PGPB - ECOLI - GREMLIN Contacts

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PGPB - Phosphatidylglycerophosphatase B

UniProt:	P0A924	Sequences: MRSIARRTAVGAALLLVMPVAVWISGWRWQPGEQSWLLKAAFWVTETVTQPWGVITHLILFGWFLWCLRFRIKAAFVLFAILAAAILVGQGVKSWIKDKVQEPRPFVIWLEKTHHIPVDEFYTLKRAERGNLVKEQLAEEKNIPQYLRSHWQKETGFAFPSGHTMFAASWALLAVGLLWPRRRTLTIAILLVWATGVMGSRLLLGMHWPRDLVVATLISWALVAVATWLAQRICGPLTPPAEENREIAQREQES	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10705
Length:	254 (212)
Sequences:	1554 (1129)
Seq/√Len:	77.5

ECOLI - PGPB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
93_K	165_M	3.749	1.00
58_L	62_G	3.560	1.00
27_W	30_Q	3.480	1.00
144_P	147_L	3.163	1.00
168_A	198_M	2.990	1.00
164_T	198_M	2.862	1.00
98_D	157_F	2.648	1.00
110_L	155_T	2.484	1.00
112_K	146_Y	2.462	1.00
106_F	110_L	2.451	1.00
172_L	220_W	2.339	1.00
34_Q	40_A	2.213	1.00
198_M	216_T	2.115	1.00
9_A	12_A	2.057	1.00
106_F	155_T	2.029	1.00
54_V	58_L	2.011	1.00
168_A	216_T	2.002	1.00
202_L	212_L	1.981	1.00
160_P	218_I	1.947	1.00
51_P	55_I	1.938	1.00
38_L	42_F	1.903	1.00
42_F	45_T	1.873	1.00
81_I	173_L	1.839	1.00
42_F	46_E	1.838	1.00
45_T	48_V	1.796	1.00
28_R	31_P	1.768	1.00
34_Q	39_K	1.734	1.00
55_I	59_I	1.732	1.00
114_H	117_P	1.730	1.00
54_V	62_G	1.703	1.00
34_Q	37_L	1.701	1.00
26_G	29_W	1.664	1.00
102_E	210_R	1.663	1.00
32_G	40_A	1.662	1.00
46_E	50_Q	1.594	1.00
11_G	27_W	1.574	0.99
47_T	50_Q	1.555	0.99
145_Q	152_Q	1.548	0.99
37_L	41_A	1.537	0.99
41_A	45_T	1.522	0.99
37_L	40_A	1.522	0.99
56_T	60_L	1.502	0.99
106_F	206_M	1.480	0.99
85_A	169_S	1.472	0.99
33_E	37_L	1.466	0.99
147_L	152_Q	1.459	0.99
32_G	38_L	1.435	0.99
97_K	104_R	1.435	0.99
39_K	42_F	1.406	0.99
36_W	40_A	1.405	0.99
109_W	112_K	1.400	0.99
159_F	214_V	1.389	0.99
162_G	207_H	1.383	0.99
92_V	222_L	1.379	0.99
60_L	64_F	1.377	0.99
32_G	37_L	1.360	0.98
92_V	218_I	1.341	0.98
33_E	38_L	1.338	0.98
163_H	207_H	1.312	0.98
42_F	47_T	1.311	0.98
37_L	42_F	1.297	0.98
37_L	45_T	1.286	0.98
144_P	148_R	1.284	0.98
46_E	49_T	1.282	0.98
128_E	131_N	1.274	0.98
41_A	44_V	1.267	0.98
196_G	200_S	1.253	0.97
44_V	47_T	1.251	0.97
40_A	46_E	1.250	0.97
103_P	156_G	1.243	0.97
11_G	22_V	1.241	0.97
19_P	23_W	1.217	0.97
34_Q	38_L	1.211	0.97
154_E	206_M	1.203	0.97
167_A	197_V	1.199	0.97
51_P	59_I	1.198	0.97
42_F	50_Q	1.197	0.97
143_I	146_Y	1.195	0.97
158_A	208_W	1.192	0.96
23_W	31_P	1.191	0.96
21_A	27_W	1.178	0.96
55_I	58_L	1.173	0.96
175_V	179_W	1.165	0.96
22_V	25_S	1.159	0.96
52_W	62_G	1.155	0.96
20_V	25_S	1.154	0.96
97_K	207_H	1.152	0.96
58_L	61_F	1.143	0.96
35_S	38_L	1.137	0.95
27_W	31_P	1.131	0.95
26_G	31_P	1.128	0.95
34_Q	45_T	1.118	0.95
38_L	41_A	1.118	0.95
57_H	61_F	1.097	0.94
76_F	80_A	1.089	0.94
18_M	22_V	1.086	0.94
40_A	47_T	1.084	0.94
45_T	49_T	1.080	0.94
61_F	65_L	1.078	0.94
202_L	209_P	1.072	0.94
172_L	191_L	1.057	0.93
40_A	43_W	1.051	0.93
194_A	216_T	1.051	0.93
32_G	35_S	1.042	0.93
11_G	18_M	1.042	0.93
100_V	159_F	1.040	0.93
11_G	16_L	1.038	0.93
26_G	30_Q	1.034	0.92
35_S	40_A	1.026	0.92
52_W	56_T	1.018	0.92
127_A	131_N	1.015	0.92
59_I	63_W	1.012	0.92
32_G	41_A	1.010	0.92
19_P	31_P	1.008	0.91
210_R	214_V	1.003	0.91
11_G	14_L	1.000	0.91
107_V	156_G	0.998	0.91
25_S	28_R	0.992	0.91
224_A	228_W	0.988	0.91
97_K	162_G	0.987	0.91
37_L	108_I	0.983	0.90
135_E	142_N	0.967	0.90
219_S	223_V	0.955	0.89
102_E	205_G	0.954	0.89
11_G	19_P	0.953	0.89
40_A	45_T	0.947	0.89
39_K	46_E	0.939	0.88
11_G	31_P	0.938	0.88
15_L	19_P	0.937	0.88
215_A	219_S	0.921	0.87
69_R	72_I	0.907	0.86
168_A	194_A	0.904	0.86
227_T	231_Q	0.896	0.86
107_V	111_E	0.893	0.86
16_L	20_V	0.890	0.85
32_G	43_W	0.889	0.85
16_L	25_S	0.889	0.85
50_Q	58_L	0.888	0.85
149_S	153_K	0.884	0.85
188_A	192_V	0.882	0.85
102_E	208_W	0.880	0.85
112_K	145_Q	0.877	0.85
96_I	214_V	0.877	0.85
41_A	46_E	0.874	0.84
143_I	147_L	0.872	0.84
163_H	200_S	0.871	0.84
130_G	135_E	0.865	0.84
179_W	187_I	0.862	0.84
34_Q	41_A	0.862	0.84
41_A	47_T	0.858	0.83
54_V	63_W	0.856	0.83
23_W	29_W	0.845	0.82
104_R	162_G	0.845	0.82
40_A	44_V	0.841	0.82
164_T	216_T	0.839	0.82
165_M	215_A	0.836	0.82
32_G	46_E	0.834	0.81
23_W	27_W	0.833	0.81
11_G	30_Q	0.831	0.81
35_S	46_E	0.825	0.81
164_T	168_A	0.825	0.81
163_H	201_R	0.825	0.81
15_L	22_V	0.822	0.81
93_K	171_A	0.822	0.81
168_A	172_L	0.816	0.80
33_E	40_A	0.811	0.80
11_G	23_W	0.811	0.80
38_L	50_Q	0.810	0.80
51_P	54_V	0.803	0.79
32_G	36_W	0.803	0.79
106_F	154_E	0.800	0.79
55_I	60_L	0.797	0.78
11_G	29_W	0.797	0.78
94_S	166_F	0.793	0.78
66_W	70_F	0.792	0.78
9_A	23_W	0.791	0.78
43_W	50_Q	0.788	0.78
33_E	42_F	0.788	0.78
53_G	61_F	0.787	0.78
217_L	221_A	0.782	0.77
159_F	177_L	0.780	0.77
49_T	52_W	0.780	0.77
34_Q	43_W	0.777	0.77
40_A	50_Q	0.775	0.76
170_W	173_L	0.771	0.76
14_L	17_V	0.765	0.76
34_Q	44_V	0.763	0.75
15_L	25_S	0.760	0.75
32_G	44_V	0.759	0.75
43_W	48_V	0.757	0.75
25_S	29_W	0.757	0.75
111_E	204_L	0.756	0.75
35_S	39_K	0.755	0.75
41_A	48_V	0.752	0.74
104_R	207_H	0.744	0.74
97_K	163_H	0.742	0.73
33_E	41_A	0.741	0.73
32_G	39_K	0.737	0.73
32_G	42_F	0.737	0.73
227_T	232_R	0.735	0.73
56_T	59_I	0.732	0.72
43_W	47_T	0.731	0.72
97_K	200_S	0.730	0.72
32_G	45_T	0.729	0.72
57_H	60_L	0.724	0.71
35_S	42_F	0.721	0.71
89_G	222_L	0.719	0.71
191_L	195_T	0.716	0.71
200_S	207_H	0.716	0.71
103_P	107_V	0.715	0.71
11_G	28_R	0.710	0.70
158_A	211_D	0.709	0.70
39_K	44_V	0.707	0.70
101_Q	156_G	0.705	0.69
42_F	48_V	0.701	0.69
36_W	41_A	0.700	0.69
37_L	44_V	0.699	0.69
58_L	64_F	0.698	0.69
168_A	190_L	0.691	0.68
12_A	16_L	0.689	0.68
9_A	16_L	0.687	0.67
37_L	46_E	0.684	0.67
96_I	100_V	0.675	0.66
10_V	15_L	0.662	0.65
45_T	50_Q	0.660	0.64
44_V	48_V	0.658	0.64
143_I	148_R	0.655	0.64
146_Y	151_W	0.655	0.64
36_W	39_K	0.653	0.64
21_A	25_S	0.649	0.63
36_W	50_Q	0.648	0.63
22_V	28_R	0.647	0.63
18_M	28_R	0.646	0.63
37_L	50_Q	0.644	0.62
95_W	99_K	0.643	0.62
18_M	21_A	0.641	0.62
48_V	52_W	0.641	0.62
82_L	169_S	0.641	0.62
52_W	55_I	0.641	0.62
67_C	221_A	0.638	0.62
61_F	64_F	0.637	0.62
193_W	196_G	0.635	0.61
55_I	62_G	0.634	0.61
74_A	231_Q	0.630	0.61
60_L	63_W	0.622	0.60
102_E	156_G	0.614	0.59
73_K	77_V	0.613	0.59
12_A	27_W	0.610	0.58
39_K	45_T	0.607	0.58
130_G	133_V	0.607	0.58
209_P	213_V	0.606	0.58
11_G	21_A	0.604	0.58
201_R	207_H	0.604	0.58
229_L	232_R	0.602	0.57
175_V	187_I	0.599	0.57
38_L	43_W	0.599	0.57
174_A	190_L	0.596	0.57
78_L	171_A	0.595	0.56
89_G	93_K	0.595	0.56
53_G	57_H	0.594	0.56
144_P	152_Q	0.593	0.56
144_P	151_W	0.591	0.56
12_A	15_L	0.589	0.56
92_V	160_P	0.588	0.56
129_R	133_V	0.585	0.55
96_I	199_G	0.584	0.55
165_M	204_L	0.583	0.55
171_A	175_V	0.583	0.55
157_F	206_M	0.580	0.55
20_V	24_I	0.579	0.54
18_M	31_P	0.579	0.54
33_E	39_K	0.578	0.54
231_Q	234_C	0.572	0.54
111_E	219_S	0.568	0.53
68_L	71_R	0.568	0.53
172_L	224_A	0.567	0.53
88_V	222_L	0.563	0.52
111_E	215_A	0.561	0.52
54_V	59_I	0.560	0.52
218_I	222_L	0.558	0.52
89_G	218_I	0.555	0.51
99_K	209_P	0.552	0.51
35_S	41_A	0.551	0.51
110_L	157_F	0.549	0.51
39_K	47_T	0.549	0.51
17_V	21_A	0.548	0.50
74_A	78_L	0.547	0.50
43_W	46_E	0.544	0.50
15_L	30_Q	0.542	0.50
14_L	23_W	0.541	0.50
9_A	15_L	0.539	0.49
53_G	56_T	0.537	0.49
25_S	31_P	0.535	0.49
128_E	133_V	0.532	0.48
67_C	71_R	0.532	0.48
39_K	50_Q	0.530	0.48
13_A	24_I	0.528	0.48
103_P	175_V	0.526	0.48
47_T	51_P	0.524	0.47
71_R	74_A	0.524	0.47
58_L	65_L	0.523	0.47
38_L	45_T	0.522	0.47
148_R	151_W	0.520	0.47
38_L	46_E	0.520	0.47
93_K	157_F	0.519	0.47
35_S	45_T	0.518	0.47
110_L	179_W	0.518	0.47
34_Q	47_T	0.518	0.47
109_W	151_W	0.517	0.47
90_Q	166_F	0.517	0.47
103_P	210_R	0.514	0.46
11_G	25_S	0.512	0.46
34_Q	48_V	0.508	0.45
131_N	134_K	0.505	0.45
78_L	110_L	0.505	0.45
159_F	209_P	0.505	0.45
23_W	30_Q	0.502	0.45
100_V	199_G	0.500	0.44

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
4px7A	1	0.9724	100	0.425	Contact Map
4citA	1	0.748	99.9	0.661	Contact Map
1qi9A	2	0.878	99.8	0.699	Contact Map
1d2tA	5	0.8031	99.8	0.701	Contact Map
1up8A	9	0.8346	99.8	0.705	Contact Map
2ipbA	2	0.7795	99.7	0.706	Contact Map
3w36A	2	0.7598	99.6	0.743	Contact Map
3bb0A	1	0.8386	99.4	0.773	Contact Map
2kluA	1	0.1969	61.7	0.938	Contact Map
2m20A	2	0.185	24.7	0.951	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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