LGT - ECOLI - GREMLIN Contacts

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LGT - Prolipoprotein diacylglyceryl transferase

UniProt:	P60955	Sequences: MTSSYLHFPEFDPVIFSIGPVALHWYGLMYLVGFIFAMWLATRRANRPGSGWTKNEVENLLYAGFLGVFLGGRIGYVLFYNFPQFMADPLYLFRVWDGGMSFHGGLIGVIVVMIIFARRTKRSFFQVSDFIAPLIPFGLGAGRLGNFINGELWGRVDPNFPFAMLFPGSRTEDILLLQTNPQWQSIFDTYGVLPRHPSQLYELLLEGVVLFIILNLYIRKPRPMGAVSGLFLIGYGAFRIIVEFFRQPDAQFTGAWVQYISMGQILSIPMIVAGVIMMVWAYRRSPQQHVS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12128
Length:	291 (247)
Sequences:	4384 (3092)
Seq/√Len:	196.7

ECOLI - LGT
BACSU - LGT

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
158_P	163_A	3.618	1.00
91_Y	97_D	3.543	1.00
196_H	201_Y	3.458	1.00
276_I	280_W	3.297	1.00
91_Y	94_R	3.038	1.00
88_D	91_Y	3.036	1.00
17_S	22_A	2.911	1.00
241_I	245_F	2.861	1.00
27_G	31_L	2.809	1.00
205_L	238_F	2.654	1.00
94_R	97_D	2.507	1.00
82_F	86_M	2.483	1.00
209_V	234_G	2.431	1.00
236_G	271_I	2.392	1.00
115_I	119_R	2.374	1.00
233_I	274_G	2.300	1.00
229_G	277_M	2.230	1.00
124_F	128_S	2.227	1.00
156_V	193_L	2.177	1.00
144_L	203_L	2.163	1.00
226_A	282_Y	2.126	1.00
229_G	274_G	2.110	1.00
67_G	112_V	2.078	1.00
233_I	271_I	2.062	1.00
56_E	120_T	2.028	1.00
84_Q	88_D	1.989	1.00
16_F	23_L	1.985	1.00
240_I	244_F	1.985	1.00
46_N	54_K	1.921	1.00
53_T	56_E	1.910	1.00
86_M	89_P	1.909	1.00
108_G	112_V	1.870	1.00
71_G	108_G	1.867	1.00
103_H	263_G	1.841	1.00
169_S	191_G	1.839	1.00
17_S	20_P	1.824	1.00
15_I	28_L	1.818	1.00
226_A	278_M	1.707	1.00
117_A	127_V	1.702	1.00
160_F	163_A	1.697	1.00
89_P	93_F	1.661	1.00
223_P	226_A	1.652	1.00
45_A	57_V	1.625	1.00
128_S	228_S	1.611	1.00
81_N	84_Q	1.595	1.00
13_P	24_H	1.576	1.00
41_A	134_L	1.572	1.00
67_G	108_G	1.542	1.00
210_L	214_L	1.528	1.00
163_A	194_P	1.523	1.00
125_F	225_G	1.503	1.00
140_G	207_G	1.500	1.00
15_I	23_L	1.496	1.00
139_L	231_F	1.484	1.00
43_R	46_N	1.481	1.00
126_Q	224_M	1.476	1.00
244_F	264_Q	1.466	1.00
207_G	211_F	1.466	1.00
114_I	118_R	1.463	1.00
153_W	195_R	1.448	1.00
63_A	67_G	1.446	1.00
84_Q	91_Y	1.439	1.00
29_M	145_G	1.438	1.00
60_L	127_V	1.435	1.00
44_R	218_I	1.432	1.00
116_F	120_T	1.413	1.00
129_D	225_G	1.404	1.00
137_F	210_L	1.397	1.00
240_I	264_Q	1.372	1.00
36_F	141_A	1.371	1.00
43_R	47_R	1.338	1.00
229_G	278_M	1.322	1.00
268_I	272_V	1.318	1.00
38_M	61_L	1.310	1.00
147_F	164_M	1.303	1.00
205_L	242_V	1.302	1.00
77_V	92_L	1.298	1.00
39_W	43_R	1.294	1.00
90_L	93_F	1.292	1.00
165_L	194_P	1.290	1.00
275_V	279_V	1.289	1.00
90_L	94_R	1.286	1.00
198_S	242_V	1.273	1.00
44_R	47_R	1.273	1.00
37_A	64_G	1.267	1.00
233_I	275_V	1.260	1.00
230_L	278_M	1.241	1.00
158_P	162_F	1.234	1.00
146_N	151_E	1.233	1.00
11_F	148_I	1.232	1.00
233_I	278_M	1.218	1.00
42_T	46_N	1.217	1.00
169_S	192_V	1.205	1.00
229_G	281_A	1.203	1.00
95_V	98_G	1.192	1.00
34_F	68_V	1.191	1.00
56_E	122_R	1.189	1.00
204_L	208_V	1.186	1.00
123_S	224_M	1.183	1.00
210_L	234_G	1.171	1.00
252_F	262_M	1.163	1.00
212_I	216_L	1.155	1.00
34_F	65_F	1.154	1.00
147_F	200_L	1.140	1.00
114_I	124_F	1.138	1.00
238_F	242_V	1.134	1.00
200_L	204_L	1.132	1.00
42_T	58_E	1.126	1.00
133_P	136_P	1.126	1.00
211_F	215_N	1.122	1.00
84_Q	87_A	1.108	1.00
88_D	94_R	1.107	1.00
78_L	82_F	1.093	1.00
140_G	203_L	1.093	1.00
15_I	25_W	1.092	1.00
107_I	111_V	1.092	1.00
207_G	210_L	1.082	1.00
14_V	24_H	1.080	1.00
123_S	126_Q	1.078	1.00
122_R	127_V	1.076	1.00
217_Y	230_L	1.069	1.00
143_R	239_R	1.051	1.00
63_A	112_V	1.049	1.00
166_F	199_Q	1.048	1.00
111_V	115_I	1.046	1.00
272_V	276_I	1.042	1.00
68_V	109_V	1.036	1.00
205_L	209_V	1.020	1.00
60_L	64_G	1.018	1.00
106_L	135_I	1.018	1.00
77_V	85_F	1.015	1.00
237_A	271_I	1.014	1.00
223_P	282_Y	1.009	1.00
44_R	133_P	1.004	1.00
211_F	214_L	0.997	1.00
228_S	232_L	0.994	1.00
230_L	234_G	0.981	0.99
240_I	271_I	0.976	0.99
85_F	92_L	0.966	0.99
155_R	247_Q	0.960	0.99
260_I	265_I	0.958	0.99
277_M	281_A	0.958	0.99
202_E	242_V	0.955	0.99
169_S	190_Y	0.953	0.99
113_M	128_S	0.944	0.99
158_P	161_P	0.942	0.99
237_A	241_I	0.941	0.99
29_M	32_V	0.926	0.99
280_W	284_R	0.926	0.99
102_F	139_L	0.926	0.99
156_V	195_R	0.920	0.99
276_I	279_V	0.918	0.99
55_N	58_E	0.914	0.99
36_F	137_F	0.905	0.99
162_F	196_H	0.897	0.99
165_L	169_S	0.894	0.99
218_I	227_V	0.887	0.99
273_A	276_I	0.882	0.99
159_N	163_A	0.882	0.99
236_G	270_M	0.880	0.99
14_V	22_A	0.880	0.99
258_Q	265_I	0.876	0.99
232_L	270_M	0.870	0.99
35_I	39_W	0.870	0.99
215_N	218_I	0.869	0.99
59_N	120_T	0.869	0.99
159_N	162_F	0.867	0.99
62_Y	66_L	0.861	0.99
144_L	148_I	0.857	0.99
212_I	215_N	0.855	0.99
164_M	167_P	0.854	0.99
232_L	274_G	0.833	0.98
29_M	144_L	0.832	0.98
260_I	268_I	0.828	0.98
146_N	152_L	0.827	0.98
40_L	137_F	0.824	0.98
66_L	70_L	0.819	0.98
30_Y	33_G	0.818	0.98
100_M	105_G	0.817	0.98
19_G	22_A	0.816	0.98
125_F	229_G	0.814	0.98
203_L	208_V	0.813	0.98
195_R	247_Q	0.812	0.98
141_A	203_L	0.794	0.98
74_I	92_L	0.785	0.98
60_L	116_F	0.784	0.98
213_I	216_L	0.782	0.97
37_A	134_L	0.780	0.97
29_M	148_I	0.778	0.97
40_L	134_L	0.776	0.97
25_W	148_I	0.775	0.97
103_H	267_S	0.771	0.97
158_P	196_H	0.767	0.97
229_G	233_I	0.761	0.97
15_I	22_A	0.754	0.97
74_I	78_L	0.753	0.97
267_S	270_M	0.750	0.97
282_Y	285_S	0.747	0.97
136_P	209_V	0.747	0.97
150_G	168_G	0.747	0.97
103_H	236_G	0.742	0.97
132_A	228_S	0.741	0.97
234_G	238_F	0.741	0.97
132_A	135_I	0.735	0.96
52_W	122_R	0.732	0.96
142_G	235_Y	0.732	0.96
36_F	40_L	0.730	0.96
165_L	192_V	0.729	0.96
26_Y	146_N	0.727	0.96
71_G	100_M	0.727	0.96
146_N	149_N	0.719	0.96
32_V	141_A	0.717	0.96
213_I	238_F	0.714	0.96
125_F	277_M	0.711	0.96
56_E	116_F	0.711	0.96
140_G	206_E	0.711	0.96
166_F	194_P	0.711	0.96
278_M	282_Y	0.708	0.96
260_I	264_Q	0.701	0.95
12_D	25_W	0.700	0.95
67_G	71_G	0.699	0.95
190_Y	193_L	0.698	0.95
162_F	201_Y	0.697	0.95
16_F	22_A	0.697	0.95
222_R	226_A	0.696	0.95
251_Q	262_M	0.695	0.95
105_G	109_V	0.692	0.95
41_A	135_I	0.689	0.95
151_E	199_Q	0.688	0.95
110_I	124_F	0.685	0.95
89_P	92_L	0.684	0.95
72_G	100_M	0.683	0.95
14_V	17_S	0.681	0.94
226_A	281_A	0.681	0.94
68_V	72_G	0.680	0.94
137_F	140_G	0.679	0.94
233_I	237_A	0.676	0.94
73_R	100_M	0.674	0.94
169_S	193_L	0.671	0.94
150_G	167_P	0.666	0.94
215_N	219_R	0.663	0.94
274_G	277_M	0.660	0.93
41_A	130_F	0.657	0.93
198_S	245_F	0.657	0.93
163_A	167_P	0.655	0.93
217_Y	226_A	0.653	0.93
139_L	206_E	0.653	0.93
117_A	124_F	0.647	0.93
251_Q	261_S	0.645	0.93
33_G	36_F	0.645	0.93
155_R	196_H	0.644	0.93
155_R	245_F	0.642	0.93
42_T	54_K	0.638	0.92
33_G	142_G	0.632	0.92
110_I	114_I	0.630	0.92
161_P	164_M	0.630	0.92
102_F	231_F	0.626	0.92
106_L	132_A	0.625	0.92
44_R	48_P	0.618	0.91
26_Y	151_E	0.617	0.91
18_I	21_V	0.615	0.91
160_F	196_H	0.615	0.91
166_F	195_R	0.614	0.91
263_G	266_L	0.613	0.91
156_V	194_P	0.609	0.90
197_P	200_L	0.607	0.90
101_S	152_L	0.606	0.90
15_I	24_H	0.605	0.90
44_R	217_Y	0.604	0.90
262_M	266_L	0.604	0.90
166_F	169_S	0.604	0.90
115_I	120_T	0.603	0.90
13_P	22_A	0.603	0.90
81_N	85_F	0.600	0.90
250_A	261_S	0.600	0.90
12_D	150_G	0.597	0.90
73_R	98_G	0.593	0.89
45_A	52_W	0.592	0.89
48_P	130_F	0.591	0.89
36_F	39_W	0.591	0.89
227_V	230_L	0.588	0.89
191_G	195_R	0.587	0.89
38_M	42_T	0.587	0.89
39_W	42_T	0.584	0.89
153_W	198_S	0.583	0.88
110_I	128_S	0.583	0.88
152_L	198_S	0.581	0.88
158_P	164_M	0.580	0.88
94_R	98_G	0.580	0.88
60_L	113_M	0.579	0.88
85_F	91_Y	0.579	0.88
226_A	230_L	0.578	0.88
63_A	116_F	0.576	0.88
16_F	19_G	0.573	0.88
106_L	110_I	0.573	0.88
152_L	249_D	0.572	0.88
33_G	137_F	0.572	0.88
25_W	146_N	0.571	0.87
168_G	191_G	0.567	0.87
75_G	101_S	0.565	0.87
122_R	126_Q	0.563	0.87
14_V	25_W	0.562	0.87
248_P	251_Q	0.561	0.87
265_I	269_P	0.560	0.86
280_W	283_R	0.559	0.86
113_M	131_I	0.558	0.86
153_W	169_S	0.555	0.86
242_V	245_F	0.554	0.86
102_F	106_L	0.553	0.86
156_V	159_N	0.549	0.85
210_L	213_I	0.547	0.85
192_V	195_R	0.546	0.85
34_F	63_A	0.546	0.85
40_L	210_L	0.546	0.85
84_Q	94_R	0.545	0.85
241_I	244_F	0.542	0.85
110_I	113_M	0.541	0.85
32_V	36_F	0.539	0.84
209_V	238_F	0.536	0.84
41_A	131_I	0.535	0.84
114_I	117_A	0.535	0.84
244_F	261_S	0.534	0.84
82_F	87_A	0.532	0.84
279_V	283_R	0.532	0.84
72_G	105_G	0.532	0.84
267_S	271_I	0.531	0.83
12_D	17_S	0.531	0.83
63_A	120_T	0.528	0.83
198_S	261_S	0.528	0.83
269_P	273_A	0.528	0.83
142_G	231_F	0.528	0.83
131_I	135_I	0.526	0.83
84_Q	89_P	0.524	0.83
83_P	86_M	0.524	0.83
45_A	130_F	0.524	0.83
150_G	169_S	0.519	0.82
112_V	115_I	0.519	0.82
48_P	126_Q	0.519	0.82
257_V	260_I	0.518	0.82
152_L	248_P	0.518	0.82
198_S	248_P	0.516	0.82
208_V	212_I	0.515	0.82
40_L	214_L	0.515	0.82
81_N	251_Q	0.514	0.81
240_I	245_F	0.514	0.81
15_I	18_I	0.512	0.81
152_L	263_G	0.512	0.81
191_G	194_P	0.512	0.81
76_Y	251_Q	0.512	0.81
136_P	211_F	0.511	0.81
18_I	22_A	0.510	0.81
204_L	209_V	0.509	0.81
140_G	211_F	0.508	0.81
75_G	266_L	0.507	0.81
13_P	16_F	0.507	0.81
136_P	213_I	0.506	0.80
259_Y	265_I	0.506	0.80
76_Y	101_S	0.506	0.80
223_P	278_M	0.505	0.80
261_S	265_I	0.504	0.80
81_N	87_A	0.504	0.80
133_P	227_V	0.503	0.80
273_A	277_M	0.503	0.80
40_L	215_N	0.503	0.80
160_F	164_M	0.502	0.80
190_Y	195_R	0.502	0.80
63_A	119_R	0.501	0.80
42_T	55_N	0.501	0.80
101_S	146_N	0.500	0.80
139_L	142_G	0.500	0.80

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
2m20A	2	0.1237	16.8	0.962	Contact Map
2kluA	1	0.1478	15.1	0.962	Contact Map
2rddB	1	0.1065	15	0.963	Contact Map
2ks1B	1	0.1478	8.8	0.966	Contact Map
2i68A	2	0.2646	7.8	0.967	Contact Map
2l2tA	2	0.1478	6.3	0.968	Contact Map
4o6yA	2	0.3162	6.1	0.969	Contact Map
4gxbB	1	0.0034	6.1	0.969	Contact Map
2jwaA	2	0.1512	6	0.969	Contact Map
4px7A	1	0.7457	5.9	0.969	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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