GREMLIN Database
YISP - Putative phytoene/squalene synthase YisP
UniProt: O06728 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 267 (253)
Sequences: 3850 (2614)
Seq/√Len: 164.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
110_D113_E5.0581.00
206_E242_R4.7751.00
178_F200_Y4.4701.00
59_E102_K4.2581.00
147_S211_E4.0411.00
177_Q200_Y3.6071.00
174_V201_I2.7781.00
92_E96_E2.6581.00
56_P102_K2.5911.00
36_A87_F2.5751.00
109_D113_E2.4551.00
82_H86_T2.4521.00
206_E239_E2.3621.00
181_T184_D2.3231.00
110_D173_Q2.3211.00
247_D250_Q2.2961.00
240_K259_E2.2621.00
63_D95_R2.2471.00
155_V209_L2.2441.00
55_L59_E2.1701.00
100_A121_T2.0661.00
63_D91_S2.0661.00
236_A259_E2.0641.00
109_D172_R2.0081.00
59_E99_A1.9941.00
90_E131_P1.9511.00
147_S208_Y1.9471.00
39_A83_A1.8961.00
37_S129_L1.8821.00
195_T245_Q1.8571.00
119_Y146_V1.8341.00
116_M120_R1.8071.00
36_A86_T1.7861.00
109_D176_Q1.7671.00
178_F196_M1.7441.00
162_G166_Q1.7421.00
100_A120_R1.7031.00
10_Q13_Q1.6561.00
111_L204_E1.6201.00
172_R176_Q1.6151.00
107_P182_E1.5891.00
202_A238_L1.5821.00
91_S95_R1.5811.00
40_V132_I1.5681.00
57_A61_K1.5491.00
184_D189_T1.5461.00
103_E116_M1.5421.00
115_L150_L1.5201.00
127_L146_V1.5121.00
41_L45_H1.5121.00
213_Q235_R1.5091.00
174_V178_F1.5071.00
112_D115_L1.5041.00
174_V200_Y1.5011.00
150_L208_Y1.4931.00
59_E95_R1.4791.00
56_P60_A1.4721.00
202_A242_R1.4561.00
40_V128_M1.4481.00
61_K64_H1.4451.00
121_T157_F1.4261.00
64_H70_N1.3991.00
89_L128_M1.3851.00
57_A60_A1.3851.00
66_Y91_S1.3491.00
201_I204_E1.3461.00
140_Q218_L1.3341.00
194_F198_W1.3321.00
33_Q132_I1.3251.00
153_Q156_R1.3201.00
75_H79_A1.3071.00
199_E242_R1.3061.00
197_T201_I1.3051.00
240_K243_A1.3011.00
180_Y197_T1.2721.00
208_Y211_E1.2551.00
178_F197_T1.2521.00
122_G126_G1.2331.00
43_F47_A1.2261.00
236_A239_E1.2201.00
16_G23_F1.2191.00
15_V38_W1.2181.00
60_A64_H1.2051.00
182_E186_Q1.2001.00
48_A164_D1.1891.00
36_A83_A1.1891.00
125_A156_R1.1881.00
151_A155_V1.1771.00
48_A160_D1.1761.00
99_A116_M1.1651.00
213_Q231_L1.1581.00
40_V94_F1.1521.00
174_V197_T1.1441.00
33_Q222_Y1.1381.00
119_Y124_A1.1361.00
141_L218_L1.1181.00
219_F227_V1.1141.00
180_Y185_L1.1091.00
111_L201_I1.1091.00
53_K57_A1.1061.00
43_F98_I1.0961.00
119_Y127_L1.0961.00
174_V204_E1.0851.00
103_E120_R1.0760.99
184_D193_A1.0750.99
202_A246_H1.0680.99
63_D67_Q1.0670.99
21_A233_L1.0640.99
80_F94_F1.0600.99
12_G38_W1.0590.99
54_V57_A1.0580.99
174_V177_Q1.0510.99
47_A98_I1.0500.99
165_Q186_Q1.0500.99
206_E235_R1.0410.99
156_R159_S1.0400.99
259_E262_Q1.0350.99
199_E246_H1.0250.99
172_R182_E1.0200.99
173_Q177_Q1.0180.99
109_D173_Q1.0090.99
47_A58_F1.0020.99
45_H126_G1.0010.99
93_P131_P1.0000.99
123_G149_G0.9960.99
89_L94_F0.9960.99
165_Q185_L0.9780.99
84_Y94_F0.9760.99
93_P127_L0.9660.99
209_L234_H0.9540.99
81_D85_R0.9540.99
45_H49_S0.9490.99
104_D169_R0.9480.99
244_K251_Y0.9380.99
192_K196_M0.9330.99
30_P33_Q0.9300.99
59_E63_D0.9250.98
61_K74_Q0.9190.98
203_F242_R0.9180.98
195_T247_D0.9150.98
10_Q75_H0.9140.98
79_A82_H0.9110.98
33_Q36_A0.9100.98
68_R72_G0.9100.98
18_Y49_S0.9100.98
162_G249_F0.9090.98
62_A66_Y0.9090.98
144_A215_A0.9070.98
122_G153_Q0.9010.98
57_A74_Q0.8970.98
240_K244_K0.8960.98
46_T74_Q0.8920.98
207_A211_E0.8900.98
144_A218_L0.8900.98
210_E235_R0.8850.98
45_H48_A0.8820.98
41_L122_G0.8820.98
22_C41_L0.8810.98
151_A209_L0.8770.98
48_A52_E0.8740.98
111_L174_V0.8720.98
62_A91_S0.8720.98
29_L37_S0.8720.98
22_C45_H0.8720.98
90_E93_P0.8690.98
131_P142_K0.8640.98
180_Y184_D0.8640.98
183_A186_Q0.8580.97
41_L126_G0.8570.97
200_Y204_E0.8570.97
158_L241_I0.8560.97
13_Q17_E0.8540.97
184_D191_N0.8530.97
163_T167_K0.8530.97
180_Y193_A0.8500.97
199_E203_F0.8480.97
47_A101_Q0.8470.97
258_T262_Q0.8460.97
114_L154_L0.8400.97
87_F132_I0.8310.97
122_G156_R0.8250.97
22_C122_G0.8220.97
203_F207_A0.8130.97
111_L200_Y0.8120.97
83_A87_F0.8080.96
45_H160_D0.8050.96
242_R246_H0.8050.96
62_A94_F0.8010.96
48_A153_Q0.8010.96
244_K247_D0.7980.96
76_L83_A0.7960.96
180_Y191_N0.7960.96
137_K140_Q0.7910.96
67_Q70_N0.7880.96
97_F101_Q0.7880.96
61_K77_W0.7870.96
48_A156_R0.7860.96
227_V230_A0.7840.96
175_M197_T0.7810.96
35_Q79_A0.7790.96
22_C156_R0.7780.96
22_C125_A0.7750.95
100_A157_F0.7740.95
159_S234_H0.7720.95
103_E108_Y0.7690.95
239_E242_R0.7620.95
236_A240_K0.7610.95
179_G187_K0.7590.95
36_A39_A0.7580.95
83_A86_T0.7580.95
255_L260_V0.7560.95
96_E99_A0.7540.95
145_A149_G0.7520.95
97_F124_A0.7510.95
74_Q78_K0.7490.95
257_E260_V0.7470.94
79_A83_A0.7380.94
22_C126_G0.7370.94
129_L133_L0.7370.94
255_L259_E0.7370.94
241_I248_V0.7330.94
175_M180_Y0.7290.94
99_A120_R0.7290.94
160_D164_D0.7280.94
123_G150_L0.7280.94
41_L156_R0.7250.94
219_F224_Q0.7240.93
111_L115_L0.7210.93
206_E238_L0.7200.93
158_L238_L0.7200.93
20_P24_K0.7150.93
111_L208_Y0.7150.93
97_F152_I0.7130.93
122_G125_A0.7010.92
191_N250_Q0.6990.92
35_Q39_A0.6990.92
71_N78_K0.6980.92
58_F62_A0.6980.92
99_A102_K0.6980.92
45_H156_R0.6970.92
52_E160_D0.6950.92
228_K232_H0.6930.92
45_H122_G0.6930.92
74_Q83_A0.6920.92
59_E62_A0.6920.92
237_V252_H0.6900.92
189_T193_A0.6880.92
153_Q160_D0.6840.91
13_Q16_G0.6830.91
223_S226_T0.6810.91
77_W80_F0.6810.91
194_F248_V0.6800.91
12_G16_G0.6800.91
44_C125_A0.6750.91
11_C76_L0.6750.91
41_L48_A0.6720.91
104_D117_Y0.6660.90
93_P119_Y0.6640.90
155_V237_V0.6630.90
53_K56_P0.6590.90
196_M199_E0.6560.90
55_L66_Y0.6550.90
126_G153_Q0.6520.89
15_V25_A0.6480.89
211_E214_D0.6460.89
33_Q220_P0.6460.89
154_L208_Y0.6410.89
257_E261_K0.6410.89
153_Q164_D0.6370.88
74_Q81_D0.6360.88
96_E120_R0.6360.88
154_L204_E0.6360.88
236_A263_I0.6320.88
45_H125_A0.6310.88
102_K105_A0.6300.88
32_K86_T0.6290.88
56_P59_E0.6270.87
215_A219_F0.6250.87
225_K229_A0.6230.87
214_D217_P0.6230.87
207_A210_E0.6210.87
68_R71_N0.6200.87
85_R88_T0.6190.87
44_C121_T0.6190.87
135_R220_P0.6180.87
107_P168_N0.6180.87
255_L263_I0.6170.87
122_G160_D0.6170.87
129_L227_V0.6160.87
73_K76_L0.6140.86
186_Q189_T0.6130.86
70_N85_R0.6080.86
126_G152_I0.6070.86
155_V205_A0.6060.86
149_G159_S0.6060.86
78_K82_H0.6050.86
124_A149_G0.6040.85
143_Q147_S0.5990.85
147_S150_L0.5970.85
48_A122_G0.5960.85
180_Y194_F0.5950.85
15_V19_A0.5950.85
107_P170_I0.5940.85
249_F253_F0.5940.85
65_V81_D0.5930.84
126_G156_R0.5920.84
80_F84_Y0.5910.84
31_L35_Q0.5890.84
15_V42_S0.5850.84
44_C49_S0.5840.84
123_G130_L0.5820.83
183_A187_K0.5820.83
212_C231_L0.5810.83
216_L231_L0.5790.83
60_A187_K0.5780.83
204_E207_A0.5760.83
21_A51_D0.5740.82
58_F61_K0.5740.82
45_H164_D0.5740.82
238_L242_R0.5730.82
73_K83_A0.5700.82
235_R239_E0.5690.82
170_I182_E0.5690.82
76_L84_Y0.5670.82
142_K146_V0.5670.82
216_L219_F0.5650.82
190_V195_T0.5650.82
47_A129_L0.5650.82
155_V238_L0.5640.81
107_P172_R0.5630.81
171_P201_I0.5590.81
156_R160_D0.5580.81
44_C230_A0.5560.80
194_F197_T0.5560.80
217_P228_K0.5560.80
77_W81_D0.5560.80
158_L202_A0.5550.80
44_C128_M0.5540.80
202_A206_E0.5530.80
73_K78_K0.5510.80
130_L142_K0.5490.80
123_G157_F0.5480.80
96_E119_Y0.5460.79
100_A103_E0.5420.79
12_G35_Q0.5410.79
157_F164_D0.5380.78
55_L58_F0.5370.78
206_E210_E0.5370.78
197_T200_Y0.5360.78
130_L215_A0.5360.78
97_F128_M0.5350.78
92_E131_P0.5340.78
247_D251_Y0.5340.78
143_Q211_E0.5310.77
66_Y84_Y0.5300.77
121_T156_R0.5300.77
11_C39_A0.5290.77
252_H255_L0.5270.77
52_E156_R0.5270.77
61_K73_K0.5260.77
180_Y183_A0.5260.77
65_V68_R0.5250.77
156_R164_D0.5240.76
170_I175_M0.5230.76
166_Q188_G0.5220.76
121_T125_A0.5210.76
237_V255_L0.5200.76
20_P254_A0.5180.76
96_E127_L0.5170.76
21_A159_S0.5150.75
15_V26_L0.5140.75
156_R234_H0.5120.75
32_K35_Q0.5100.75
22_C152_I0.5090.74
200_Y203_F0.5060.74
41_L117_Y0.5060.74
127_L131_P0.5030.74
119_Y150_L0.5030.74
204_E208_Y0.5020.73
49_S160_D0.5000.73
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  
3we9A 1 0.8951 100 0.1 Contact Map
3acxA 1 0.9963 100 0.117 Contact Map
4hd1A 1 0.9213 100 0.125 Contact Map
3wcaA 1 0.9775 100 0.214 Contact Map
3vj8A 1 0.9888 100 0.226 Contact Map
1yyqA 2 0.9513 86.6 0.924 Contact Map
4dhdA 2 0.8427 84.7 0.926 Contact Map
4lfgA 2 0.8352 81.8 0.929 Contact Map
4f62A 2 0.7566 80.7 0.93 Contact Map
1wy0A 2 0.8652 76.6 0.932 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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