GREMLIN Database
UPPS - Tritrans,polycis-undecaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific)
UniProt: Q9HP68 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 302 (234)
Sequences: 4523 (2848)
Seq/√Len: 186.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
26_A70_E3.3281.00
170_A189_R3.2461.00
170_A175_D2.9451.00
57_T74_L2.8081.00
113_R145_G2.6111.00
230_P239_D2.5681.00
138_S141_A2.5361.00
110_H139_R2.4111.00
113_R144_D2.3481.00
101_R132_A2.3301.00
44_D48_D2.2911.00
97_E128_R2.2491.00
36_R46_P2.2481.00
63_W241_L2.2451.00
47_T91_H2.2141.00
201_I218_A2.2131.00
239_D242_R2.1061.00
66_D237_K2.0631.00
210_T218_A2.0321.00
161_L186_I2.0181.00
86_P90_Q1.9981.00
122_T134_T1.9941.00
130_R134_T1.9461.00
121_D162_T1.9421.00
110_H143_Y1.9361.00
162_T191_H1.9041.00
236_S239_D1.8971.00
56_T59_R1.8921.00
198_V221_S1.8891.00
65_S145_G1.8791.00
226_F246_T1.8681.00
24_A69_V1.8241.00
149_N195_V1.8171.00
157_R197_D1.7981.00
64_C240_L1.7661.00
71_E195_V1.7641.00
58_E103_F1.7601.00
122_T137_E1.7401.00
177_D180_D1.6861.00
83_E256_Q1.6521.00
226_F243_A1.6481.00
71_E149_N1.6451.00
158_D162_T1.6371.00
59_R237_K1.6171.00
41_E231_Y1.6091.00
166_G189_R1.6071.00
28_V240_L1.6001.00
127_Q131_D1.5981.00
118_A133_I1.5901.00
169_D173_A1.5881.00
164_A186_I1.5681.00
117_R147_T1.5641.00
167_V185_A1.5121.00
159_E191_H1.5041.00
124_R153_A1.4991.00
71_E196_R1.4981.00
52_S55_R1.4901.00
71_E147_T1.4901.00
67_L241_L1.4861.00
201_I221_S1.4641.00
168_A171_V1.4561.00
67_L244_I1.4461.00
30_V60_V1.4401.00
113_R143_Y1.4301.00
182_D185_A1.4281.00
172_A178_P1.4011.00
158_D191_H1.3751.00
135_Y139_R1.3741.00
167_V181_I1.3601.00
244_I248_E1.3591.00
134_T138_S1.3591.00
157_R183_A1.3551.00
122_T130_R1.3541.00
167_V189_R1.3401.00
156_G215_P1.3381.00
62_E112_D1.3361.00
73_T151_A1.3081.00
63_W66_D1.3011.00
131_D135_Y1.2861.00
62_E108_R1.2821.00
48_D51_Q1.2821.00
115_R147_T1.2611.00
121_D158_D1.2261.00
31_I201_I1.2111.00
104_A136_A1.2101.00
186_I189_R1.1971.00
125_L152_L1.1961.00
28_V244_I1.1931.00
30_V72_L1.1901.00
56_T236_S1.1661.00
246_T249_S1.1601.00
187_E197_D1.1591.00
162_T166_G1.1591.00
184_Q188_S1.1591.00
121_D124_R1.1541.00
172_A177_D1.1521.00
171_V176_L1.1451.00
160_L186_I1.1331.00
107_D111_A1.1321.00
176_L185_A1.1281.00
97_E129_V1.1271.00
127_Q130_R1.1191.00
74_L148_L1.1101.00
97_E132_A1.1061.00
56_T60_V1.0941.00
168_A181_I1.0901.00
119_I151_A1.0781.00
77_F89_Q1.0771.00
119_I192_T1.0661.00
104_A139_R1.0641.00
45_D48_D1.0561.00
117_R137_E1.0531.00
166_G169_D1.0491.00
119_I149_N1.0411.00
171_V174_G1.0371.00
165_R179_A1.0371.00
132_A135_Y1.0371.00
96_L152_L1.0361.00
159_E217_H1.0351.00
185_A189_R1.0351.00
114_V146_F1.0341.00
167_V176_L1.0311.00
58_E108_R1.0271.00
28_V69_V1.0221.00
54_A99_K1.0040.99
218_A221_S0.9950.99
73_T214_L0.9940.99
159_E162_T0.9930.99
77_F82_F0.9910.99
101_R135_Y0.9900.99
63_W240_L0.9900.99
169_D172_A0.9880.99
118_A122_T0.9880.99
200_L243_A0.9750.99
169_D179_A0.9700.99
20_E23_G0.9580.99
240_L244_I0.9580.99
129_V132_A0.9440.99
134_T137_E0.9430.99
171_V178_P0.9390.99
69_V244_I0.9350.99
241_L245_R0.9240.99
107_D139_R0.9230.99
208_E227_F0.9150.99
51_Q98_S0.9120.99
168_A172_A0.9110.99
61_L148_L0.9090.99
161_L164_A0.9060.99
60_V63_W0.9030.99
51_Q55_R0.8980.99
160_L164_A0.8970.99
210_T215_P0.8890.99
126_P129_V0.8870.99
245_R248_E0.8820.99
162_T165_R0.8800.99
237_K241_L0.8800.99
29_A198_V0.8770.99
29_A201_I0.8750.99
218_A225_V0.8750.99
252_A255_R0.8670.98
59_R236_S0.8660.98
24_A248_E0.8590.98
28_V64_C0.8550.98
164_A168_A0.8500.98
117_R149_N0.8490.98
161_L181_I0.8480.98
93_F125_L0.8480.98
74_L150_V0.8480.98
116_I136_A0.8470.98
61_L114_V0.8430.98
226_F239_D0.8420.98
48_D52_S0.8370.98
186_I190_L0.8310.98
117_R194_P0.8280.98
61_L146_F0.8210.98
65_S114_V0.8180.98
65_S146_F0.8140.98
165_R178_P0.8080.98
67_L240_L0.8060.98
153_A256_Q0.7950.97
167_V186_I0.7940.97
79_T155_G0.7930.97
242_R246_T0.7900.97
198_V218_A0.7890.97
123_G130_R0.7880.97
98_S102_E0.7850.97
117_R195_V0.7840.97
187_E190_L0.7830.97
118_A137_E0.7830.97
251_A257_T0.7750.97
185_A188_S0.7740.97
72_L146_F0.7690.97
96_L129_V0.7680.97
215_P219_N0.7670.97
32_Q76_A0.7650.97
164_A167_V0.7640.97
169_D178_P0.7620.97
180_D185_A0.7580.96
228_C243_A0.7510.96
82_F153_A0.7510.96
87_D90_Q0.7490.96
122_T133_I0.7440.96
238_V241_L0.7420.96
63_W237_K0.7380.96
61_L72_L0.7360.96
60_V237_K0.7350.96
36_R85_P0.7330.96
204_T228_C0.7320.96
231_Y234_E0.7250.95
156_G213_F0.7240.95
96_L99_K0.7220.95
80_E155_G0.7200.95
168_A178_P0.7180.95
205_G208_E0.7180.95
132_A136_A0.7160.95
220_G252_A0.7140.95
70_E147_T0.7140.95
168_A176_L0.7130.95
52_S56_T0.7110.95
85_P257_T0.7080.95
165_R168_A0.7070.95
42_H234_E0.7060.95
71_E198_V0.7050.95
208_E246_T0.7050.95
156_G159_E0.6990.94
94_D128_R0.6980.94
181_I185_A0.6950.94
23_G248_E0.6950.94
41_E234_E0.6930.94
80_E212_N0.6920.94
36_R257_T0.6900.94
188_S194_P0.6860.94
170_A188_S0.6850.94
65_S112_D0.6840.94
200_L226_F0.6830.94
198_V201_I0.6810.94
24_A244_I0.6800.94
161_L165_R0.6790.94
170_A173_A0.6770.93
64_C72_L0.6690.93
63_W67_L0.6640.93
175_D189_R0.6580.92
38_Y234_E0.6570.92
89_Q93_F0.6520.92
205_G231_Y0.6470.92
133_I152_L0.6420.91
59_R63_W0.6410.91
62_E66_D0.6370.91
176_L181_I0.6340.91
192_T198_V0.6330.91
133_I150_V0.6270.91
20_E248_E0.6260.90
55_R102_E0.6260.90
176_L180_D0.6250.90
192_T217_H0.6240.90
90_Q94_D0.6210.90
52_S59_R0.6210.90
96_L125_L0.6200.90
59_R62_E0.6160.90
228_C239_D0.6160.90
220_G255_R0.6160.90
131_D134_T0.6160.90
63_W236_S0.6150.90
204_T227_F0.6150.90
60_V240_L0.6120.89
118_A150_V0.6120.89
29_A213_F0.6120.89
80_E220_G0.6120.89
230_P234_E0.6100.89
78_S155_G0.6080.89
170_A176_L0.6080.89
24_A68_G0.6070.89
92_L96_L0.6060.89
24_A67_L0.6050.89
155_G212_N0.6040.89
93_F126_P0.6040.89
75_Y159_E0.6040.89
236_S242_R0.6030.89
76_A150_V0.6020.89
220_G254_W0.6020.89
165_R169_D0.5980.88
156_G160_L0.5980.88
100_L104_A0.5960.88
163_A186_I0.5950.88
210_T225_V0.5940.88
228_C235_F0.5920.88
168_A174_G0.5910.88
183_A187_E0.5900.88
94_D97_E0.5890.88
147_T195_V0.5890.88
222_E250_R0.5830.87
187_E194_P0.5830.87
75_Y212_N0.5820.87
110_H142_G0.5820.87
97_E126_P0.5800.87
166_G170_A0.5790.87
226_F242_R0.5760.86
192_T195_V0.5710.86
222_E252_A0.5690.86
100_L136_A0.5680.86
242_R245_R0.5660.85
208_E229_T0.5620.85
110_H140_T0.5620.85
129_V133_I0.5590.85
241_L248_E0.5590.85
121_D153_A0.5570.85
50_Y88_Q0.5570.85
30_V232_W0.5560.84
96_L100_L0.5560.84
228_C246_T0.5530.84
97_E101_R0.5500.84
104_A110_H0.5490.84
30_V202_I0.5480.84
75_Y210_T0.5450.83
118_A152_L0.5420.83
222_E255_R0.5410.83
245_R249_S0.5400.83
56_T63_W0.5400.83
181_I189_R0.5380.82
202_I243_A0.5380.82
62_E111_A0.5310.82
109_V114_V0.5280.81
235_F243_A0.5280.81
161_L183_A0.5260.81
171_V180_D0.5260.81
250_R253_S0.5260.81
40_R46_P0.5240.81
109_V140_T0.5210.80
125_L130_R0.5200.80
96_L150_V0.5200.80
116_I150_V0.5200.80
76_A89_Q0.5190.80
20_E245_R0.5190.80
178_P182_D0.5180.80
156_G210_T0.5160.80
52_S234_E0.5140.80
109_V148_L0.5130.79
42_H46_P0.5130.79
238_V242_R0.5120.79
101_R107_D0.5100.79
79_T212_N0.5090.79
139_R143_Y0.5090.79
61_L65_S0.5070.79
65_S113_R0.5040.78
50_Y95_L0.5040.78
32_Q77_F0.5030.78
178_P185_A0.5020.78
110_H136_A0.5010.78
108_R111_A0.5010.78
116_I148_L0.5000.78
30_V74_L0.5000.78
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 0.755 100 0.195 Contact Map
1f75A 2 0.7185 100 0.195 Contact Map
2vg3A 2 0.8377 100 0.199 Contact Map
4q9mA 2 0.7483 100 0.2 Contact Map
4h8eA 2 0.7781 100 0.204 Contact Map
2d2rA 2 0.7185 100 0.214 Contact Map
3ugsB 2 0.6887 100 0.229 Contact Map
2vg0A 2 0.7351 100 0.231 Contact Map
3wqlA 2 0.851 97.1 0.933 Contact Map
4umkA 2 0.5331 51.8 0.967 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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