GREMLIN Database
UBIE - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE
UniProt: P0A887 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11473
Length: 251 (209)
Sequences: 8249 (6072)
Seq/√Len: 420.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
66_T90_K3.3421.00
98_E121_Q3.0271.00
94_A122_A2.8821.00
71_A142_G2.8781.00
150_D227_D2.8091.00
156_M166_L2.6991.00
72_G93_L2.6481.00
83_R111_I2.6211.00
92_V134_F2.5991.00
135_D161_K2.5951.00
103_M106_E2.5881.00
68_L134_F2.5651.00
98_E102_K2.4511.00
157_Y230_F2.4001.00
217_D220_T2.3891.00
129_F134_F2.3301.00
155_S158_R2.3011.00
90_K118_E2.2001.00
137_I156_M2.1881.00
70_L156_M2.1671.00
150_D154_R2.1341.00
67_V81_F2.1071.00
72_G78_T2.1001.00
101_L121_Q2.0571.00
150_D224_M2.0431.00
30_H99_S2.0401.00
222_K226_Q1.9781.00
78_T91_V1.9571.00
79_A108_L1.9461.00
108_L119_Y1.9251.00
160_L166_L1.8701.00
149_K224_M1.8621.00
104_G119_Y1.8591.00
30_H97_N1.8201.00
146_V152_A1.7971.00
101_L119_Y1.7721.00
92_V120_V1.6991.00
65_Q136_C1.6821.00
148_D151_K1.6671.00
122_A128_P1.6431.00
71_A139_I1.6381.00
37_D74_T1.6371.00
137_I160_L1.6221.00
66_T92_V1.6151.00
93_L119_Y1.5761.00
79_A107_K1.5061.00
223_A226_Q1.4821.00
102_K105_R1.4801.00
223_A227_D1.4751.00
62_R65_Q1.4651.00
96_I123_N1.4441.00
151_K154_R1.4361.00
160_L164_G1.4091.00
160_L230_F1.4021.00
67_V136_C1.3901.00
66_T161_K1.3861.00
66_T134_F1.3831.00
155_S159_V1.3821.00
92_V118_E1.3641.00
123_N126_A1.3601.00
80_K83_R1.3411.00
124_A142_G1.3401.00
54_F236_Y1.3311.00
128_P155_S1.3121.00
78_T93_L1.3001.00
35_K38_V1.2921.00
75_G104_G1.2861.00
79_A111_I1.2421.00
68_L137_I1.2291.00
94_A127_L1.2281.00
66_T135_D1.2281.00
58_C236_Y1.2091.00
105_R109_R1.2031.00
137_I159_V1.1971.00
70_L124_A1.1961.00
55_T167_L1.1751.00
54_F58_C1.1731.00
131_D158_R1.1621.00
66_T133_T1.1581.00
82_S116_N1.1501.00
75_G119_Y1.1491.00
130_P133_T1.1471.00
76_D107_K1.1431.00
150_D228_A1.1301.00
94_A120_V1.1251.00
67_V91_V1.1251.00
125_E148_D1.1081.00
222_K235_Y1.0991.00
156_M160_L1.0761.00
101_L105_R1.0701.00
202_A206_R1.0661.00
48_H51_W1.0561.00
127_L159_V1.0501.00
95_D101_L1.0491.00
127_L155_S1.0481.00
99_S102_K1.0451.00
26_A30_H1.0401.00
53_R57_D1.0381.00
78_T117_V1.0361.00
80_K84_L1.0281.00
141_F145_N1.0261.00
72_G104_G1.0211.00
139_I142_G1.0181.00
152_A156_M1.0151.00
61_V65_Q1.0111.00
37_D107_K1.0081.00
69_D93_L1.0081.00
190_V194_I0.9951.00
79_A83_R0.9861.00
185_A189_H0.9831.00
65_Q89_G0.9761.00
220_T223_A0.9651.00
106_E110_N0.9641.00
200_N204_S0.9531.00
53_R80_K0.9391.00
218_Q222_K0.9391.00
120_V129_F0.9251.00
77_L140_S0.9211.00
70_L137_I0.9211.00
70_L94_A0.9181.00
93_L104_G0.9171.00
157_Y160_L0.9161.00
106_E109_R0.9141.00
92_V129_F0.9111.00
76_D80_K0.9041.00
55_T77_L0.8931.00
143_L146_V0.8921.00
64_G89_G0.8911.00
187_S191_L0.8891.00
59_S136_C0.8871.00
53_R84_L0.8861.00
193_R196_S0.8831.00
81_F138_T0.8791.00
143_L221_L0.8761.00
78_T119_Y0.8741.00
101_L104_G0.8731.00
196_S202_A0.8721.00
141_F144_R0.8691.00
82_S113_V0.8681.00
83_R113_V0.8671.00
74_T100_M0.8651.00
129_F159_V0.8641.00
97_N100_M0.8631.00
126_A151_K0.8591.00
57_D84_L0.8561.00
185_A188_F0.8471.00
139_I146_V0.8421.00
191_L194_I0.8411.00
183_Y186_Y0.8361.00
143_L170_E0.8341.00
88_T91_V0.8301.00
166_L225_M0.8291.00
54_F57_D0.8271.00
133_T161_K0.8251.00
201_D204_S0.8241.00
102_K106_E0.8221.00
222_K233_V0.8211.00
33_A100_M0.8171.00
144_R170_E0.8081.00
170_E221_L0.8081.00
142_G146_V0.8031.00
108_L117_V0.7991.00
133_T159_V0.7981.00
47_I50_L0.7971.00
179_L182_A0.7811.00
157_Y228_A0.7771.00
133_T158_R0.7721.00
71_A146_V0.7711.00
107_K111_I0.7641.00
186_Y190_V0.7621.00
182_A186_Y0.7591.00
26_A121_Q0.7581.00
224_M228_A0.7571.00
189_H194_I0.7521.00
143_L152_A0.7511.00
124_A146_V0.7451.00
136_C164_G0.7421.00
103_M107_K0.7421.00
173_K217_D0.7401.00
219_D222_K0.7391.00
46_G49_R0.7351.00
65_Q135_D0.7221.00
45_F48_H0.7131.00
70_L152_A0.7131.00
206_R210_E0.7121.00
166_L230_F0.7071.00
44_S47_I0.7041.00
183_Y187_S0.7021.00
134_F159_V0.7021.00
226_Q233_V0.6961.00
24_M27_H0.6961.00
58_C234_D0.6961.00
192_P195_G0.6951.00
41_D49_R0.6941.00
74_T107_K0.6931.00
100_M141_F0.6911.00
91_V117_V0.6891.00
219_D235_Y0.6851.00
68_L159_V0.6841.00
205_Y208_L0.6761.00
108_L113_V0.6701.00
218_Q235_Y0.6701.00
25_V126_A0.6691.00
44_S48_H0.6670.99
98_E105_R0.6660.99
45_F49_R0.6630.99
30_H98_E0.6630.99
145_N211_S0.6620.99
79_A82_S0.6600.99
132_N162_P0.6580.99
34_S103_M0.6540.99
66_T132_N0.6530.99
95_D100_M0.6500.99
189_H193_R0.6490.99
131_D159_V0.6470.99
181_K184_D0.6460.99
196_S199_A0.6420.99
41_D48_H0.6370.99
71_A96_I0.6360.99
126_A155_S0.6330.99
79_A119_Y0.6300.99
151_K155_S0.6290.99
154_R228_A0.6250.99
180_S183_Y0.6240.99
141_F169_L0.6190.99
206_R209_A0.6170.99
215_H221_L0.6150.99
93_L117_V0.6140.99
68_L94_A0.6130.99
105_R119_Y0.6080.99
144_R169_L0.6060.99
27_H31_S0.6060.99
140_S169_L0.6040.99
184_D187_S0.5980.99
74_T103_M0.5980.99
219_D223_A0.5970.99
132_N158_R0.5940.99
113_V117_V0.5940.99
29_F33_A0.5930.99
125_E152_A0.5910.99
69_D145_N0.5880.99
29_F144_R0.5880.99
46_G50_L0.5860.99
198_V202_A0.5850.99
203_D206_R0.5830.99
67_V138_T0.5820.99
77_L80_K0.5820.99
226_Q232_S0.5800.99
158_R161_K0.5800.99
198_V201_D0.5770.99
141_F171_F0.5750.99
48_H52_K0.5750.99
182_A191_L0.5750.99
220_T224_M0.5730.98
64_G135_D0.5730.98
154_R158_R0.5720.98
60_G165_R0.5710.98
28_V32_V0.5670.98
188_F192_P0.5670.98
39_M43_M0.5660.98
58_C61_V0.5660.98
205_Y210_E0.5640.98
216_P220_T0.5620.98
153_L228_A0.5590.98
82_S91_V0.5580.98
56_I84_L0.5570.98
224_M227_D0.5540.98
105_R118_E0.5520.98
96_I125_E0.5470.98
27_H30_H0.5460.98
63_R88_T0.5450.98
69_D138_T0.5440.98
213_R216_P0.5410.98
179_L186_Y0.5400.98
143_L168_V0.5390.98
47_I51_W0.5370.98
168_V225_M0.5370.98
189_H192_P0.5350.98
132_N161_K0.5310.98
59_S167_L0.5300.97
153_L168_V0.5290.97
193_R202_A0.5290.97
58_C167_L0.5280.97
44_S51_W0.5280.97
186_Y189_H0.5250.97
190_V193_R0.5240.97
136_C165_R0.5240.97
179_L183_Y0.5230.97
94_A129_F0.5210.97
108_L112_G0.5200.97
186_Y192_P0.5190.97
64_G136_C0.5190.97
131_D155_S0.5190.97
38_V42_L0.5190.97
194_I197_L0.5180.97
137_I164_G0.5150.97
148_D154_R0.5140.97
40_N145_N0.5140.97
67_V89_G0.5140.97
195_G200_N0.5120.97
29_F145_N0.5110.97
128_P159_V0.5100.97
108_L116_N0.5090.97
107_K110_N0.5090.97
43_M171_F0.5090.97
156_M168_V0.5050.97
56_I81_F0.5050.97
185_A190_V0.5040.97
199_A203_D0.5030.97
72_G95_D0.5030.97
180_S189_H0.5020.97
187_S212_I0.5020.97
133_T162_P0.5000.96
153_L225_M0.5000.96
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  
4obxA 2 0.8765 100 0.369 Contact Map
4pneA 2 0.8486 100 0.448 Contact Map
2o57A 2 0.8367 100 0.46 Contact Map
3bkxA 2 0.8685 100 0.461 Contact Map
3dtnA 2 0.8725 100 0.464 Contact Map
1vl5A 1 0.7211 100 0.478 Contact Map
4kdcA 1 0.8008 100 0.479 Contact Map
3hemA 2 0.8566 100 0.48 Contact Map
3dlcA 1 0.8606 100 0.481 Contact Map
1y8cA 1 0.8645 100 0.481 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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