GREMLIN Database
UBIJ - Ubiquinone biosynthesis protein UbiJ
UniProt: P0ADP7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11474
Length: 201 (194)
Sequences: 782 (578)
Seq/√Len: 41.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
127_T131_A6.3991.00
8_T59_V4.2011.00
121_E129_D3.9661.00
185_E190_A3.8791.00
189_D192_T3.6911.00
177_F181_T3.6441.00
40_E72_I3.5441.00
120_A133_E3.3581.00
186_R189_D3.0811.00
166_R173_E2.9311.00
192_T196_E2.9161.00
121_E124_A2.9021.00
169_P173_E2.7611.00
71_V105_V2.2481.00
161_I168_A2.2321.00
36_V49_I2.1811.00
124_A129_D2.0770.99
117_F122_L2.0420.99
73_A78_L1.9550.99
69_C104_V1.8740.98
37_L108_F1.8490.98
69_C105_V1.8250.98
11_I191_L1.7660.98
132_A136_S1.7310.97
120_A140_R1.7130.97
183_A187_A1.7040.97
127_T132_A1.6950.97
50_L57_V1.6270.96
50_L108_F1.6060.96
159_E163_E1.5930.96
21_R119_P1.5570.95
159_E164_E1.5130.94
22_S117_F1.5070.94
171_P175_A1.4860.94
36_V63_W1.4640.93
35_K68_D1.4630.93
9_A12_E1.4590.93
188_V192_T1.4520.93
80_K95_E1.4240.92
17_T122_L1.4220.92
9_A96_L1.4040.92
43_G75_A1.3910.91
38_R49_I1.3790.91
32_L195_L1.3780.91
80_K89_A1.3770.91
190_A193_K1.3420.90
164_E177_F1.3300.89
174_V178_A1.3200.89
53_S58_D1.2810.88
17_T96_L1.2680.87
186_R190_A1.2620.87
16_N19_L1.2510.86
151_K183_A1.2370.86
175_A179_E1.2360.86
120_A136_S1.2300.85
119_P122_L1.2220.85
36_V65_G1.2210.85
76_S147_H1.2200.85
22_S193_K1.2190.85
71_V162_T1.1800.83
161_I167_M1.1670.82
11_I181_T1.1650.82
81_L162_T1.1640.82
8_T61_G1.1630.82
49_I63_W1.1490.81
32_L52_F1.1480.81
120_A124_A1.1420.81
69_C101_D1.1320.80
11_I139_M1.1320.80
38_R47_S1.1300.80
160_A165_W1.1260.80
88_T91_I1.1110.79
44_F105_V1.1000.78
19_L115_A1.0930.78
132_A139_M1.0850.77
40_E70_T1.0720.76
10_G104_V1.0690.76
178_A182_A1.0680.76
45_S72_I1.0650.76
131_A135_I1.0570.75
178_A181_T1.0550.75
115_A122_L1.0390.74
163_E166_R1.0380.74
18_F79_P1.0360.74
158_A162_T1.0360.74
13_S17_T1.0320.74
129_D177_F1.0140.72
156_Y159_E0.9970.71
28_A120_A0.9960.71
90_L96_L0.9890.70
88_T92_R0.9830.70
24_A27_T0.9790.70
170_G173_E0.9790.70
153_Q156_Y0.9720.69
19_L70_T0.9640.68
21_R117_F0.9620.68
69_C88_T0.9600.68
166_R170_G0.9540.68
73_A95_E0.9520.67
160_A164_E0.9510.67
163_E184_V0.9480.67
149_G155_R0.9390.66
22_S25_L0.9340.66
12_E32_L0.9270.65
21_R122_L0.9210.65
182_A185_E0.9150.64
34_G195_L0.9060.63
185_E189_D0.9030.63
15_L188_V0.8990.63
129_D133_E0.8990.63
159_E169_P0.8880.62
73_A133_E0.8870.62
122_L132_A0.8860.62
195_L198_L0.8770.61
163_E170_G0.8740.61
18_F136_S0.8730.61
41_V78_L0.8700.60
182_A190_A0.8680.60
156_Y160_A0.8620.60
50_L54_E0.8620.60
69_C106_Q0.8570.59
116_E119_P0.8560.59
41_V75_A0.8560.59
54_E123_L0.8540.59
159_E162_T0.8490.58
23_P44_F0.8480.58
181_T185_E0.8440.58
169_P174_V0.8330.57
175_A178_A0.8240.56
158_A171_P0.8210.56
38_R120_A0.8170.55
57_V169_P0.8050.54
102_I180_E0.8040.54
7_V191_L0.7980.54
25_L28_A0.7960.54
188_V191_L0.7940.53
155_R159_E0.7920.53
77_V84_R0.7910.53
22_S116_E0.7910.53
105_V109_V0.7890.53
72_I97_E0.7810.52
19_L164_E0.7790.52
25_L115_A0.7790.52
40_E79_P0.7750.52
23_P114_L0.7720.51
71_V78_L0.7630.50
140_R144_K0.7590.50
150_I154_Q0.7590.50
194_R198_L0.7590.50
131_A134_G0.7580.50
29_R115_A0.7550.50
36_V66_D0.7550.50
48_L126_Y0.7540.50
124_A135_I0.7540.50
49_I65_G0.7470.49
101_D166_R0.7440.49
124_A136_S0.7370.48
136_S140_R0.7370.48
19_L24_A0.7360.48
124_A156_Y0.7330.48
31_R132_A0.7310.47
17_T117_F0.7300.47
162_T165_W0.7280.47
24_A121_E0.7270.47
30_S153_Q0.7260.47
36_V41_V0.7210.47
17_T21_R0.7190.46
33_L117_F0.7190.46
152_R156_Y0.7180.46
45_S149_G0.7150.46
167_M184_V0.7150.46
43_G103_Q0.7150.46
49_I187_A0.7080.45
26_K161_I0.7060.45
75_A83_D0.7040.45
149_G188_V0.7040.45
41_V129_D0.7040.45
133_E137_K0.6990.45
17_T193_K0.6990.45
124_A132_A0.6980.44
102_I106_Q0.6950.44
69_C169_P0.6950.44
7_V10_G0.6950.44
60_L63_W0.6930.44
135_I147_H0.6900.44
13_S189_D0.6890.44
135_I181_T0.6880.44
39_V65_G0.6870.43
187_A190_A0.6870.43
25_L111_L0.6820.43
123_L129_D0.6820.43
28_A31_R0.6810.43
75_A148_H0.6760.42
124_A192_T0.6710.42
83_D96_L0.6690.42
148_H151_K0.6680.42
35_K38_R0.6680.42
69_C109_V0.6680.42
18_F181_T0.6670.42
188_V199_E0.6650.41
80_K136_S0.6620.41
124_A131_A0.6590.41
138_A142_G0.6540.40
193_K197_K0.6510.40
77_V93_S0.6480.40
28_A112_A0.6450.40
129_D169_P0.6450.40
78_L96_L0.6420.39
139_M179_E0.6410.39
160_A163_E0.6390.39
35_K162_T0.6380.39
19_L25_L0.6330.39
22_S119_P0.6300.38
91_I118_D0.6290.38
81_L91_I0.6260.38
12_E116_E0.6260.38
28_A75_A0.6250.38
149_G160_A0.6250.38
9_A78_L0.6230.38
129_D161_I0.6210.37
151_K191_L0.6170.37
15_L142_G0.6160.37
124_A193_K0.6140.37
69_C113_D0.6140.37
50_L59_V0.6130.37
101_D106_Q0.6090.36
96_L183_A0.6030.36
37_L59_V0.6010.36
108_F111_L0.5990.36
69_C90_L0.5930.35
23_P30_S0.5890.35
144_K192_T0.5880.35
125_P144_K0.5880.35
109_V189_D0.5850.34
151_K171_P0.5830.34
147_H151_K0.5830.34
48_L180_E0.5830.34
29_R111_L0.5820.34
11_I192_T0.5810.34
106_Q109_V0.5810.34
51_V168_A0.5760.34
37_L104_V0.5750.34
66_D140_R0.5730.33
71_V185_E0.5730.33
105_V190_A0.5720.33
26_K30_S0.5690.33
137_K144_K0.5680.33
82_R91_I0.5670.33
36_V70_T0.5620.32
19_L60_L0.5620.32
54_E141_G0.5610.32
92_R169_P0.5590.32
185_E197_K0.5540.32
196_E199_E0.5530.32
38_R70_T0.5510.32
94_G106_Q0.5440.31
145_F149_G0.5440.31
128_G159_E0.5400.31
31_R71_V0.5380.31
61_G167_M0.5340.30
78_L106_Q0.5330.30
110_A113_D0.5330.30
130_I161_I0.5330.30
14_L59_V0.5310.30
144_K187_A0.5300.30
50_L158_A0.5300.30
120_A145_F0.5290.30
86_Q94_G0.5280.30
15_L48_L0.5260.30
79_P88_T0.5260.30
85_Q104_V0.5250.30
135_I144_K0.5230.29
86_Q90_L0.5210.29
174_V177_F0.5200.29
191_L195_L0.5200.29
18_F73_A0.5200.29
110_A161_I0.5190.29
72_I99_Q0.5170.29
12_E118_D0.5150.29
11_I107_N0.5110.28
141_G145_F0.5100.28
132_A181_T0.5080.28
29_R190_A0.5060.28
195_L199_E0.5060.28
9_A63_W0.5050.28
142_G166_R0.5020.28
143_A147_H0.5020.28
64_A168_A0.5010.28
27_T47_S0.5010.28
89_A112_A0.5010.28
96_L187_A0.5000.28
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  
3cnuA 2 0.5373 99.1 0.771 Contact Map
4jgxA 2 0.5871 98.9 0.783 Contact Map
2qztA 2 0.5075 98.5 0.813 Contact Map
1iktA 1 0.5423 98.4 0.818 Contact Map
1pz4A 1 0.5174 98.4 0.819 Contact Map
1c44A 1 0.5572 98.3 0.824 Contact Map
4nurA 2 0.5622 98.1 0.832 Contact Map
2cx7A 1 0.592 98 0.835 Contact Map
4pdxA 2 0.5771 98 0.836 Contact Map
2yheA 3 0.597 98 0.836 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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