GREMLIN Database
UPPS - Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)
UniProt: P60472 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13329
Length: 253 (232)
Sequences: 5078 (3259)
Seq/√Len: 214.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
161_K180_H3.4731.00
19_R63_E3.4191.00
219_V228_D2.7461.00
161_K166_N2.7231.00
50_V67_L2.6901.00
104_N136_G2.6091.00
29_G39_R2.5471.00
192_V209_I2.4601.00
129_A132_A2.4561.00
101_H130_L2.4431.00
90_V119_R2.4131.00
94_D123_R2.3881.00
37_K41_F2.3791.00
59_N226_E2.2601.00
104_N135_T2.2121.00
40_A84_A2.1991.00
56_F230_E2.1661.00
228_D231_G2.1161.00
49_S52_R2.0611.00
153_Q182_C2.0581.00
51_R96_E2.0571.00
79_A83_S2.0411.00
152_V177_L2.0171.00
101_H134_N2.0101.00
189_V212_A1.9551.00
121_Q125_R1.9541.00
58_A136_G1.9531.00
140_N186_L1.9431.00
112_D153_Q1.9411.00
113_T125_R1.9381.00
225_D228_D1.9301.00
201_I209_I1.8901.00
215_Y235_A1.8801.00
215_Y232_A1.8631.00
57_A229_F1.8431.00
64_A187_A1.7781.00
113_T128_E1.7771.00
148_R188_P1.7361.00
76_N245_G1.7181.00
64_A186_L1.7071.00
109_I124_I1.6981.00
115_R144_N1.6831.00
149_W153_Q1.6831.00
192_V212_A1.6651.00
64_A140_N1.6551.00
60_N230_E1.6311.00
34_K220_L1.6081.00
118_S122_E1.6001.00
168_Q171_Q1.5851.00
45_A48_K1.5601.00
52_R226_E1.5321.00
41_F44_K1.5311.00
150_D182_C1.5311.00
157_Q180_H1.5301.00
108_R138_T1.5211.00
55_S103_H1.5191.00
149_W182_C1.5021.00
64_A138_T1.4901.00
17_G62_I1.4741.00
155_V177_L1.4651.00
104_N134_N1.4641.00
158_L176_M1.4561.00
160_E164_Q1.4501.00
21_V229_F1.3821.00
23_I53_A1.3781.00
113_T121_Q1.3681.00
158_L180_H1.3671.00
158_L172_I1.3511.00
173_D176_M1.3421.00
60_N233_L1.3411.00
55_S99_S1.3401.00
126_K130_L1.3321.00
23_I65_L1.3311.00
125_R129_A1.3271.00
66_T142_A1.3031.00
163_Q169_P1.2971.00
148_R174_E1.2841.00
233_L237_A1.2831.00
56_F59_N1.2821.00
147_G206_L1.2731.00
116_F143_A1.2721.00
112_D149_W1.2701.00
122_E126_K1.2201.00
159_A162_V1.1931.00
178_N188_P1.1901.00
118_S121_Q1.1741.00
110_I183_M1.1701.00
24_I192_V1.1651.00
97_V127_S1.1651.00
150_D208_Q1.1621.00
106_R138_T1.1591.00
235_A238_N1.1561.00
70_F82_V1.1541.00
112_D115_R1.1501.00
90_V123_R1.1321.00
175_E179_Q1.1321.00
67_L139_L1.1271.00
49_S53_A1.1201.00
90_V120_L1.1121.00
110_I142_A1.1101.00
163_Q168_Q1.1091.00
153_Q157_Q1.1001.00
191_L232_A1.0951.00
177_L180_H1.0871.00
38_I41_F1.0861.00
89_F143_A1.0781.00
97_V130_L1.0711.00
108_R128_E1.0641.00
151_I177_L1.0611.00
49_S225_D1.0611.00
70_F75_W1.0601.00
159_A172_I1.0491.00
44_K91_W1.0421.00
66_T205_L1.0401.00
123_R126_K1.0391.00
110_I140_N1.0361.00
47_A92_A1.0291.00
199_H216_F1.0231.00
162_V167_L1.0181.00
157_Q160_E1.0071.00
67_L141_I1.0041.00
167_L176_M1.0031.00
109_I113_T1.0021.00
150_D153_Q0.9991.00
98_K130_L0.9991.00
107_L127_S0.9871.00
22_A189_V0.9811.00
151_I155_V0.9811.00
120_L123_R0.9611.00
56_F229_F0.9591.00
234_N237_A0.9591.00
160_E163_Q0.9561.00
209_I212_A0.9531.00
21_V62_I0.9511.00
162_V169_P0.9491.00
158_L167_L0.9421.00
21_V233_L0.9350.99
94_D126_K0.9330.99
209_I214_L0.9290.99
176_M180_H0.9220.99
44_K48_K0.9200.99
160_E170_D0.9170.99
125_R128_E0.9170.99
162_V165_G0.9100.99
58_A137_L0.9040.99
98_K102_R0.8990.99
229_F233_L0.8870.99
25_M69_A0.8870.99
105_V137_L0.8830.99
53_A56_F0.8720.99
72_S146_G0.8690.99
54_V139_L0.8680.99
108_R140_N0.8680.99
201_I206_L0.8660.99
144_N245_G0.8630.99
54_V105_V0.8630.99
156_R170_D0.8570.99
117_N120_L0.8440.99
152_V155_V0.8270.99
231_G235_A0.8260.99
171_Q176_M0.8240.99
226_E230_E0.8240.99
108_R186_L0.8200.99
65_L137_L0.8190.99
29_G78_P0.8180.99
215_Y228_D0.8180.99
189_V192_V0.8180.99
114_S121_Q0.8170.99
112_D144_N0.8150.99
22_A192_V0.8120.99
217_T232_A0.8110.98
155_V159_A0.8050.98
43_H81_E0.7970.98
17_G237_A0.7970.98
230_E234_N0.7810.98
73_E203_N0.7800.98
177_L181_V0.7790.98
89_F120_L0.7780.98
62_I233_L0.7730.98
41_F45_A0.7730.98
161_K179_Q0.7730.98
196_G199_H0.7690.98
241_R244_G0.7660.98
35_Q223_D0.7660.98
108_R185_E0.7630.98
58_A103_H0.7610.98
109_I128_E0.7600.98
147_G150_D0.7600.98
152_V172_I0.7590.98
75_W144_N0.7580.98
86_M116_F0.7580.98
146_G203_N0.7570.98
52_R225_D0.7560.98
80_Q83_S0.7530.98
195_T217_T0.7490.97
60_N229_F0.7460.97
156_R159_A0.7440.97
82_V86_M0.7420.97
73_E146_G0.7410.97
160_E169_P0.7400.97
21_V57_A0.7390.97
56_F226_E0.7380.97
227_Q230_E0.7310.97
159_A163_Q0.7280.97
51_R99_S0.7260.97
153_Q156_R0.7260.97
91_W95_S0.7250.97
199_H235_A0.7230.97
206_L210_A0.7210.97
158_L177_L0.7160.97
31_W223_D0.7130.97
196_G242_R0.7090.97
53_A226_E0.7060.96
52_R55_S0.7050.96
64_A189_V0.7040.96
152_V156_R0.7030.96
167_L171_Q0.7000.96
89_F92_A0.6980.96
56_F60_N0.6970.96
155_V158_L0.6960.96
178_N181_V0.6940.96
113_T124_I0.6930.96
189_V209_I0.6880.96
172_I176_M0.6870.96
179_Q185_E0.6850.96
156_R169_P0.6840.96
55_S59_N0.6830.96
176_M179_Q0.6780.96
124_I143_A0.6780.96
23_I193_I0.6750.95
220_L223_D0.6720.95
147_G204_F0.6690.95
54_V137_L0.6680.95
109_I141_I0.6670.95
219_V223_D0.6660.95
161_K164_Q0.6610.95
68_Y203_N0.6610.95
45_A49_S0.6610.95
63_E138_T0.6580.95
87_E119_R0.6540.95
58_A105_V0.6540.95
17_G233_L0.6540.95
183_M208_Q0.6540.95
213_E241_R0.6520.94
199_H218_D0.6490.94
124_I141_I0.6480.94
239_R242_R0.6450.94
18_C21_V0.6390.94
138_T186_L0.6380.94
178_N185_E0.6370.94
86_M117_N0.6330.94
48_K95_S0.6320.93
123_R127_S0.6310.93
99_S102_R0.6300.93
57_A65_L0.6290.93
191_L215_Y0.6290.93
43_H88_L0.6280.93
89_F141_I0.6250.93
167_L172_I0.6240.93
213_E239_R0.6230.93
16_H237_A0.6230.93
213_E244_G0.6200.93
96_E99_S0.6180.93
147_G151_I0.6160.93
159_A167_L0.6160.93
54_V65_L0.6120.92
83_S87_E0.6120.92
17_G61_G0.6110.92
22_A204_F0.6110.92
66_T110_I0.6050.92
97_V123_R0.6010.92
159_A169_P0.6000.92
217_T228_D0.5990.92
34_K223_D0.5990.92
120_L124_I0.5970.91
211_Y244_G0.5970.91
21_V193_I0.5940.91
198_E242_R0.5930.91
17_G60_N0.5910.91
122_E125_R0.5900.91
110_I205_L0.5900.91
224_F232_A0.5880.91
114_S144_N0.5850.91
201_I214_L0.5840.91
87_E91_W0.5840.91
154_G177_L0.5780.90
217_T224_F0.5780.90
33_K39_R0.5760.90
227_Q231_G0.5750.90
68_Y150_D0.5750.90
166_N180_H0.5740.90
73_E211_Y0.5720.90
211_Y241_R0.5710.90
193_I232_A0.5700.89
156_R160_E0.5690.89
69_A141_I0.5690.89
147_G201_I0.5690.89
158_L161_K0.5680.89
45_A52_R0.5670.89
15_A237_A0.5660.89
97_V101_H0.5580.88
169_P176_M0.5580.88
49_S56_F0.5560.88
239_R244_G0.5550.88
53_A229_F0.5540.88
71_S146_G0.5530.88
221_W224_F0.5450.87
89_F93_L0.5450.87
43_H85_L0.5430.87
52_R56_F0.5420.87
213_E242_R0.5400.87
68_Y211_Y0.5400.87
193_I224_F0.5380.87
196_G220_L0.5380.87
152_V174_E0.5350.86
90_V94_D0.5340.86
56_F225_D0.5320.86
72_S203_N0.5280.86
100_L105_V0.5250.85
195_T216_F0.5250.85
35_Q39_R0.5240.85
215_Y231_G0.5240.85
107_L141_I0.5220.85
163_Q166_N0.5210.85
107_L139_L0.5210.85
18_C237_A0.5200.85
93_L127_S0.5200.85
101_H133_G0.5190.85
234_N238_N0.5160.84
116_F121_Q0.5150.84
217_T235_A0.5140.84
92_A96_E0.5140.84
55_S58_A0.5130.84
179_Q184_H0.5130.84
190_D243_F0.5110.84
192_V214_L0.5110.84
93_L97_V0.5100.84
94_D98_K0.5080.83
35_Q38_I0.5070.83
225_D231_G0.5050.83
169_P173_D0.5050.83
39_R43_H0.5040.83
54_V58_A0.5040.83
162_V171_Q0.5020.83
174_E178_N0.5020.83
68_Y201_I0.5010.83
157_Q184_H0.5000.82
23_I221_W0.5000.82
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  
3sgvB 2 0.9012 100 0.087 Contact Map
1f75A 2 0.8577 100 0.093 Contact Map
2vg3A 2 0.9723 100 0.097 Contact Map
4q9mA 2 0.8933 100 0.108 Contact Map
4h8eA 2 0.9289 100 0.114 Contact Map
2d2rA 2 0.8577 100 0.122 Contact Map
3ugsB 2 0.8221 100 0.138 Contact Map
2vg0A 2 0.8775 100 0.142 Contact Map
3wqlA 2 0.9209 97.9 0.908 Contact Map
3bdkA 2 0.9684 57.5 0.959 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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