PAAD - ECOLI - GREMLIN Contacts

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PAAD - Putative 1,2-phenylacetyl-CoA epoxidase, subunit D

UniProt:	P76080	Sequences: MQRLATIAPPQVHEIWALLSQIPDPEIPVLTITDLGMVRNVTQMGEGWVIGFTPTYSGCPATEHLIGAIREAMTTNGFTPVQVVLQLDPAWTTDWMTPDARERLREYGISPPAGHSCHAHLPPEVRCPRCASVHTTLISEFGSTACKALYRCDSCREPFDYFKCI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13738
Length:	165 (155)
Sequences:	886 (512)
Seq/√Len:	41.1

ECOLI - PAAD
SULSO - Q97YS5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
134_H	154_S	4.190	1.00
37_M	65_L	4.172	1.00
52_F	69_I	3.432	1.00
137_L	140_E	3.203	1.00
143_S	160_D	2.964	1.00
136_T	151_R	2.887	1.00
134_H	153_D	2.876	1.00
32_I	65_L	2.831	1.00
102_E	106_E	2.670	1.00
34_D	103_R	2.585	1.00
136_T	153_D	2.540	1.00
99_D	103_R	2.476	1.00
102_E	105_R	2.401	1.00
52_F	62_T	2.317	1.00
29_V	107_Y	2.290	1.00
33_T	38_V	2.237	1.00
49_V	82_Q	2.203	1.00
18_L	72_A	2.086	0.99
51_G	86_Q	2.042	0.99
34_D	100_A	2.029	0.99
49_V	84_V	1.996	0.99
27_I	107_Y	1.920	0.99
44_M	49_V	1.905	0.99
40_N	51_G	1.900	0.99
30_L	34_D	1.886	0.98
19_L	38_V	1.766	0.98
70_R	74_T	1.744	0.97
92_T	95_W	1.730	0.97
47_G	80_P	1.683	0.97
97_T	100_A	1.637	0.96
96_M	101_R	1.632	0.96
64_H	68_A	1.629	0.96
19_L	33_T	1.601	0.96
47_G	82_Q	1.591	0.96
30_L	96_M	1.586	0.96
32_I	38_V	1.581	0.95
68_A	71_E	1.562	0.95
105_R	126_R	1.560	0.95
18_L	76_N	1.547	0.95
43_Q	48_W	1.486	0.94
150_Y	161_Y	1.469	0.93
50_I	73_M	1.463	0.93
21_Q	72_A	1.437	0.93
143_S	147_K	1.432	0.92
39_R	95_W	1.424	0.92
147_K	162_F	1.366	0.90
147_K	160_D	1.337	0.89
18_L	21_Q	1.337	0.89
42_T	51_G	1.328	0.89
51_G	84_V	1.305	0.88
30_L	37_M	1.304	0.88
34_D	99_D	1.262	0.87
46_E	82_Q	1.206	0.84
18_L	78_F	1.194	0.83
20_S	99_D	1.176	0.82
140_E	165_I	1.158	0.81
15_I	73_M	1.146	0.81
74_T	79_T	1.133	0.80
125_V	135_T	1.123	0.79
99_D	102_E	1.123	0.79
23_P	30_L	1.107	0.78
38_V	62_T	1.072	0.76
27_I	145_A	1.069	0.76
38_V	64_H	1.057	0.75
105_R	131_A	1.046	0.74
138_I	149_L	1.030	0.73
13_H	17_A	1.014	0.72
66_I	70_R	1.012	0.72
53_T	95_W	1.006	0.71
69_I	164_C	0.997	0.71
67_G	71_E	0.973	0.69
20_S	33_T	0.966	0.68
37_M	52_F	0.964	0.68
14_E	17_A	0.961	0.68
87_L	90_A	0.960	0.68
42_T	49_V	0.958	0.68
113_A	116_S	0.957	0.67
62_T	65_L	0.939	0.66
44_M	47_G	0.935	0.66
31_T	34_D	0.925	0.65
63_E	66_I	0.914	0.64
96_M	100_A	0.911	0.64
143_S	162_F	0.902	0.63
23_P	31_T	0.894	0.62
18_L	65_L	0.893	0.62
103_R	106_E	0.892	0.62
11_Q	14_E	0.886	0.61
72_A	76_N	0.879	0.61
46_E	80_P	0.869	0.60
131_A	134_H	0.865	0.60
89_P	157_E	0.855	0.59
67_G	70_R	0.854	0.59
32_I	37_M	0.850	0.58
109_I	145_A	0.849	0.58
136_T	156_R	0.830	0.56
129_R	157_E	0.822	0.56
96_M	162_F	0.822	0.56
12_V	40_N	0.814	0.55
16_W	33_T	0.809	0.54
27_I	143_S	0.806	0.54
32_I	52_F	0.779	0.52
16_W	20_S	0.767	0.51
14_E	76_N	0.762	0.50
78_F	81_V	0.760	0.50
143_S	149_L	0.754	0.49
19_L	164_C	0.745	0.48
56_Y	161_Y	0.740	0.48
53_T	89_P	0.733	0.47
67_G	150_Y	0.730	0.47
19_L	31_T	0.727	0.47
38_V	137_L	0.724	0.47
53_T	157_E	0.721	0.46
70_R	103_R	0.720	0.46
17_A	99_D	0.719	0.46
48_W	81_V	0.716	0.46
38_V	145_A	0.715	0.46
151_R	157_E	0.715	0.46
27_I	78_F	0.714	0.46
100_A	129_R	0.713	0.46
124_E	133_V	0.706	0.45
12_V	41_V	0.705	0.45
138_I	160_D	0.704	0.45
18_L	43_Q	0.701	0.44
44_M	79_T	0.700	0.44
118_H	122_P	0.698	0.44
100_A	138_I	0.695	0.44
82_Q	153_D	0.693	0.44
30_L	97_T	0.690	0.43
17_A	21_Q	0.687	0.43
134_H	150_Y	0.678	0.42
52_F	85_L	0.675	0.42
65_L	118_H	0.673	0.42
12_V	16_W	0.671	0.42
74_T	81_V	0.669	0.41
65_L	100_A	0.669	0.41
121_L	124_E	0.665	0.41
22_I	72_A	0.665	0.41
56_Y	138_I	0.664	0.41
148_A	161_Y	0.662	0.41
27_I	162_F	0.659	0.41
56_Y	139_S	0.657	0.40
22_I	32_I	0.656	0.40
126_R	131_A	0.656	0.40
15_I	23_P	0.653	0.40
140_E	160_D	0.652	0.40
41_V	48_W	0.650	0.40
27_I	109_I	0.649	0.40
113_A	164_C	0.647	0.40
89_P	94_D	0.645	0.39
16_W	31_T	0.640	0.39
151_R	165_I	0.637	0.39
126_R	133_V	0.636	0.39
101_R	111_P	0.632	0.38
33_T	105_R	0.632	0.38
21_Q	99_D	0.632	0.38
56_Y	143_S	0.630	0.38
118_H	123_P	0.624	0.37
39_R	53_T	0.624	0.37
138_I	157_E	0.624	0.37
114_G	117_C	0.620	0.37
37_M	62_T	0.618	0.37
15_I	18_L	0.616	0.37
69_I	85_L	0.615	0.37
119_A	156_R	0.610	0.36
22_I	136_T	0.605	0.36
28_P	93_T	0.603	0.36
19_L	69_I	0.600	0.35
151_R	156_R	0.598	0.35
98_P	102_E	0.594	0.35
14_E	18_L	0.594	0.35
86_Q	165_I	0.590	0.35
57_S	147_K	0.588	0.34
41_V	101_R	0.586	0.34
28_P	57_S	0.576	0.33
92_T	107_Y	0.575	0.33
139_S	151_R	0.575	0.33
32_I	164_C	0.575	0.33
47_G	81_V	0.573	0.33
68_A	164_C	0.572	0.33
147_K	157_E	0.571	0.33
30_L	106_E	0.569	0.33
68_A	148_A	0.568	0.33
90_A	132_S	0.568	0.33
102_E	114_G	0.567	0.33
12_V	48_W	0.566	0.33
15_I	76_N	0.564	0.32
134_H	138_I	0.564	0.32
57_S	86_Q	0.563	0.32
94_D	135_T	0.562	0.32
66_I	85_L	0.561	0.32
121_L	126_R	0.561	0.32
57_S	122_P	0.560	0.32
21_Q	40_N	0.558	0.32
27_I	161_Y	0.557	0.32
116_S	119_A	0.557	0.32
29_V	53_T	0.555	0.32
101_R	136_T	0.554	0.32
97_T	103_R	0.551	0.31
147_K	150_Y	0.549	0.31
93_T	101_R	0.547	0.31
71_E	131_A	0.544	0.31
33_T	97_T	0.543	0.31
18_L	73_M	0.539	0.30
56_Y	95_W	0.537	0.30
104_L	111_P	0.536	0.30
13_H	43_Q	0.533	0.30
57_S	87_L	0.530	0.30
14_E	43_Q	0.529	0.30
20_S	34_D	0.527	0.29
15_I	48_W	0.526	0.29
39_R	89_P	0.525	0.29
145_A	164_C	0.525	0.29
44_M	51_G	0.523	0.29
113_A	126_R	0.522	0.29
157_E	160_D	0.518	0.29
123_P	150_Y	0.518	0.29
18_L	69_I	0.517	0.29
137_L	150_Y	0.516	0.29
140_E	147_K	0.515	0.29
17_A	79_T	0.515	0.29
140_E	164_C	0.515	0.29
65_L	164_C	0.514	0.28
63_E	83_V	0.511	0.28
96_M	145_A	0.510	0.28
78_F	153_D	0.508	0.28
15_I	142_G	0.506	0.28
101_R	131_A	0.505	0.28
39_R	57_S	0.505	0.28
113_A	161_Y	0.505	0.28
119_A	122_P	0.503	0.28
47_G	75_T	0.501	0.28
27_I	142_G	0.500	0.27

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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
3lnoA	1	0.6182	99.9	0.667	Contact Map
3cq1A	2	0.5939	99.9	0.67	Contact Map
1uwdA	1	0.6061	99.9	0.672	Contact Map
3ux2A	2	0.6909	99.9	0.706	Contact Map
4esjA	1	0.4061	87.2	0.933	Contact Map
1k81A	1	0.2182	73.1	0.943	Contact Map
1wiiA	1	0.3697	70.4	0.944	Contact Map
1vd4A	1	0.3212	65.2	0.946	Contact Map
3cc2Z	1	0.297	63.4	0.946	Contact Map
3j20Y	1	0.303	63.3	0.946	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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