PSD - BACSU - GREMLIN Contacts

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PSD - Phosphatidylserine decarboxylase proenzyme

UniProt:	P39822	Sequences: MFNTAVKILYRSLIELTNHRLSSYLIKGFCESKISKPVIPLFSKHFRLNWDDVDGTAADYGSLSELFIRQINLERRPVSKEAHAVVSPVDGVVQTVGIINPNQTFTVKGKDYSFAELTGCKSADHQYNGGYFVVLYLSPRHYHRFHSPISCRYQKLAELGNRSYPVNQLGLKYGKDVLSKNYRFVYELNSGSRNVLMIPVGAMNINSIVQTNTRTELEIGEELGYFSFGSTVILVFEKDAFQPSAHLAEGQEVQVGELIGYEE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	263 (247)
Sequences:	2230 (1584)
Seq/√Len:	100.8

ECOLI - PSD
BACSU - PSD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
129_G	238_K	4.076	1.00
150_S	218_E	3.932	1.00
61_G	65_E	3.918	1.00
54_D	70_Q	3.418	1.00
218_E	221_E	3.355	1.00
154_Q	189_N	3.114	1.00
89_V	145_F	2.898	1.00
91_G	135_L	2.783	1.00
43_S	50_W	2.364	1.00
49_N	52_D	2.336	1.00
126_Q	237_E	2.291	1.00
190_S	195_V	2.197	1.00
194_N	237_E	2.172	1.00
152_R	189_N	2.153	1.00
204_N	228_F	2.138	1.00
200_V	231_T	2.135	1.00
125_H	128_N	2.117	1.00
212_N	215_T	2.101	1.00
187_E	196_L	2.098	1.00
144_R	222_E	2.088	1.00
116_E	176_D	2.061	1.00
89_V	135_L	2.058	1.00
98_I	131_Y	1.994	1.00
23_S	27_K	1.992	1.00
56_T	59_D	1.963	1.00
43_S	57_A	1.957	1.00
85_V	236_F	1.919	1.00
19_H	23_S	1.916	1.00
71_I	75_R	1.904	1.00
151_C	188_L	1.901	1.00
79_S	84_A	1.892	1.00
78_V	86_V	1.883	1.00
55_G	59_D	1.857	1.00
53_V	71_I	1.855	1.00
62_S	65_E	1.820	1.00
150_S	191_G	1.793	1.00
55_G	72_N	1.788	1.00
78_V	219_I	1.765	1.00
54_D	59_D	1.748	1.00
87_S	253_V	1.746	1.00
159_L	185_V	1.738	1.00
79_S	86_V	1.737	1.00
79_S	258_L	1.688	1.00
86_V	219_I	1.680	1.00
126_Q	194_N	1.664	1.00
210_Q	214_R	1.597	1.00
84_A	258_L	1.590	1.00
127_Y	130_G	1.588	1.00
189_N	194_N	1.573	1.00
71_I	74_E	1.563	1.00
14_I	18_N	1.558	1.00
195_V	236_F	1.546	1.00
123_A	155_K	1.532	1.00
101_P	128_N	1.525	1.00
237_E	240_A	1.479	1.00
54_D	73_L	1.471	1.00
149_I	195_V	1.428	1.00
145_F	232_V	1.406	1.00
29_F	61_G	1.400	1.00
119_G	159_L	1.386	1.00
85_V	149_I	1.382	0.99
123_A	126_Q	1.380	0.99
211_T	214_R	1.379	0.99
178_L	200_V	1.371	0.99
117_L	233_I	1.368	0.99
163_S	206_N	1.359	0.99
53_V	60_Y	1.334	0.99
14_I	19_H	1.322	0.99
87_S	259_I	1.317	0.99
158_E	182_Y	1.310	0.99
81_E	84_A	1.306	0.99
123_A	187_E	1.298	0.99
15_E	18_N	1.275	0.99
93_V	253_V	1.274	0.99
236_F	241_F	1.270	0.99
145_F	224_G	1.258	0.99
34_I	38_V	1.255	0.99
97_G	132_F	1.247	0.99
248_A	251_Q	1.236	0.99
241_F	260_G	1.228	0.99
244_S	258_L	1.222	0.99
85_V	241_F	1.206	0.99
197_M	223_L	1.205	0.99
142_Y	146_H	1.197	0.99
89_V	232_V	1.186	0.98
23_S	29_F	1.178	0.98
156_L	184_F	1.176	0.98
199_P	223_L	1.171	0.98
152_R	216_E	1.169	0.98
247_L	251_Q	1.166	0.98
93_V	133_V	1.163	0.98
190_S	193_R	1.157	0.98
78_V	220_G	1.154	0.98
158_E	184_F	1.152	0.98
50_W	53_V	1.151	0.98
118_T	196_L	1.147	0.98
27_K	227_S	1.144	0.98
133_V	243_P	1.143	0.98
70_Q	225_Y	1.141	0.98
14_I	23_S	1.136	0.98
150_S	221_E	1.131	0.98
171_L	178_L	1.129	0.98
212_N	216_E	1.122	0.98
113_S	116_E	1.113	0.98
68_I	225_Y	1.111	0.98
153_Y	188_L	1.110	0.98
149_I	192_S	1.097	0.97
18_N	23_S	1.095	0.97
135_L	234_L	1.092	0.97
70_Q	222_E	1.080	0.97
110_K	175_K	1.079	0.97
24_Y	28_G	1.079	0.97
127_Y	187_E	1.078	0.97
64_S	227_S	1.075	0.97
197_M	234_L	1.073	0.97
23_S	31_E	1.073	0.97
71_I	90_D	1.070	0.97
118_T	235_V	1.064	0.97
115_A	121_K	1.061	0.97
102_N	114_F	1.060	0.97
254_Q	257_E	1.053	0.97
157_A	160_G	1.040	0.96
55_G	60_Y	1.029	0.96
163_S	182_Y	1.029	0.96
40_P	44_K	1.027	0.96
151_C	193_R	1.025	0.96
127_Y	196_L	1.020	0.96
209_V	227_S	1.017	0.96
153_Y	186_Y	1.017	0.96
20_R	24_Y	1.004	0.96
157_A	185_V	1.001	0.96
147_S	153_Y	0.995	0.95
148_P	195_V	0.994	0.95
155_K	187_E	0.988	0.95
30_C	33_K	0.986	0.95
165_P	168_Q	0.985	0.95
234_L	259_I	0.979	0.95
89_V	255_V	0.978	0.95
185_V	198_I	0.973	0.95
145_F	199_P	0.971	0.95
149_I	188_L	0.969	0.95
22_S	204_N	0.963	0.95
79_S	82_A	0.961	0.94
185_V	196_L	0.956	0.94
152_R	214_R	0.956	0.94
92_V	168_Q	0.955	0.94
48_L	66_L	0.951	0.94
119_G	157_A	0.946	0.94
100_N	103_Q	0.940	0.94
64_S	68_I	0.929	0.93
134_V	231_T	0.927	0.93
81_E	258_L	0.922	0.93
153_Y	217_L	0.920	0.93
104_T	111_D	0.911	0.93
136_Y	202_A	0.911	0.93
92_V	141_H	0.902	0.92
118_T	187_E	0.896	0.92
147_S	199_P	0.893	0.92
211_T	215_T	0.892	0.92
151_C	190_S	0.890	0.92
198_I	235_V	0.887	0.92
27_K	62_S	0.880	0.91
154_Q	194_N	0.877	0.91
191_G	216_E	0.873	0.91
156_L	210_Q	0.861	0.91
31_E	35_S	0.859	0.90
103_Q	111_D	0.858	0.90
35_S	39_I	0.858	0.90
15_E	23_S	0.857	0.90
147_S	223_L	0.855	0.90
19_H	22_S	0.854	0.90
14_I	22_S	0.849	0.90
65_E	68_I	0.848	0.90
71_I	76_R	0.847	0.90
16_L	19_H	0.846	0.90
37_P	41_L	0.845	0.90
195_V	237_E	0.843	0.90
54_D	60_Y	0.842	0.90
60_Y	70_Q	0.842	0.90
186_Y	199_P	0.841	0.89
79_S	219_I	0.835	0.89
209_V	212_N	0.832	0.89
87_S	135_L	0.830	0.89
36_K	58_A	0.820	0.88
130_G	238_K	0.811	0.88
15_E	19_H	0.808	0.88
126_Q	187_E	0.804	0.87
181_N	202_A	0.804	0.87
210_Q	215_T	0.803	0.87
93_V	96_V	0.802	0.87
114_F	235_V	0.802	0.87
157_A	187_E	0.799	0.87
80_K	86_V	0.796	0.87
39_I	66_L	0.794	0.87
78_V	258_L	0.792	0.86
135_L	253_V	0.792	0.86
160_G	182_Y	0.790	0.86
117_L	198_I	0.780	0.86
29_F	33_K	0.771	0.85
105_F	114_F	0.768	0.85
147_S	188_L	0.766	0.85
30_C	39_I	0.765	0.85
174_G	177_V	0.759	0.84
26_I	204_N	0.757	0.84
28_G	32_S	0.756	0.84
23_S	204_N	0.756	0.84
138_S	141_H	0.749	0.83
23_S	26_I	0.742	0.83
166_V	202_A	0.735	0.82
19_H	29_F	0.733	0.82
222_E	225_Y	0.731	0.82
23_S	203_M	0.729	0.82
201_G	207_S	0.729	0.82
197_M	232_V	0.727	0.81
246_H	250_G	0.724	0.81
145_F	197_M	0.723	0.81
211_T	216_E	0.717	0.80
120_C	157_A	0.717	0.80
18_N	29_F	0.714	0.80
178_L	231_T	0.713	0.80
107_V	177_V	0.712	0.80
15_E	162_R	0.711	0.80
115_A	128_N	0.708	0.80
156_L	186_Y	0.707	0.80
119_G	185_V	0.706	0.79
29_F	62_S	0.705	0.79
96_V	251_Q	0.703	0.79
193_R	240_A	0.703	0.79
42_F	46_F	0.702	0.79
98_I	129_G	0.700	0.79
21_L	24_Y	0.700	0.79
74_E	255_V	0.695	0.78
253_V	259_I	0.694	0.78
106_T	177_V	0.690	0.78
68_I	227_S	0.689	0.78
131_Y	243_P	0.689	0.78
211_T	225_Y	0.689	0.78
35_S	243_P	0.685	0.77
63_L	159_L	0.681	0.77
188_L	197_M	0.677	0.77
14_I	29_F	0.676	0.76
94_Q	107_V	0.671	0.76
244_S	260_G	0.670	0.76
116_E	180_K	0.669	0.76
21_L	25_L	0.669	0.76
32_S	35_S	0.668	0.76
141_H	166_V	0.668	0.76
99_I	130_G	0.667	0.76
242_Q	245_A	0.666	0.75
192_S	237_E	0.666	0.75
139_P	166_V	0.666	0.75
110_K	176_D	0.665	0.75
130_G	151_C	0.665	0.75
54_D	72_N	0.665	0.75
164_Y	203_M	0.659	0.75
122_S	125_H	0.656	0.74
144_R	225_Y	0.655	0.74
28_G	31_E	0.654	0.74
120_C	124_D	0.654	0.74
23_S	33_K	0.649	0.74
193_R	237_E	0.645	0.73
217_L	223_L	0.641	0.73
77_P	255_V	0.640	0.72
65_E	98_I	0.639	0.72
165_P	170_G	0.635	0.72
19_H	27_K	0.632	0.72
153_Y	156_L	0.630	0.71
162_R	180_K	0.626	0.71
15_E	203_M	0.625	0.71
136_Y	139_P	0.625	0.71
41_L	44_K	0.623	0.70
184_F	207_S	0.621	0.70
27_K	31_E	0.621	0.70
208_I	233_I	0.621	0.70
38_V	41_L	0.620	0.70
107_V	134_V	0.619	0.70
82_A	191_G	0.619	0.70
209_V	216_E	0.617	0.70
70_Q	144_R	0.614	0.69
18_N	27_K	0.610	0.69
42_F	63_L	0.610	0.69
145_F	185_V	0.609	0.69
163_S	201_G	0.607	0.68
243_P	247_L	0.603	0.68
217_L	221_E	0.602	0.68
80_K	84_A	0.602	0.68
188_L	195_V	0.599	0.67
23_S	228_F	0.596	0.67
100_N	121_K	0.594	0.67
145_F	208_I	0.594	0.67
136_Y	170_G	0.593	0.67
184_F	199_P	0.592	0.67
247_L	259_I	0.591	0.66
107_V	233_I	0.589	0.66
24_Y	30_C	0.586	0.66
92_V	171_L	0.583	0.65
235_V	247_L	0.582	0.65
245_A	249_E	0.582	0.65
148_P	236_F	0.581	0.65
80_K	83_H	0.581	0.65
120_C	123_A	0.578	0.65
168_Q	203_M	0.576	0.64
26_I	228_F	0.576	0.64
94_Q	165_P	0.573	0.64
196_L	235_V	0.573	0.64
105_F	260_G	0.573	0.64
87_S	167_N	0.571	0.64
84_A	219_I	0.570	0.64
39_I	48_L	0.570	0.64
25_L	103_Q	0.568	0.63
92_V	105_F	0.566	0.63
22_S	208_I	0.565	0.63
206_N	224_G	0.564	0.63
82_A	192_S	0.563	0.63
52_D	75_R	0.563	0.63
96_V	243_P	0.563	0.63
20_R	23_S	0.562	0.63
127_Y	151_C	0.562	0.63
18_N	22_S	0.559	0.62
93_V	259_I	0.559	0.62
139_P	146_H	0.559	0.62
116_E	179_S	0.558	0.62
88_P	232_V	0.556	0.62
93_V	135_L	0.556	0.62
47_R	140_R	0.554	0.61
117_L	132_F	0.553	0.61
22_S	27_K	0.552	0.61
78_V	255_V	0.551	0.61
15_E	206_N	0.551	0.61
99_I	235_V	0.550	0.61
125_H	249_E	0.547	0.61
105_F	117_L	0.546	0.60
74_E	77_P	0.544	0.60
24_Y	27_K	0.542	0.60
209_V	225_Y	0.542	0.60
26_I	38_V	0.539	0.59
161_N	206_N	0.537	0.59
139_P	177_V	0.536	0.59
96_V	249_E	0.536	0.59
167_N	203_M	0.529	0.58
226_F	230_S	0.529	0.58
147_S	217_L	0.527	0.58
76_R	90_D	0.526	0.58
109_G	167_N	0.526	0.58
181_N	208_I	0.526	0.58
100_N	111_D	0.525	0.57
66_L	201_G	0.525	0.57
133_V	198_I	0.524	0.57
210_Q	216_E	0.524	0.57
210_Q	223_L	0.523	0.57
244_S	248_A	0.523	0.57
50_W	60_Y	0.522	0.57
25_L	28_G	0.521	0.57
95_T	136_Y	0.521	0.57
67_F	137_L	0.521	0.57
56_T	248_A	0.520	0.57
16_L	22_S	0.517	0.56
62_S	192_S	0.517	0.56
29_F	32_S	0.515	0.56
150_S	216_E	0.515	0.56
244_S	251_Q	0.513	0.56
166_V	205_I	0.512	0.56
210_Q	213_T	0.512	0.56
115_A	120_C	0.510	0.55
170_G	228_F	0.509	0.55
123_A	129_G	0.507	0.55
47_R	100_N	0.504	0.54
91_G	141_H	0.502	0.54
245_A	248_A	0.501	0.54
166_V	181_N	0.500	0.54

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
2gprA	1	0.5361	95.7	0.925	Contact Map
1f3zA	2	0.5133	94.3	0.931	Contact Map
3ourB	1	0.5133	92.4	0.936	Contact Map
2d5dA	1	0.2624	84.4	0.945	Contact Map
2xhaA	1	0.5019	79.3	0.948	Contact Map
1ax3A	1	0.4905	77.2	0.949	Contact Map
1dczA	1	0.2928	70	0.951	Contact Map
2kccA	1	0.3194	63.8	0.953	Contact Map
1z6hA	1	0.2738	60.8	0.954	Contact Map
2jkuA	1	0.1331	52.9	0.956	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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