GREMLIN Database
Q9HPE1 - Phytoene synthase
UniProt: Q9HPE1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 322 (274)
Sequences: 3761 (2522)
Seq/√Len: 152.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
123_S126_E4.9951.00
222_E258_R4.6121.00
69_R113_Q4.5371.00
194_H216_E4.4221.00
160_A227_T3.9521.00
193_D216_E3.4151.00
190_S217_E2.8331.00
66_E113_Q2.7841.00
35_A98_H2.6351.00
103_E107_T2.5601.00
122_E126_E2.5501.00
118_K126_E2.4611.00
93_E97_R2.4331.00
73_L102_D2.3761.00
168_S225_Y2.3481.00
222_E255_R2.3331.00
69_R110_D2.3281.00
256_A275_R2.2791.00
123_S189_E2.2711.00
57_D60_V2.2491.00
62_R117_E2.2031.00
197_T200_Q2.2031.00
263_D266_T2.1211.00
252_D275_R2.1141.00
7_I93_E2.1051.00
73_L106_H2.0821.00
111_A134_S2.0091.00
35_A97_R1.9851.00
69_R106_H1.9661.00
160_A224_K1.9471.00
101_S144_D1.9351.00
38_V94_L1.9251.00
122_E192_A1.9021.00
36_T142_M1.8861.00
194_H212_E1.8301.00
129_E133_G1.8241.00
175_A179_H1.8151.00
211_R261_D1.7771.00
132_R159_A1.7631.00
124_H220_Y1.6761.00
39_L145_V1.6531.00
122_E188_A1.6491.00
200_Q205_T1.6391.00
190_S216_E1.6141.00
102_D106_H1.6121.00
218_L254_H1.5901.00
281_A285_A1.5781.00
9_T12_A1.5771.00
120_R198_V1.5711.00
190_S194_H1.5441.00
60_V63_E1.5351.00
66_E70_A1.5331.00
39_L141_M1.5301.00
134_S170_F1.5151.00
125_A128_E1.5141.00
128_E163_E1.4921.00
229_V251_A1.4801.00
111_A133_G1.4741.00
188_A192_A1.4701.00
114_A129_E1.4681.00
100_I141_M1.4481.00
140_Y159_A1.4421.00
71_A74_G1.4011.00
224_K227_T1.3961.00
135_A139_G1.3451.00
163_E224_K1.3451.00
40_Y44_R1.3351.00
67_G71_A1.3301.00
166_Q169_N1.3231.00
215_R258_R1.3171.00
47_D51_D1.3131.00
213_A217_E1.3111.00
196_V213_A1.3081.00
210_F214_M1.3061.00
278_W282_K1.2971.00
215_R262_C1.2741.00
132_R140_Y1.2731.00
39_L105_I1.2721.00
217_E220_Y1.2681.00
256_A259_E1.2551.00
47_D173_D1.2551.00
46_A68_I1.2511.00
282_K286_L1.2411.00
178_V201_L1.2381.00
32_V145_V1.2341.00
153_T234_Y1.2291.00
194_H213_A1.2281.00
252_D255_R1.2151.00
42_F46_A1.2151.00
190_S213_A1.2141.00
218_L258_R1.2021.00
14_Q37_Y1.1971.00
51_D173_D1.1951.00
171_L257_I1.1921.00
91_F105_I1.1891.00
190_S220_Y1.1881.00
59_G63_E1.1801.00
122_E189_E1.1691.00
235_L243_V1.1651.00
42_F109_I1.1621.00
115_D185_Y1.1561.00
218_L262_C1.1551.00
100_I105_I1.1521.00
35_A94_L1.1401.00
114_A133_G1.1391.00
222_E251_A1.1371.00
211_R263_D1.1371.00
47_D177_D1.1331.00
138_V169_N1.1190.99
169_N172_R1.1130.99
208_A212_E1.1120.99
63_E67_G1.1000.99
46_A109_I1.0910.99
132_R137_A1.0900.99
219_A258_R1.0900.99
200_Q209_G1.0860.99
118_K121_Y1.0820.99
124_H217_E1.0780.99
164_A168_S1.0750.99
124_H216_E1.0740.99
252_D279_L1.0730.99
76_R102_D1.0600.99
110_D129_E1.0590.99
136_V162_A1.0510.99
29_P32_V1.0480.99
190_S193_D1.0420.99
20_T249_L1.0410.99
189_E193_D1.0360.99
260_R267_A1.0340.99
225_Y250_Y1.0270.99
154_A234_Y1.0250.99
229_V247_A1.0230.99
175_A265_L1.0090.99
67_G70_A1.0010.99
92_R96_T1.0000.99
104_D140_Y0.9950.99
215_R219_A0.9910.99
72_A105_I0.9890.99
188_A198_V0.9880.99
124_H190_S0.9860.99
216_E220_Y0.9810.99
62_R113_Q0.9800.99
15_R22_H0.9750.99
32_V35_A0.9690.99
172_R250_Y0.9680.99
86_E90_A0.9670.99
98_H145_V0.9620.98
44_R139_G0.9580.98
196_V209_G0.9490.98
226_R251_A0.9460.98
157_H231_G0.9450.98
12_A16_R0.9450.98
168_S254_H0.9440.98
127_L167_L0.9430.98
34_H90_A0.9340.98
70_A74_G0.9310.98
200_Q207_D0.9280.98
178_V202_R0.9210.98
73_L77_D0.9150.98
176_E181_Y0.9140.98
44_R173_D0.9130.98
104_D144_D0.9110.98
71_A88_L0.9060.98
222_E254_H0.9040.98
114_A121_Y0.9030.98
32_V238_D0.8980.98
150_E153_T0.8940.98
95_A105_I0.8900.97
47_D169_N0.8890.97
71_A85_T0.8850.97
258_R262_C0.8840.97
7_I34_H0.8820.97
111_A170_F0.8810.97
191_R213_A0.8790.97
45_V85_T0.8770.97
47_D166_Q0.8770.97
158_A162_A0.8750.97
46_A112_M0.8710.97
101_S104_D0.8700.97
171_L254_H0.8670.97
21_F169_N0.8660.97
17_T48_D0.8650.97
21_F40_Y0.8650.97
223_R227_T0.8640.97
135_A166_Q0.8630.97
40_Y139_G0.8630.97
219_A223_R0.8570.97
157_H234_Y0.8560.97
21_F44_R0.8520.97
115_D183_R0.8500.97
44_R47_D0.8480.97
184_V198_V0.8480.97
53_T61_Q0.8480.97
11_K37_Y0.8470.97
44_R169_N0.8460.97
263_D267_A0.8440.97
40_Y169_N0.8420.96
40_Y135_A0.8370.96
44_R51_D0.8370.96
12_A15_R0.8290.96
196_V207_D0.8280.96
51_D169_N0.8280.96
135_A169_N0.8120.96
228_G247_A0.8090.96
69_R73_L0.8080.96
62_R116_L0.8070.95
274_P278_W0.8000.95
142_M146_M0.7860.95
108_F137_A0.7840.95
21_F135_A0.7830.95
271_L276_K0.7830.95
173_D177_D0.7780.95
44_R48_D0.7780.95
21_F138_V0.7780.95
74_G81_V0.7760.94
67_G85_T0.7750.94
164_A225_Y0.7700.94
260_R263_D0.7700.94
57_D61_Q0.7690.94
210_F264_V0.7680.94
120_R182_D0.7650.94
28_L36_T0.7640.94
198_V202_R0.7630.94
108_F112_M0.7630.94
27_L245_V0.7610.94
166_Q173_D0.7590.94
71_A84_D0.7530.94
252_D256_A0.7470.93
177_D185_Y0.7450.93
143_M155_A0.7440.93
156_P160_A0.7440.93
139_G166_Q0.7430.93
21_F139_G0.7420.93
146_M239_C0.7400.93
43_F134_S0.7400.93
275_R278_W0.7360.93
136_V163_E0.7300.92
9_T86_E0.7290.92
44_R135_A0.7270.92
11_K15_R0.7260.92
120_R188_A0.7260.92
255_R258_R0.7230.92
108_F165_F0.7220.92
137_A162_A0.7210.92
110_D113_Q0.7190.92
75_A95_A0.7110.91
76_R95_A0.7100.91
195_G203_A0.7100.91
273_T276_K0.7080.91
80_S83_A0.7080.91
60_V64_E0.7060.91
184_V191_R0.7060.91
196_V200_Q0.7030.91
34_H38_V0.7000.91
7_I38_V0.7000.91
43_F141_M0.6970.91
90_A93_E0.6950.90
167_L220_Y0.6940.90
43_F138_V0.6930.90
172_R183_R0.6930.90
135_A173_D0.6870.90
257_I264_V0.6860.90
171_L218_L0.6860.90
206_V211_R0.6820.90
232_I247_A0.6810.90
231_G235_L0.6800.90
124_H224_K0.6780.89
227_T230_A0.6770.89
110_D133_G0.6770.89
166_Q177_D0.6760.89
80_S89_A0.6750.89
256_A260_R0.6740.89
230_A233_E0.6720.89
104_D132_R0.6720.89
19_K23_L0.6700.89
14_Q18_G0.6700.89
205_T209_G0.6690.89
135_A185_Y0.6690.89
53_T57_D0.6680.89
94_L98_H0.6620.88
136_V143_M0.6610.88
223_R226_R0.6570.88
64_E67_G0.6570.88
40_Y47_D0.6550.88
196_V210_F0.6550.88
44_R138_V0.6540.88
253_H268_T0.6530.88
124_H128_E0.6510.87
143_M231_G0.6510.87
44_R177_D0.6510.87
232_I235_L0.6480.87
156_P227_T0.6450.87
44_R166_Q0.6430.87
35_A38_V0.6420.87
274_P281_A0.6400.87
20_T172_R0.6390.86
62_R66_E0.6370.86
47_D135_A0.6320.86
80_S84_D0.6320.86
46_A146_M0.6300.86
51_D166_Q0.6280.85
113_Q117_E0.6280.85
162_A172_R0.6280.85
61_Q64_E0.6230.85
144_D155_A0.6190.85
30_T34_H0.6190.85
239_C242_A0.6180.85
135_A138_V0.6170.84
212_E215_R0.6150.84
169_N173_D0.6140.84
115_D130_Y0.6130.84
132_R224_K0.6110.84
199_E202_R0.6090.84
48_D52_T0.6090.84
108_F141_M0.6080.84
168_S221_T0.6050.83
14_Q24_A0.6040.83
63_E66_E0.6020.83
253_H270_S0.6020.83
169_N250_Y0.6010.83
107_T133_G0.6010.83
168_S253_H0.6000.83
160_A163_E0.6000.83
218_L257_I0.6000.83
136_V170_F0.5990.83
11_K34_H0.5980.83
49_V64_E0.5920.82
202_R205_T0.5910.82
142_M243_V0.5880.82
10_S87_V0.5880.82
139_G169_N0.5880.82
213_A216_E0.5840.81
40_Y166_Q0.5830.81
66_E117_E0.5790.81
170_F177_D0.5780.80
243_V246_S0.5770.80
32_V236_P0.5770.80
54_A61_Q0.5770.80
83_A92_R0.5770.80
44_R165_F0.5750.80
251_A255_R0.5720.80
256_A272_S0.5710.80
31_R97_R0.5700.80
81_V89_A0.5690.79
8_T11_K0.5690.79
271_L275_R0.5670.79
107_T132_R0.5660.79
268_T271_L0.5650.79
112_M134_S0.5640.79
169_N177_D0.5630.79
161_L172_R0.5620.79
7_I94_L0.5610.78
10_S38_V0.5580.78
43_F246_S0.5570.78
233_E244_L0.5570.78
40_Y130_Y0.5560.78
8_T12_A0.5530.77
169_N253_H0.5500.77
172_R225_Y0.5490.77
167_L224_K0.5490.77
75_A92_R0.5490.77
91_F95_A0.5480.77
155_A159_A0.5480.77
82_A89_A0.5470.77
50_V112_M0.5450.76
221_T254_H0.5410.76
45_V68_I0.5390.76
165_F169_N0.5390.76
140_Y155_A0.5370.75
140_Y144_D0.5370.75
271_L279_L0.5350.75
220_Y223_R0.5350.75
159_A163_E0.5340.75
20_T161_L0.5340.75
134_S169_N0.5330.75
107_T110_D0.5320.75
14_Q41_A0.5310.75
51_D130_Y0.5310.75
218_L222_E0.5310.75
211_R215_R0.5300.74
17_T25_T0.5300.74
41_A87_V0.5290.74
139_G177_D0.5290.74
41_A90_A0.5280.74
187_P217_E0.5280.74
207_D266_T0.5280.74
127_L131_M0.5250.74
134_S138_V0.5250.74
232_I244_L0.5240.74
105_I141_M0.5210.73
143_M154_A0.5200.73
139_G165_F0.5200.73
25_T36_T0.5190.73
204_R208_A0.5190.73
22_H37_Y0.5180.73
48_D177_D0.5180.73
111_A114_A0.5160.73
75_A88_L0.5150.72
219_A233_E0.5150.72
225_Y254_H0.5130.72
229_V233_E0.5110.72
191_R196_V0.5100.72
10_S90_A0.5090.72
21_F51_D0.5080.71
135_A177_D0.5080.71
58_P61_Q0.5060.71
21_F166_Q0.5040.71
20_T50_V0.5020.70
72_A102_D0.5020.70
253_H276_K0.5000.70
40_Y185_Y0.5000.70
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  
4hd1A 1 0.795 100 0.169 Contact Map
3acxA 1 0.8602 100 0.176 Contact Map
3wcaA 1 0.9814 100 0.186 Contact Map
3we9A 1 0.7453 100 0.202 Contact Map
3vj8A 1 0.9814 100 0.221 Contact Map
4dhdA 2 0.7516 94.7 0.917 Contact Map
3oyrA 2 0.7578 94.5 0.917 Contact Map
1wy0A 2 0.764 94.3 0.918 Contact Map
3lmdA 2 0.7267 93.9 0.92 Contact Map
3aqbB 1 0.7671 93.9 0.92 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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