GREMLIN Database
PHA_synth_III_E - Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
PFAM: PF09712 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 313 (309)
Sequences: 1066 (895)
Seq/√Len: 50.9
META: 0.863

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
298_L302_I5.3731.00
281_E293_S5.2761.00
303_Y307_R5.0851.00
305_L309_V4.9821.00
231_I237_L3.2501.00
260_K264_E3.1751.00
68_E72_A3.1321.00
176_G179_R2.8941.00
309_V312_L2.8531.00
302_I305_L2.6831.00
132_W136_A2.5811.00
50_K54_E2.5441.00
35_Q39_A2.5071.00
146_D149_K2.4691.00
220_K247_E2.4331.00
96_E100_Q2.4291.00
97_Q100_Q2.4061.00
4_E8_Q2.3001.00
116_E119_Q2.2461.00
11_D15_D2.1061.00
116_E120_K2.0991.00
232_E236_E2.0631.00
92_Q96_E2.0391.00
93_K97_Q1.9851.00
219_E223_E1.9661.00
26_A29_P1.8440.99
4_E7_R1.8190.99
99_P102_F1.7770.99
295_M298_L1.7570.99
36_W41_A1.7520.99
94_W98_L1.7410.99
176_G180_E1.7380.99
96_E99_P1.7290.99
263_G267_N1.7280.99
36_W40_L1.7270.99
100_Q103_A1.7180.99
176_G246_E1.7170.99
242_V246_E1.6990.99
297_E301_R1.6980.99
86_D90_Q1.6970.99
299_Y302_I1.6960.99
180_E246_E1.6790.98
223_E227_K1.6700.98
86_D89_E1.6590.98
201_E264_E1.6470.98
307_R310_R1.6440.98
133_Q139_L1.6440.98
61_K65_K1.6400.98
99_P103_A1.6350.98
80_S83_A1.6330.98
254_L262_Y1.6180.98
91_L95_L1.6140.98
234_L237_L1.5930.98
249_Y290_P1.5700.98
37_W42_P1.5670.98
124_P127_S1.5590.97
295_M299_Y1.5590.97
175_L179_R1.5540.97
37_W40_L1.5450.97
94_W99_P1.5400.97
144_P147_F1.5370.97
162_Y190_D1.5360.97
220_K224_R1.5210.97
7_R11_D1.5120.97
134_Q137_S1.5100.97
235_R290_P1.5010.97
277_Q288_P1.4980.97
180_E281_E1.4970.97
15_D19_Q1.4830.97
106_F109_A1.4820.97
15_D18_R1.4750.96
246_E249_Y1.4700.96
220_K240_L1.4690.96
238_Y246_E1.4680.96
85_K88_W1.4640.96
63_Y66_L1.4590.96
36_W39_A1.4460.96
92_Q99_P1.4420.96
95_L99_P1.4410.96
38_S41_A1.4240.96
72_A76_G1.4160.95
84_A88_W1.4120.95
238_Y298_L1.4080.95
89_E93_K1.3940.95
98_L107_Q1.3800.95
79_A85_K1.3770.95
198_A268_A1.3680.95
293_S298_L1.3470.94
212_K215_E1.3440.94
81_A84_A1.3310.94
209_A252_L1.3190.93
99_P104_G1.3170.93
8_Q11_D1.2970.93
300_K304_E1.2950.93
148_L151_L1.2940.93
147_F153_L1.2900.93
208_K257_E1.2870.92
273_R277_Q1.2770.92
51_D55_R1.2750.92
121_F125_W1.2560.92
30_W34_L1.2550.92
153_L156_L1.2500.91
117_A123_G1.2350.91
98_L108_G1.2350.91
256_E260_K1.2260.91
215_E219_E1.2160.90
212_K251_E1.2090.90
132_W138_S1.2080.90
55_R63_Y1.2040.90
101_A108_G1.1900.89
9_Y12_A1.1900.89
281_E292_R1.1850.89
266_V270_M1.1760.89
233_S236_E1.1670.88
3_L6_Q1.1530.88
67_M70_F1.1480.87
12_A15_D1.1430.87
246_E253_F1.1420.87
152_E157_W1.1380.87
35_Q38_S1.1340.87
216_R219_E1.1320.87
180_E293_S1.1230.86
135_M140_S1.1120.86
25_P28_N1.1100.86
91_L94_W1.1090.86
40_L43_G1.1010.85
87_A90_Q1.0960.85
198_A264_E1.0950.85
69_Q72_A1.0900.84
118_L123_G1.0880.84
214_F217_F1.0800.84
249_Y253_F1.0710.83
85_K90_Q1.0700.83
152_E155_N1.0680.83
116_E122_M1.0630.83
132_W135_M1.0620.83
24_A29_P1.0550.83
175_L284_L1.0520.82
32_E35_Q1.0490.82
6_Q9_Y1.0470.82
217_F240_L1.0460.82
297_E302_I1.0460.82
104_G107_Q1.0410.82
100_Q107_Q1.0380.81
238_Y249_Y1.0380.81
301_R306_R1.0370.81
95_L102_F1.0350.81
145_G153_L1.0340.81
92_Q95_L1.0300.81
258_F266_V1.0290.81
173_P184_R1.0240.81
168_K171_K1.0240.81
284_L289_M1.0140.80
304_E307_R1.0050.79
105_M108_G1.0040.79
82_A88_W1.0030.79
13_W17_M0.9990.79
191_A275_A0.9970.79
206_L266_V0.9920.78
69_Q73_A0.9860.78
245_A276_Q0.9790.77
91_L100_Q0.9680.77
249_Y263_G0.9630.76
81_A85_K0.9620.76
179_R183_E0.9590.76
262_Y265_L0.9580.76
226_E229_E0.9560.76
212_K216_R0.9550.76
217_F295_M0.9540.76
129_L134_Q0.9540.76
281_E294_E0.9530.76
196_Q239_D0.9490.75
290_P301_R0.9480.75
170_L183_E0.9390.74
298_L306_R0.9370.74
173_P202_Y0.9300.74
202_Y272_L0.9270.74
210_G238_Y0.9250.73
148_L154_F0.9240.73
18_R22_G0.9220.73
145_G148_L0.9210.73
300_K303_Y0.9170.73
224_R230_Q0.9150.73
87_A95_L0.9140.72
198_A261_L0.9130.72
258_F284_L0.9130.72
112_Q116_E0.9120.72
173_P176_G0.9110.72
16_M20_A0.9100.72
34_L287_L0.9100.72
5_L8_Q0.9100.72
91_L102_F0.9050.72
276_Q288_P0.8980.71
262_Y281_E0.8960.71
168_K173_P0.8950.71
31_Q40_L0.8940.71
154_F157_W0.8910.71
57_L63_Y0.8900.70
56_M63_Y0.8820.70
170_L177_Y0.8740.69
188_L279_L0.8730.69
162_Y237_L0.8720.69
11_D18_R0.8720.69
155_N158_W0.8660.68
112_Q115_A0.8650.68
203_Q231_I0.8630.68
98_L102_F0.8630.68
115_A118_L0.8610.68
136_A140_S0.8570.68
90_Q96_E0.8570.68
263_G270_M0.8560.67
304_E311_A0.8540.67
179_R246_E0.8530.67
244_A248_A0.8500.67
183_E187_K0.8500.67
53_F60_A0.8490.67
100_Q104_G0.8470.67
163_E167_G0.8430.66
197_Q201_E0.8390.66
144_P148_L0.8370.66
184_R278_E0.8340.65
183_E246_E0.8310.65
10_W17_M0.8280.65
23_A27_A0.8270.65
259_S263_G0.8240.64
233_S237_L0.8240.64
82_A85_K0.8230.64
302_I309_V0.8170.64
38_S42_P0.8150.64
294_E299_Y0.8130.63
253_F297_E0.8130.63
302_I306_R0.8090.63
99_P105_M0.8090.63
199_L203_Q0.8070.63
102_F159_D0.8000.62
231_I242_V0.7980.62
301_R307_R0.7960.62
171_K190_D0.7950.62
11_D14_S0.7930.61
140_S144_P0.7920.61
294_E298_L0.7910.61
178_T182_Q0.7880.61
23_A26_A0.7870.61
10_W20_A0.7860.61
143_M149_K0.7840.61
78_D82_A0.7830.60
179_R182_Q0.7820.60
240_L273_R0.7810.60
238_Y262_Y0.7790.60
90_Q231_I0.7780.60
284_L288_P0.7760.60
201_E299_Y0.7750.60
97_Q101_A0.7720.59
54_E58_D0.7700.59
42_P45_A0.7690.59
203_Q206_L0.7690.59
8_Q12_A0.7670.59
10_W15_D0.7670.59
209_A245_A0.7650.59
100_Q109_A0.7620.58
246_E250_A0.7590.58
9_Y37_W0.7580.58
15_D20_A0.7570.58
163_E168_K0.7460.57
92_Q97_Q0.7460.57
121_F124_P0.7450.57
205_L252_L0.7450.57
145_G151_L0.7430.56
262_Y297_E0.7420.56
126_Q132_W0.7410.56
84_A90_Q0.7400.56
67_M74_F0.7380.56
101_A106_F0.7310.55
221_L225_A0.7300.55
106_F111_E0.7300.55
15_D21_M0.7290.55
236_E239_D0.7280.55
199_L295_M0.7200.54
176_G249_Y0.7190.54
84_A87_A0.7170.54
128_P140_S0.7140.53
40_L46_P0.7140.53
6_Q17_M0.7130.53
136_A139_L0.7110.53
299_Y303_Y0.7070.53
186_Q258_F0.7020.52
32_E46_P0.7010.52
58_D70_F0.7010.52
282_D285_E0.7000.52
85_K89_E0.7000.52
174_A249_Y0.6990.52
142_A145_G0.6980.52
179_R268_A0.6980.52
131_N135_M0.6970.52
63_Y68_E0.6940.51
150_L154_F0.6930.51
216_R251_E0.6910.51
120_K123_G0.6890.51
131_N140_S0.6890.51
233_S265_L0.6880.51
133_Q137_S0.6870.51
154_F159_D0.6870.51
47_P50_K0.6870.51
148_L159_D0.6850.50
289_M295_M0.6840.50
24_A27_A0.6830.50
135_M139_L0.6830.50
122_M125_W0.6830.50
266_V271_R0.6810.50
255_S264_E0.6780.50
79_A86_D0.6750.49
98_L101_A0.6750.49
19_Q22_G0.6740.49
198_A201_E0.6730.49
253_F262_Y0.6730.49
94_W97_Q0.6720.49
183_E252_L0.6690.49
284_L307_R0.6670.49
85_K105_M0.6650.48
250_A254_L0.6640.48
58_D75_A0.6620.48
35_Q42_P0.6600.48
281_E288_P0.6580.48
194_D270_M0.6570.48
188_L275_A0.6560.48
132_W139_L0.6560.48
300_K305_L0.6490.47
88_W92_Q0.6470.47
14_S18_R0.6450.46
296_D305_L0.6440.46
242_V250_A0.6410.46
128_P133_Q0.6390.46
247_E250_A0.6390.46
93_K102_F0.6380.46
51_D54_E0.6380.46
181_H272_L0.6360.45
219_E247_E0.6340.45
173_P179_R0.6340.45
194_D233_S0.6290.45
279_L297_E0.6280.45
89_E92_Q0.6280.45
87_A92_Q0.6260.44
123_G126_Q0.6190.44
58_D61_K0.6160.43
176_G183_E0.6140.43
169_L272_L0.6140.43
28_N32_E0.6140.43
12_A23_A0.6140.43
263_G266_V0.6130.43
284_L299_Y0.6130.43
33_A38_S0.6120.43
69_Q75_A0.6090.43
35_Q45_A0.6060.42
147_F150_L0.6060.42
208_K295_M0.6050.42
107_Q110_A0.6040.42
128_P131_N0.6030.42
5_L14_S0.6010.42
25_P29_P0.6000.42
144_P154_F0.5990.42
31_Q39_A0.5980.42
268_A280_V0.5980.42
224_R229_E0.5950.41
131_N136_A0.5920.41
19_Q26_A0.5910.41
31_Q35_Q0.5880.41
3_L17_M0.5880.41
103_A109_A0.5850.40
182_Q245_A0.5850.40
70_F234_L0.5850.40
83_A88_W0.5850.40
16_M21_M0.5850.40
131_N139_L0.5830.40
37_W45_A0.5830.40
218_Q237_L0.5820.40
89_E223_E0.5810.40
188_L222_A0.5810.40
78_D81_A0.5800.40
105_M111_E0.5780.40
17_M20_A0.5770.39
213_A262_Y0.5770.39
98_L110_A0.5760.39
106_F110_A0.5750.39
118_L125_W0.5750.39
96_E103_A0.5740.39
182_Q186_Q0.5720.39
4_E17_M0.5720.39
272_L276_Q0.5700.39
65_K72_A0.5700.39
151_L154_F0.5700.39
195_Y269_Q0.5690.39
100_Q105_M0.5690.39
268_A290_P0.5690.39
3_L7_R0.5690.39
296_D302_I0.5690.39
122_M294_E0.5630.38
192_W272_L0.5630.38
93_K99_P0.5620.38
277_Q281_E0.5620.38
228_G312_L0.5610.38
3_L14_S0.5600.38
261_L265_L0.5590.38
24_A28_N0.5580.38
128_P139_L0.5580.38
65_K68_E0.5570.38
119_Q123_G0.5570.38
197_Q202_Y0.5570.38
188_L192_W0.5560.37
92_Q102_F0.5550.37
27_A32_E0.5540.37
90_Q99_P0.5520.37
245_A292_R0.5520.37
206_L251_E0.5510.37
103_A107_Q0.5500.37
55_R70_F0.5490.37
65_K69_Q0.5480.37
130_D140_S0.5480.37
26_A37_W0.5480.37
12_A20_A0.5470.37
55_R58_D0.5470.37
14_S45_A0.5460.36
201_E268_A0.5460.36
209_A269_Q0.5450.36
23_A28_N0.5450.36
32_E36_W0.5450.36
236_E273_R0.5440.36
195_Y274_K0.5440.36
16_M23_A0.5400.36
78_D85_K0.5370.36
210_G246_E0.5360.36
98_L105_M0.5310.35
83_A87_A0.5300.35
42_P64_F0.5300.35
245_A249_Y0.5300.35
95_L101_A0.5280.35
78_D89_E0.5260.35
194_D237_L0.5250.34
150_L157_W0.5240.34
131_N137_S0.5230.34
172_M206_L0.5220.34
14_S25_P0.5200.34
82_A86_D0.5190.34
90_Q93_K0.5190.34
190_D193_L0.5180.34
154_F158_W0.5170.34
235_R239_D0.5170.34
249_Y291_T0.5160.34
290_P294_E0.5160.34
97_Q103_A0.5150.34
153_L157_W0.5140.33
60_A67_M0.5140.33
29_P36_W0.5130.33
46_P49_A0.5110.33
269_Q276_Q0.5100.33
153_L159_D0.5100.33
262_Y276_Q0.5080.33
296_D300_K0.5080.33
22_G25_P0.5080.33
262_Y272_L0.5080.33
40_L45_A0.5070.33
209_A213_A0.5060.33
159_D164_E0.5000.32
168_K197_Q0.5000.32
234_L267_N0.5000.32
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  
3tweA 2 0.0671 50.5 0.945 Contact Map
2e87A 1 0.4633 49.5 0.945 Contact Map
1dipA 2 0.1086 37.5 0.949 Contact Map
3zqeA 1 0.4601 35.8 0.95 Contact Map
2d4yA 1 0.3642 31.1 0.951 Contact Map
4y66B 1 0.4058 29 0.952 Contact Map
2yy0A 6 0.1182 28.6 0.952 Contact Map
4dznA 3 0.0671 23.7 0.954 Contact Map
1deqA 1 0.1981 21.6 0.955 Contact Map
4j2cA 1 0.3131 20.6 0.955 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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