370.12
39_G59_C0.5360.12
68_M152_H0.5320.12
13_N29_Y0.5310.12
49_R159_N0.5300.12
16_K152_H0.5290.12
133_M139_R0.5290.12
69_Y117_Y0.5270.12
13_N144_W0.5250.12
13_N39_G0.5240.12
23_P39_G0.5240.12
94_G100_E0.5240.12
16_K49_R0.5160.12
27_E31_R0.5080.12
73_H105_G0.5000.12
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  
1wpbA 6 1 100 0.071 Contact Map
2m28A 1 0.2073 38.6 0.942 Contact Map
2c35A 1 0.311 34.8 0.943 Contact Map
4i2yA 1 0.9756 19.8 0.949 Contact Map
1fpoA 3 0.8659 17.6 0.951 Contact Map
4it5A 4 0.872 17 0.951 Contact Map
3ayhA 1 0.3049 14.8 0.952 Contact Map
2lhiA 1 0.6098 14.5 0.952 Contact Map
3h0gD 1 0.3171 13 0.954 Contact Map
2lmtA 1 0.6951 12.3 0.954 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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