GREMLIN Database
Q9HQI3 - Geranylgeranyl diphosphate synthase
UniProt: Q9HQI3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 347 (312)
Sequences: 7842 (5217)
Seq/√Len: 295.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
214_D217_T3.2401.00
227_R318_E3.1021.00
320_K340_D3.0091.00
297_Q301_D2.9761.00
61_A86_V2.9521.00
227_R315_L2.9191.00
271_H307_Y2.9161.00
111_D121_R2.7111.00
205_T222_Y2.6711.00
288_T291_A2.6151.00
311_L314_D2.6071.00
267_H307_Y2.6031.00
320_K336_E2.5391.00
193_E226_L2.3581.00
303_G306_Q2.3281.00
205_T218_V2.3091.00
317_E321_A2.2731.00
267_H304_S2.2711.00
324_E336_E2.2431.00
278_L281_A2.2381.00
223_N322_H2.2121.00
276_D301_D2.2081.00
238_V308_A2.0681.00
107_M171_Q2.0481.00
201_A222_Y2.0471.00
159_T205_T2.0281.00
60_T221_L1.9731.00
219_E223_N1.9581.00
306_Q310_D1.9311.00
159_T209_L1.9181.00
332_R336_E1.9011.00
208_G221_L1.8901.00
244_P247_E1.8681.00
184_V187_E1.8541.00
314_D318_E1.8361.00
102_I119_V1.8141.00
273_V276_D1.8051.00
321_A324_E1.8001.00
313_E317_E1.7681.00
156_A206_L1.7621.00
300_Q305_I1.7291.00
17_R62_E1.7181.00
306_Q309_S1.7021.00
60_T204_A1.6981.00
234_I308_A1.6951.00
88_S145_E1.6931.00
103_H133_D1.6881.00
223_N227_R1.6831.00
310_D314_D1.6651.00
141_E162_E1.6601.00
155_R218_V1.6571.00
268_A299_L1.6471.00
22_N51_R1.6371.00
124_D127_T1.6291.00
204_A225_G1.6121.00
171_Q174_D1.5971.00
103_H132_G1.5901.00
106_I125_T1.5751.00
24_A27_D1.5731.00
294_A297_Q1.5661.00
24_A91_V1.5661.00
328_E332_R1.5421.00
213_A217_T1.5361.00
64_L217_T1.5281.00
238_V305_I1.5041.00
190_E194_L1.5021.00
310_D313_E1.4981.00
100_T167_I1.4851.00
299_L304_S1.4781.00
267_H270_E1.4761.00
320_K339_A1.4731.00
238_V309_S1.4671.00
243_V248_L1.4631.00
24_A88_S1.4551.00
155_R215_E1.4521.00
112_L117_P1.4451.00
220_A325_V1.4441.00
311_L315_L1.4411.00
278_L294_A1.4291.00
110_D254_S1.4111.00
201_A226_L1.4061.00
138_K141_E1.3921.00
251_Q254_S1.3921.00
329_N332_R1.3841.00
207_P211_L1.3791.00
208_G213_A1.3751.00
327_P332_R1.3741.00
166_H194_L1.3731.00
322_H325_V1.3721.00
155_R158_R1.3641.00
64_L207_P1.3571.00
230_Q315_L1.3491.00
215_E219_E1.3441.00
316_V320_K1.3441.00
185_T270_E1.3391.00
278_L282_E1.3331.00
185_T311_L1.3301.00
270_E307_Y1.3271.00
294_A298_A1.3251.00
188_Y192_V1.3241.00
257_V289_E1.3071.00
227_R322_H1.2981.00
193_E230_Q1.2911.00
145_E158_R1.2841.00
267_H271_H1.2811.00
224_Y323_L1.2491.00
316_V343_I1.2481.00
307_Y310_D1.2461.00
199_L203_A1.2421.00
22_N25_I1.2301.00
268_A304_S1.2301.00
180_R187_E1.2161.00
296_V300_Q1.2021.00
190_E193_E1.2021.00
278_L283_D1.1961.00
185_T267_H1.1951.00
16_E19_Q1.1871.00
290_A293_Q1.1821.00
23_D27_D1.1691.00
293_Q297_Q1.1641.00
304_S307_Y1.1621.00
89_A206_L1.1531.00
107_M130_L1.1521.00
333_H337_Q1.1521.00
58_L90_A1.1471.00
328_E333_H1.1431.00
155_R209_L1.1431.00
92_S143_M1.1401.00
235_Q309_S1.1371.00
333_H336_E1.1361.00
185_T307_Y1.1291.00
268_A302_A1.1271.00
220_A322_H1.1261.00
26_D42_R1.1251.00
118_A121_R1.1241.00
235_Q312_A1.1211.00
242_T305_I1.1211.00
141_E165_T1.1191.00
173_M190_E1.1181.00
205_T219_E1.1121.00
48_G51_R1.1071.00
64_L211_L1.1071.00
42_R46_E1.1051.00
272_G276_D1.1041.00
47_A116_S1.1021.00
253_G292_V1.1001.00
192_V230_Q1.0961.00
189_L230_Q1.0881.00
224_Y339_A1.0851.00
315_L318_E1.0831.00
60_T64_L1.0741.00
177_F191_M1.0711.00
144_L157_M1.0701.00
272_G302_A1.0691.00
62_E331_A1.0611.00
109_D125_T1.0581.00
89_A156_A1.0481.00
263_I311_L1.0471.00
188_Y266_L1.0451.00
272_G298_A1.0431.00
120_H125_T1.0431.00
63_A326_L1.0371.00
61_A66_D1.0311.00
263_I308_A1.0271.00
324_E332_R1.0261.00
191_M260_K1.0241.00
336_E340_D1.0241.00
57_L93_I1.0221.00
340_D344_E1.0111.00
208_G218_V1.0111.00
317_E320_K1.0071.00
106_I129_I1.0051.00
56_V204_A0.9991.00
297_Q300_Q0.9981.00
21_V25_I0.9881.00
63_A221_L0.9871.00
66_D83_H0.9861.00
64_L213_A0.9841.00
274_D277_G0.9821.00
291_A294_A0.9751.00
174_D260_K0.9741.00
239_L248_L0.9721.00
279_L283_D0.9711.00
268_A298_A0.9691.00
56_V228_V0.9641.00
189_L315_L0.9561.00
143_M156_A0.9541.00
313_E344_E0.9511.00
41_S135_L0.9511.00
318_E321_A0.9491.00
216_E220_A0.9451.00
59_L62_E0.9431.00
329_N333_H0.9421.00
224_Y322_H0.9401.00
156_A210_L0.9371.00
253_G296_V0.9321.00
20_Q23_D0.9311.00
20_Q84_V0.9301.00
158_R162_E0.9301.00
19_Q22_N0.9261.00
15_R19_Q0.9131.00
223_N318_E0.9091.00
293_Q296_V0.9001.00
245_S251_Q0.8981.00
43_Y122_E0.8981.00
38_Y42_R0.8951.00
217_T220_A0.8901.00
24_A28_D0.8891.00
173_M194_L0.8871.00
43_Y123_Y0.8731.00
189_L311_L0.8711.00
91_V142_I0.8651.00
316_V339_A0.8631.00
309_S313_E0.8631.00
26_D46_E0.8621.00
267_H311_L0.8621.00
53_R232_F0.8611.00
177_F187_E0.8591.00
23_D26_D0.8571.00
276_D302_A0.8541.00
58_L86_V0.8481.00
14_V55_A0.8451.00
66_D86_V0.8441.00
40_A119_V0.8411.00
219_E222_Y0.8321.00
238_V242_T0.8291.00
300_Q306_Q0.8291.00
28_D145_E0.8291.00
35_E39_E0.8281.00
226_L230_Q0.8271.00
325_V332_R0.8271.00
239_L243_V0.8271.00
22_N26_D0.8261.00
102_I128_A0.8261.00
220_A224_Y0.8251.00
254_S258_E0.8241.00
289_E293_Q0.8221.00
16_E20_Q0.8101.00
57_L90_A0.8081.00
97_Q100_T0.8031.00
280_D283_D0.8031.00
89_A210_L0.8021.00
117_P121_R0.7980.99
305_I309_S0.7970.99
119_V123_Y0.7960.99
159_T202_A0.7950.99
337_Q340_D0.7950.99
215_E218_V0.7920.99
177_F183_V0.7870.99
19_Q23_D0.7860.99
314_D317_E0.7860.99
52_L342_L0.7850.99
100_T199_L0.7840.99
20_Q87_M0.7760.99
21_V58_L0.7720.99
248_L252_R0.7720.99
185_T266_L0.7710.99
281_A284_P0.7680.99
36_R176_D0.7630.99
138_K165_T0.7620.99
61_A211_L0.7620.99
112_L245_S0.7620.99
163_T202_A0.7580.99
204_A221_L0.7580.99
209_L218_V0.7560.99
287_V291_A0.7540.99
102_I135_L0.7490.99
85_D146_T0.7470.99
304_S308_A0.7450.99
167_I200_Y0.7450.99
140_F161_A0.7400.99
278_L295_A0.7390.99
14_V18_R0.7340.99
241_L264_I0.7320.99
110_D240_D0.7310.99
127_T172_A0.7280.99
281_A285_A0.7280.99
238_V312_A0.7270.99
232_F236_D0.7260.99
196_T232_F0.7260.99
51_R54_P0.7180.99
307_Y311_L0.7170.99
41_S131_A0.7170.99
224_Y335_L0.7140.99
201_A205_T0.7130.99
313_E343_I0.7120.99
203_A207_P0.7080.99
59_L334_R0.7070.99
242_T309_S0.7040.99
159_T163_T0.7020.99
299_L302_A0.7010.99
295_A299_L0.7000.99
67_T85_D0.6980.99
107_M168_C0.6980.99
53_R97_Q0.6960.99
223_N226_L0.6960.99
46_E116_S0.6960.99
263_I267_H0.6950.99
202_A206_L0.6940.99
200_Y203_A0.6890.99
280_D284_P0.6870.98
84_V88_S0.6850.98
189_L193_E0.6840.98
204_A224_Y0.6840.98
185_T263_I0.6830.98
271_H303_G0.6820.98
111_D120_H0.6780.98
14_V21_V0.6770.98
240_D248_L0.6750.98
243_V247_E0.6750.98
67_T83_H0.6740.98
166_H193_E0.6730.98
67_T84_V0.6720.98
102_I106_I0.6720.98
137_S164_C0.6720.98
49_G53_R0.6690.98
231_A319_G0.6630.98
89_A143_M0.6630.98
43_Y116_S0.6630.98
163_T198_V0.6600.98
85_D147_G0.6580.98
292_V296_V0.6570.98
141_E145_E0.6570.98
93_I206_L0.6530.98
197_A230_Q0.6520.98
173_M191_M0.6520.98
331_A334_R0.6510.98
217_T327_P0.6500.98
310_D317_E0.6490.98
330_E333_H0.6480.98
242_T300_Q0.6480.98
50_K236_D0.6480.98
141_E158_R0.6460.98
275_V278_L0.6450.98
218_V222_Y0.6440.98
57_L203_A0.6430.98
283_D286_D0.6430.98
321_A325_V0.6430.98
334_R337_Q0.6410.98
198_V201_A0.6380.98
185_T189_L0.6380.98
89_A146_T0.6360.98
30_P38_Y0.6350.97
147_G153_G0.6340.97
17_R58_L0.6340.97
40_A43_Y0.6320.97
86_V210_L0.6320.97
272_G275_V0.6320.97
206_L210_L0.6310.97
268_A295_A0.6310.97
88_S146_T0.6310.97
92_S160_L0.6290.97
220_A223_N0.6280.97
60_T207_P0.6280.97
265_T295_A0.6270.97
99_F107_M0.6250.97
17_R20_Q0.6240.97
107_M175_I0.6230.97
236_D239_L0.6210.97
18_R22_N0.6210.97
227_R230_Q0.6210.97
36_R39_E0.6200.97
30_P42_R0.6190.97
194_L198_V0.6180.97
24_A87_M0.6170.97
40_A131_A0.6160.97
160_L206_L0.6160.97
106_I126_E0.6140.97
92_S146_T0.6130.97
41_S134_T0.6120.97
231_A312_A0.6120.97
290_A294_A0.6100.97
144_L158_R0.6090.97
136_Y168_C0.6080.97
298_A301_D0.6070.97
284_P291_A0.6070.97
236_D250_K0.6030.97
163_T201_A0.6020.97
245_S252_R0.6000.96
282_E286_D0.5990.96
154_L158_R0.5990.96
95_V135_L0.5980.96
244_P248_L0.5980.96
205_T209_L0.5970.96
96_I160_L0.5970.96
44_I262_T0.5970.96
330_E334_R0.5960.96
117_P122_E0.5960.96
39_E43_Y0.5950.96
41_S44_I0.5940.96
186_D190_E0.5940.96
99_F136_Y0.5900.96
173_M176_D0.5900.96
137_S168_C0.5890.96
57_L207_P0.5890.96
189_L234_I0.5880.96
231_A316_V0.5870.96
44_I119_V0.5850.96
50_K232_F0.5840.96
104_D108_D0.5830.96
305_I308_A0.5810.96
196_T236_D0.5810.96
105_D113_R0.5800.96
323_L336_E0.5800.96
88_S142_I0.5800.96
174_D178_E0.5770.96
235_Q238_V0.5760.96
178_E258_E0.5760.96
328_E336_E0.5740.95
63_A331_A0.5730.95
174_D261_T0.5730.95
45_L98_S0.5720.95
142_I145_E0.5720.95
245_S248_L0.5710.95
20_Q24_A0.5680.95
21_V91_V0.5640.95
96_I139_A0.5640.95
337_Q341_Y0.5640.95
313_E340_D0.5620.95
195_K233_Q0.5610.95
13_A334_R0.5590.95
273_V277_G0.5570.95
288_T293_Q0.5560.95
176_D180_R0.5530.94
140_F143_M0.5510.94
28_D142_I0.5500.94
234_I312_A0.5490.94
95_V142_I0.5490.94
58_L62_E0.5470.94
54_P98_S0.5470.94
53_R196_T0.5430.94
155_R159_T0.5430.94
32_A35_E0.5420.94
136_Y164_C0.5400.94
96_I99_F0.5380.94
198_V202_A0.5380.94
281_A291_A0.5380.94
254_S257_V0.5370.94
18_R55_A0.5360.94
313_E316_V0.5350.93
279_L282_E0.5350.93
44_I98_S0.5330.93
187_E190_E0.5330.93
271_H302_A0.5320.93
303_G307_Y0.5290.93
183_V187_E0.5260.93
193_E198_V0.5230.93
277_G280_D0.5230.93
311_L318_E0.5220.93
13_A17_R0.5200.93
110_D120_H0.5190.92
162_E205_T0.5190.92
53_R101_L0.5170.92
224_Y228_V0.5170.92
21_V87_M0.5170.92
100_T196_T0.5120.92
87_M91_V0.5120.92
101_L114_R0.5080.92
26_D30_P0.5070.92
277_G294_A0.5070.92
52_L200_Y0.5060.91
298_A302_A0.5050.91
20_Q27_D0.5030.91
58_L87_M0.5030.91
250_K255_D0.5020.91
242_T248_L0.5010.91
52_L338_I0.5000.91
30_P33_E0.5000.91
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  
1wy0A 2 0.9366 100 0.106 Contact Map
3oyrA 2 0.9366 100 0.118 Contact Map
4lobA 2 0.8905 100 0.118 Contact Map
4jxyA 5 0.8847 100 0.12 Contact Map
3wjkA 2 0.902 100 0.122 Contact Map
3mzvA 2 0.9308 100 0.123 Contact Map
3aqbB 1 0.9222 100 0.13 Contact Map
3pkoA 2 0.9366 100 0.13 Contact Map
3nf2A 2 0.9164 100 0.132 Contact Map
3rmgA 2 0.879 100 0.134 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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