LIPL - BACSU - GREMLIN Contacts

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LIPL - Octanoyl-[GcvH]:protein N-octanoyltransferase

UniProt:	P39648	Sequences: MANQPIDLLMQPKWRVIDQSSLGPLFDAKQSFAMDDTLCMSVGKGVSPATARSWVHHDTIVLGIQDTRLPFLQDGISLLESEGYRVIVRNSGGLAVVLDDGVLNISLIFEDEKKGIDIDKGYEAMVELMRRMLRPYNAKIEAYEIEGSYCPGSYDLSINGKKFAGISQRRVRGGVAVQIYLCADKSGSERADLIRRFYQAALKDKQNDKKGVYPEIRPETMASLSELLQKDISVQDLMFALLTELKALSTHLYSAGLSIDEEMEFEKNLVRMAERNAKVFG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	281 (234)
Sequences:	2380 (1667)
Seq/√Len:	108.9

ECOLI - LPLA
BACSU - LIPL LIPM LPLJ
HALSA - Q9HSK8 Q9HMH8 Q9HHS2
SULSO - Q97U65 Q97Z28 Q97U62 Q97Z70

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
267_K	271_R	4.172	1.00
184_D	225_S	3.929	1.00
222_A	227_L	3.422	1.00
36_D	40_M	2.952	1.00
127_E	131_R	2.824	1.00
134_R	139_K	2.817	1.00
77_S	81_S	2.696	1.00
78_L	82_E	2.567	1.00
135_P	247_A	2.543	1.00
233_S	236_D	2.377	1.00
258_S	261_E	2.356	1.00
79_L	86_V	2.278	1.00
135_P	244_E	2.231	1.00
264_E	267_K	2.227	1.00
82_E	193_L	2.224	1.00
269_L	274_E	2.208	1.00
54_W	106_S	2.096	1.00
270_V	274_E	2.050	1.00
201_A	205_K	2.022	1.00
18_D	238_M	1.986	1.00
40_M	264_E	1.936	1.00
131_R	247_A	1.932	1.00
266_E	270_V	1.923	1.00
105_I	179_I	1.908	1.00
260_D	263_M	1.904	1.00
91_S	169_R	1.896	1.00
98_L	104_N	1.859	1.00
78_L	81_S	1.802	1.00
255_A	261_E	1.765	1.00
57_H	85_R	1.756	1.00
38_L	50_T	1.753	1.00
222_A	226_E	1.733	1.00
136_Y	240_A	1.709	1.00
35_D	178_Q	1.706	1.00
268_N	272_M	1.687	1.00
186_S	189_E	1.663	1.00
76_I	80_E	1.649	1.00
139_K	159_N	1.635	1.00
103_L	234_V	1.633	1.00
51_A	245_L	1.631	1.00
41_S	264_E	1.619	1.00
56_H	98_L	1.611	1.00
62_L	68_R	1.609	1.00
156_L	163_F	1.606	1.00
36_D	272_M	1.603	1.00
198_Y	202_L	1.600	1.00
143_Y	157_S	1.593	1.00
82_E	192_D	1.559	1.00
239_F	243_T	1.557	1.00
161_K	226_E	1.534	1.00
49_A	110_E	1.525	1.00
30_Q	262_E	1.525	1.00
95_A	194_I	1.522	1.00
103_L	237_L	1.502	1.00
61_V	98_L	1.501	1.00
78_L	193_L	1.486	1.00
164_A	180_Y	1.482	1.00
131_R	134_R	1.465	1.00
167_S	178_Q	1.461	1.00
192_D	195_R	1.456	1.00
131_R	244_E	1.455	1.00
77_S	80_E	1.455	1.00
98_L	102_V	1.440	1.00
183_A	237_L	1.432	1.00
261_E	264_E	1.431	1.00
123_E	127_E	1.424	1.00
60_I	79_L	1.382	1.00
161_K	222_A	1.363	1.00
158_I	163_F	1.354	1.00
225_S	231_D	1.345	1.00
130_R	140_I	1.340	1.00
111_D	173_G	1.320	0.99
40_M	171_V	1.318	0.99
267_K	270_V	1.308	0.99
76_I	86_V	1.306	0.99
158_I	227_L	1.304	0.99
132_M	244_E	1.289	0.99
201_A	206_Q	1.286	0.99
32_F	35_D	1.280	0.99
57_H	100_D	1.279	0.99
166_I	177_V	1.279	0.99
31_S	56_H	1.276	0.99
61_V	96_V	1.273	0.99
82_E	189_E	1.256	0.99
255_A	258_S	1.253	0.99
154_Y	200_A	1.241	0.99
54_W	61_V	1.235	0.99
269_L	275_R	1.234	0.99
56_H	104_N	1.231	0.99
200_A	220_T	1.231	0.99
200_A	204_D	1.229	0.99
37_T	41_S	1.226	0.99
54_W	177_V	1.218	0.99
154_Y	220_T	1.217	0.99
78_L	84_Y	1.198	0.99
163_F	224_L	1.189	0.99
260_D	264_E	1.175	0.99
31_S	98_L	1.170	0.99
91_S	178_Q	1.165	0.99
102_V	180_Y	1.149	0.99
103_L	238_M	1.149	0.99
30_Q	34_M	1.146	0.99
140_I	156_L	1.132	0.98
242_L	246_K	1.130	0.98
266_E	269_L	1.118	0.98
32_F	61_V	1.106	0.98
257_L	262_E	1.101	0.98
135_P	240_A	1.099	0.98
42_V	110_E	1.096	0.98
189_E	192_D	1.095	0.98
32_F	98_L	1.094	0.98
135_P	243_T	1.089	0.98
268_N	273_A	1.076	0.98
60_I	194_I	1.070	0.98
94_L	164_A	1.065	0.98
263_M	267_K	1.063	0.98
27_D	30_Q	1.059	0.97
201_A	204_D	1.051	0.97
235_Q	239_F	1.046	0.97
55_V	238_M	1.042	0.97
63_G	155_D	1.029	0.97
72_L	79_L	1.021	0.97
70_P	215_E	1.021	0.97
257_L	265_F	1.017	0.97
99_D	189_E	1.017	0.97
271_R	275_R	0.995	0.96
246_K	252_L	0.994	0.96
98_L	178_Q	0.990	0.96
157_S	160_G	0.990	0.96
166_I	179_I	0.989	0.96
262_E	266_E	0.988	0.96
66_D	71_F	0.968	0.96
122_Y	125_M	0.965	0.96
272_M	275_R	0.961	0.96
196_R	200_A	0.948	0.95
143_Y	152_G	0.942	0.95
152_G	155_D	0.940	0.95
56_H	102_V	0.933	0.95
133_L	237_L	0.931	0.95
126_V	166_I	0.931	0.95
132_M	241_L	0.928	0.95
16_V	242_L	0.925	0.95
97_V	193_L	0.917	0.94
27_D	85_R	0.906	0.94
130_R	156_L	0.905	0.94
94_L	180_Y	0.904	0.94
94_L	155_D	0.895	0.94
32_F	56_H	0.894	0.93
53_S	238_M	0.892	0.93
78_L	192_D	0.890	0.93
55_V	234_V	0.888	0.93
154_Y	204_D	0.887	0.93
131_R	248_L	0.881	0.93
122_Y	168_Q	0.881	0.93
190_R	221_M	0.879	0.93
129_M	241_L	0.878	0.93
28_A	87_I	0.874	0.93
18_D	242_L	0.873	0.93
42_V	45_G	0.872	0.93
125_M	128_L	0.871	0.93
243_T	246_K	0.870	0.93
106_S	177_V	0.866	0.92
187_G	191_A	0.858	0.92
183_A	232_I	0.854	0.92
96_V	104_N	0.851	0.92
187_G	223_S	0.848	0.92
90_N	169_R	0.847	0.92
61_V	104_N	0.844	0.91
73_Q	81_S	0.837	0.91
232_I	240_A	0.825	0.90
73_Q	195_R	0.819	0.90
111_D	175_V	0.819	0.90
70_P	203_K	0.818	0.90
263_M	266_E	0.818	0.90
56_H	87_I	0.818	0.90
152_G	220_T	0.817	0.90
134_R	138_A	0.814	0.90
168_Q	177_V	0.813	0.90
19_Q	26_F	0.809	0.90
132_M	240_A	0.805	0.89
156_L	164_A	0.804	0.89
263_M	270_V	0.803	0.89
32_F	104_N	0.801	0.89
244_E	247_A	0.800	0.89
126_V	156_L	0.800	0.89
84_Y	193_L	0.799	0.89
34_M	265_F	0.797	0.89
159_N	227_L	0.797	0.89
106_S	178_Q	0.792	0.89
188_S	218_P	0.790	0.88
164_A	179_I	0.789	0.88
61_V	102_V	0.788	0.88
35_D	52_R	0.785	0.88
173_G	252_L	0.766	0.87
35_D	56_H	0.765	0.87
38_L	49_A	0.762	0.87
109_F	175_V	0.758	0.86
239_F	253_Y	0.754	0.86
259_I	263_M	0.750	0.86
61_V	180_Y	0.749	0.86
155_D	164_A	0.745	0.85
111_D	170_R	0.743	0.85
189_E	193_L	0.738	0.85
39_C	176_A	0.733	0.84
16_V	252_L	0.727	0.84
56_H	61_V	0.720	0.83
158_I	222_A	0.719	0.83
261_E	265_F	0.719	0.83
32_F	102_V	0.719	0.83
188_S	191_A	0.714	0.83
96_V	180_Y	0.713	0.83
225_S	229_Q	0.711	0.83
182_C	185_K	0.710	0.82
105_I	152_G	0.709	0.82
188_S	192_D	0.708	0.82
240_A	243_T	0.708	0.82
72_L	86_V	0.704	0.82
264_E	270_V	0.692	0.81
96_V	102_V	0.692	0.81
152_G	200_A	0.686	0.80
140_I	158_I	0.685	0.80
235_Q	238_M	0.683	0.80
34_M	257_L	0.682	0.80
54_W	104_N	0.680	0.80
106_S	168_Q	0.678	0.79
38_L	42_V	0.678	0.79
164_A	182_C	0.677	0.79
26_F	100_D	0.677	0.79
35_D	98_L	0.671	0.79
112_E	263_M	0.669	0.79
68_R	76_I	0.662	0.78
259_I	262_E	0.656	0.77
39_C	171_V	0.651	0.77
94_L	221_M	0.651	0.77
36_D	273_A	0.649	0.76
35_D	91_S	0.644	0.76
37_T	265_F	0.644	0.76
250_T	260_D	0.643	0.76
34_M	38_L	0.643	0.76
106_S	167_S	0.643	0.76
61_V	177_V	0.639	0.75
42_V	48_P	0.638	0.75
50_T	261_E	0.638	0.75
66_D	88_V	0.636	0.75
31_S	179_I	0.631	0.74
168_Q	175_V	0.628	0.74
155_D	221_M	0.624	0.74
166_I	178_Q	0.622	0.73
35_D	104_N	0.622	0.73
60_I	249_S	0.619	0.73
170_R	175_V	0.618	0.73
234_V	238_M	0.616	0.73
38_L	108_I	0.616	0.73
128_L	244_E	0.614	0.72
62_L	95_A	0.612	0.72
205_K	220_T	0.610	0.72
183_A	234_V	0.608	0.72
223_S	227_L	0.607	0.72
182_C	223_S	0.603	0.71
37_T	261_E	0.600	0.71
155_D	177_V	0.598	0.70
229_Q	233_S	0.597	0.70
141_E	160_G	0.597	0.70
126_V	142_A	0.596	0.70
217_R	220_T	0.595	0.70
41_S	258_S	0.593	0.70
78_L	189_E	0.590	0.69
244_E	248_L	0.587	0.69
121_G	170_R	0.585	0.69
79_L	84_Y	0.585	0.69
166_I	169_R	0.584	0.69
237_L	241_L	0.583	0.69
41_S	261_E	0.582	0.68
98_L	185_K	0.581	0.68
56_H	106_S	0.580	0.68
66_D	216_I	0.579	0.68
265_F	268_N	0.575	0.67
105_I	177_V	0.572	0.67
62_L	86_V	0.572	0.67
71_F	205_K	0.571	0.67
187_G	190_R	0.570	0.67
29_K	269_L	0.570	0.67
143_Y	160_G	0.570	0.67
108_I	163_F	0.569	0.67
28_A	79_L	0.568	0.67
253_Y	267_K	0.567	0.66
101_G	223_S	0.567	0.66
238_M	242_L	0.563	0.66
71_F	182_C	0.562	0.66
95_A	220_T	0.562	0.66
92_G	165_G	0.560	0.65
58_D	189_E	0.560	0.65
133_L	163_F	0.558	0.65
94_L	97_V	0.558	0.65
18_D	55_V	0.557	0.65
101_G	185_K	0.557	0.65
264_E	268_N	0.556	0.65
194_I	216_I	0.555	0.65
31_S	102_V	0.554	0.65
177_V	194_I	0.553	0.64
101_G	184_D	0.552	0.64
108_I	176_A	0.551	0.64
28_A	85_R	0.551	0.64
255_A	265_F	0.551	0.64
30_Q	269_L	0.550	0.64
71_F	216_I	0.548	0.64
222_A	225_S	0.546	0.64
59_T	85_R	0.545	0.63
187_G	226_E	0.544	0.63
97_V	189_E	0.543	0.63
125_M	175_V	0.541	0.63
224_L	237_L	0.540	0.63
38_L	101_G	0.540	0.63
91_S	218_P	0.537	0.62
60_I	97_V	0.536	0.62
88_V	94_L	0.536	0.62
59_T	98_L	0.536	0.62
104_N	166_I	0.535	0.62
110_E	174_G	0.535	0.62
163_F	227_L	0.534	0.62
39_C	121_G	0.527	0.61
243_T	251_H	0.527	0.61
203_K	215_E	0.527	0.61
202_L	205_K	0.526	0.61
39_C	43_G	0.518	0.60
236_D	239_F	0.518	0.60
250_T	266_E	0.516	0.59
161_K	227_L	0.515	0.59
31_S	178_Q	0.515	0.59
112_E	139_K	0.514	0.59
36_D	171_V	0.513	0.59
256_G	263_M	0.513	0.59
20_S	256_G	0.513	0.59
249_S	253_Y	0.513	0.59
36_D	106_S	0.512	0.59
122_Y	153_S	0.512	0.59
35_D	61_V	0.512	0.59
97_V	155_D	0.511	0.58
123_E	141_E	0.510	0.58
81_S	131_R	0.510	0.58
52_R	125_M	0.508	0.58
101_G	104_N	0.508	0.58
138_A	158_I	0.508	0.58
154_Y	196_R	0.508	0.58
180_Y	221_M	0.507	0.58
129_M	221_M	0.503	0.57
186_S	223_S	0.502	0.57
71_F	194_I	0.501	0.57
28_A	98_L	0.501	0.57
169_R	176_A	0.500	0.57
31_S	35_D	0.500	0.57

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
2c8mA	1	0.8505	100	0.268	Contact Map
3a7rA	1	0.8505	100	0.283	Contact Map
2e5aA	1	0.8505	100	0.316	Contact Map
2p0lA	1	0.9004	100	0.321	Contact Map
1vqzA	1	0.8612	100	0.333	Contact Map
2p5iA	1	0.9253	100	0.347	Contact Map
2qhsA	1	0.7402	100	0.475	Contact Map
1w66A	1	0.7509	100	0.512	Contact Map
2eayA	2	0.6085	98.4	0.872	Contact Map
2dxuA	2	0.637	98.3	0.874	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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