BIRA - ECOLI - GREMLIN Contacts

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BIRA - Bifunctional ligase/repressor BirA

UniProt:	P06709	Sequences: MKDNTVPLKLIALLANGEFHSGEQLGETLGMSRAAINKHIQTLRDWGVDVFTVPGKGYSLPEPIQLLNAKQILGQLDGGSVAVLPVIDSTNQYLLDRIGELKSGDACIAEYQQAGRGRRGRKWFSPFGANLYLSMFWRLEQGPAAAIGLSLVIGIVMAEVLRKLGADKVRVKWPNDLYLQDRKLAGILVELTGKTGDAAQIVIGAGINMAMRRVEESVVNQGWITLQEAGINLDRNTLAAMLIRELRAALELFEQEGLAPYLSRWEKLDNFINRPVKLIIGDKEIFGISRGIDKQGALLLEQDGIIKPWMGGEISLRSAEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10123
Length:	321 (297)
Sequences:	2743 (2095)
Seq/√Len:	121.6

ECOLI - BIRA
BACSU - BIRA
HALSA - Q9HRK0
SULSO - Q7LXP4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
290_R	301_E	3.877	1.00
159_E	264_R	3.738	1.00
87_I	93_Y	3.479	1.00
159_E	245_E	3.399	1.00
302_Q	305_I	3.379	1.00
86_V	111_Y	3.216	1.00
163_K	245_E	2.984	1.00
93_Y	96_D	2.924	1.00
94_L	136_F	2.806	1.00
170_R	270_N	2.783	1.00
133_L	239_A	2.707	1.00
41_Q	44_R	2.681	1.00
84_L	87_I	2.664	1.00
131_L	239_A	2.640	1.00
162_R	268_L	2.548	1.00
134_S	202_V	2.536	1.00
125_S	132_Y	2.532	1.00
266_E	291_G	2.508	1.00
293_D	297_A	2.499	1.00
88_D	92_Q	2.440	1.00
110_E	235_R	2.415	1.00
23_E	27_E	2.379	1.00
158_A	268_L	2.365	1.00
108_I	239_A	2.328	1.00
277_K	286_F	2.293	1.00
88_D	93_Y	2.173	1.00
159_E	249_A	2.151	1.00
163_K	241_M	2.131	1.00
275_P	302_Q	2.097	1.00
179_L	184_L	2.082	1.00
157_M	185_A	2.080	1.00
75_Q	240_A	2.080	1.00
299_L	306_I	2.021	1.00
106_A	243_I	2.012	1.00
157_M	242_L	1.988	1.00
154_G	171_V	1.949	1.00
106_A	135_M	1.944	1.00
94_L	107_C	1.936	1.00
293_D	308_P	1.929	1.00
262_L	266_E	1.905	1.00
153_I	203_I	1.897	1.00
277_K	284_E	1.878	1.00
88_D	96_D	1.855	1.00
162_R	168_K	1.793	1.00
275_P	288_I	1.787	1.00
271_F	289_S	1.778	1.00
290_R	306_I	1.757	1.00
156_V	249_A	1.755	1.00
149_L	201_I	1.731	1.00
84_L	93_Y	1.723	1.00
275_P	286_F	1.697	1.00
291_G	299_L	1.695	1.00
301_E	306_I	1.693	1.00
98_I	136_F	1.673	1.00
272_I	291_G	1.662	1.00
278_L	314_I	1.631	1.00
299_L	308_P	1.625	1.00
160_V	242_L	1.591	1.00
53_V	56_K	1.548	1.00
157_M	177_L	1.544	1.00
97_R	107_C	1.533	1.00
65_Q	234_D	1.519	1.00
288_I	301_E	1.512	1.00
103_S	250_L	1.495	1.00
22_G	33_R	1.494	1.00
125_S	130_N	1.483	1.00
278_L	309_W	1.456	1.00
160_V	245_E	1.426	1.00
169_V	177_L	1.409	1.00
249_A	264_R	1.384	1.00
82_A	97_R	1.356	1.00
51_F	59_S	1.355	1.00
178_Y	270_N	1.348	1.00
130_N	211_M	1.333	1.00
51_F	61_P	1.327	1.00
179_L	228_E	1.320	1.00
234_D	237_T	1.320	1.00
158_A	169_V	1.304	1.00
35_A	38_K	1.299	1.00
207_I	242_L	1.292	1.00
101_L	136_F	1.292	1.00
223_W	228_E	1.280	1.00
238_L	242_L	1.275	1.00
205_A	242_L	1.274	1.00
177_L	185_A	1.272	1.00
69_A	73_L	1.270	1.00
216_E	219_V	1.256	0.99
96_D	100_E	1.256	0.99
222_G	225_T	1.250	0.99
24_Q	28_T	1.242	0.99
181_D	274_R	1.237	0.99
153_I	205_A	1.211	0.99
276_V	289_S	1.209	0.99
68_N	71_Q	1.193	0.99
162_R	169_V	1.190	0.99
78_G	247_R	1.185	0.99
93_Y	97_R	1.179	0.99
91_N	202_V	1.176	0.99
241_M	244_R	1.176	0.99
297_A	308_P	1.164	0.99
156_V	160_V	1.161	0.99
102_K	105_D	1.161	0.99
108_I	133_L	1.160	0.99
245_E	248_A	1.160	0.99
86_V	113_Q	1.159	0.99
169_V	179_L	1.152	0.99
297_A	310_M	1.151	0.99
77_D	244_R	1.146	0.99
278_L	300_L	1.141	0.99
269_D	289_S	1.140	0.99
192_T	200_Q	1.135	0.99
209_M	238_L	1.133	0.99
295_Q	308_P	1.130	0.99
223_W	227_Q	1.128	0.99
269_D	272_I	1.125	0.99
265_W	269_D	1.125	0.99
273_N	290_R	1.116	0.99
185_A	207_I	1.110	0.99
161_L	165_G	1.109	0.99
189_V	201_I	1.103	0.99
123_W	174_P	1.093	0.99
72_I	236_N	1.093	0.99
150_S	189_V	1.092	0.99
151_L	296_G	1.088	0.99
72_I	75_Q	1.088	0.99
246_L	250_L	1.068	0.98
82_A	105_D	1.054	0.98
279_I	284_E	1.050	0.98
49_D	62_E	1.050	0.98
258_L	262_L	1.035	0.98
126_P	132_Y	1.033	0.98
126_P	129_A	1.033	0.98
164_L	241_M	1.028	0.98
67_L	83_V	1.027	0.98
266_E	272_I	1.026	0.98
252_L	256_E	1.020	0.98
79_G	104_G	1.014	0.98
236_N	240_A	1.010	0.98
33_R	57_G	1.007	0.98
135_M	246_L	1.005	0.98
152_V	249_A	1.005	0.98
241_M	245_E	1.004	0.98
33_R	38_K	0.999	0.97
263_S	267_K	0.990	0.97
84_L	107_C	0.986	0.97
180_Q	228_E	0.983	0.97
157_M	205_A	0.971	0.97
215_E	218_V	0.971	0.97
22_G	57_G	0.968	0.97
104_G	247_R	0.968	0.97
242_L	246_L	0.958	0.97
22_G	58_Y	0.957	0.97
210_A	226_L	0.955	0.97
69_A	83_V	0.945	0.96
33_R	58_Y	0.944	0.96
34_A	37_N	0.943	0.96
24_Q	27_E	0.943	0.96
95_L	202_V	0.940	0.96
249_A	252_L	0.934	0.96
101_L	105_D	0.933	0.96
40_I	50_V	0.932	0.96
155_I	249_A	0.931	0.96
245_E	249_A	0.929	0.96
160_V	164_L	0.928	0.96
240_A	244_R	0.924	0.96
97_R	105_D	0.921	0.96
102_K	138_R	0.917	0.96
101_L	104_G	0.915	0.96
276_V	316_L	0.913	0.96
121_R	313_E	0.911	0.96
115_G	125_S	0.911	0.96
106_A	239_A	0.907	0.96
290_R	299_L	0.905	0.95
78_G	104_G	0.905	0.95
287_G	309_W	0.898	0.95
22_G	38_K	0.897	0.95
271_F	314_I	0.892	0.95
219_V	222_G	0.887	0.95
94_L	134_S	0.887	0.95
25_L	36_I	0.886	0.95
105_D	136_F	0.881	0.95
285_I	307_K	0.879	0.95
22_G	35_A	0.875	0.95
106_A	133_L	0.872	0.94
133_L	242_L	0.870	0.94
221_Q	225_T	0.870	0.94
203_I	250_L	0.870	0.94
85_P	110_E	0.868	0.94
22_G	37_N	0.868	0.94
252_L	264_R	0.867	0.94
223_W	226_L	0.865	0.94
158_A	162_R	0.864	0.94
91_N	312_G	0.864	0.94
218_V	221_Q	0.861	0.94
264_R	267_K	0.857	0.94
170_R	181_D	0.853	0.94
300_L	309_W	0.853	0.94
224_I	227_Q	0.852	0.94
82_A	93_Y	0.851	0.94
161_L	169_V	0.851	0.94
278_L	285_I	0.851	0.94
279_I	317_R	0.851	0.94
278_L	312_G	0.850	0.94
79_G	247_R	0.849	0.94
218_V	222_G	0.848	0.94
279_I	282_D	0.847	0.94
211_M	214_V	0.846	0.94
98_I	200_Q	0.846	0.94
158_A	177_L	0.840	0.93
135_M	243_I	0.837	0.93
264_R	268_L	0.830	0.93
155_I	265_W	0.828	0.93
279_I	315_S	0.827	0.93
203_I	246_L	0.827	0.93
71_Q	234_D	0.827	0.93
153_I	246_L	0.827	0.93
263_S	266_E	0.826	0.93
212_R	226_L	0.825	0.93
262_L	294_K	0.822	0.93
161_L	184_L	0.821	0.92
152_V	155_I	0.820	0.92
110_E	128_G	0.820	0.92
261_Y	265_W	0.819	0.92
111_Y	125_S	0.814	0.92
103_S	137_W	0.811	0.92
259_A	294_K	0.811	0.92
94_L	105_D	0.808	0.92
33_R	37_N	0.808	0.92
189_V	203_I	0.802	0.92
274_R	289_S	0.800	0.91
131_L	209_M	0.800	0.91
184_L	223_W	0.800	0.91
161_L	238_L	0.798	0.91
285_I	309_W	0.798	0.91
35_A	39_H	0.796	0.91
49_D	61_P	0.796	0.91
237_T	240_A	0.794	0.91
258_L	292_I	0.793	0.91
271_F	291_G	0.792	0.91
237_T	241_M	0.789	0.91
239_A	243_I	0.785	0.91
272_I	289_S	0.783	0.91
22_G	26_G	0.782	0.91
124_F	215_E	0.775	0.90
137_W	250_L	0.774	0.90
146_A	198_A	0.771	0.90
21_S	33_R	0.769	0.90
148_G	253_F	0.769	0.90
161_L	166_A	0.769	0.90
287_G	300_L	0.768	0.90
93_Y	107_C	0.768	0.90
207_I	238_L	0.766	0.90
265_W	292_I	0.765	0.90
42_T	45_D	0.760	0.89
146_A	191_L	0.759	0.89
209_M	235_R	0.755	0.89
83_V	236_N	0.755	0.89
155_I	264_R	0.753	0.89
80_S	105_D	0.743	0.88
22_G	32_S	0.743	0.88
137_W	203_I	0.742	0.88
85_P	127_F	0.742	0.88
219_V	223_W	0.740	0.88
226_L	232_N	0.734	0.88
133_L	205_A	0.734	0.88
37_N	194_K	0.732	0.87
151_L	154_G	0.729	0.87
210_A	224_I	0.724	0.87
249_A	261_Y	0.718	0.86
155_I	261_Y	0.715	0.86
158_A	171_V	0.714	0.86
72_I	239_A	0.713	0.86
111_Y	124_F	0.710	0.86
71_Q	74_G	0.706	0.85
214_V	217_S	0.705	0.85
50_V	59_S	0.705	0.85
149_L	250_L	0.704	0.85
82_A	87_I	0.700	0.85
280_I	283_K	0.700	0.85
248_A	252_L	0.698	0.85
269_D	291_G	0.696	0.85
111_Y	127_F	0.695	0.85
109_A	132_Y	0.695	0.85
44_R	52_T	0.695	0.85
166_A	169_V	0.693	0.84
178_Y	271_F	0.691	0.84
92_Q	114_A	0.689	0.84
161_L	177_L	0.685	0.84
132_Y	211_M	0.682	0.83
210_A	231_I	0.682	0.83
72_I	240_A	0.681	0.83
37_N	58_Y	0.681	0.83
168_K	180_Q	0.680	0.83
129_A	211_M	0.680	0.83
138_R	200_Q	0.679	0.83
160_V	241_M	0.678	0.83
139_L	250_L	0.677	0.83
31_M	39_H	0.676	0.83
31_M	35_A	0.675	0.83
155_I	159_E	0.671	0.82
147_I	150_S	0.669	0.82
23_E	34_A	0.667	0.82
225_T	228_E	0.655	0.81
92_Q	96_D	0.655	0.81
72_I	81_V	0.655	0.81
37_N	41_Q	0.654	0.81
38_K	58_Y	0.654	0.81
101_L	138_R	0.653	0.81
177_L	184_L	0.652	0.81
48_V	64_I	0.651	0.81
300_L	316_L	0.649	0.80
191_L	201_I	0.647	0.80
244_R	248_A	0.641	0.80
141_Q	253_F	0.640	0.79
155_I	268_L	0.640	0.79
148_G	258_L	0.637	0.79
257_G	260_P	0.637	0.79
22_G	34_A	0.637	0.79
182_R	228_E	0.637	0.79
123_W	151_L	0.637	0.79
104_G	250_L	0.634	0.79
48_V	60_L	0.628	0.78
44_R	49_D	0.627	0.78
104_G	136_F	0.627	0.78
142_G	145_A	0.626	0.78
31_M	34_A	0.624	0.78
220_N	223_W	0.623	0.78
71_Q	76_L	0.621	0.77
153_I	189_V	0.621	0.77
143_P	191_L	0.621	0.77
224_I	229_A	0.620	0.77
35_A	57_G	0.618	0.77
136_F	200_Q	0.618	0.77
22_G	36_I	0.618	0.77
225_T	229_A	0.617	0.77
219_V	225_T	0.614	0.77
285_I	300_L	0.613	0.76
214_V	218_V	0.612	0.76
69_A	72_I	0.612	0.76
39_H	42_T	0.612	0.76
287_G	296_G	0.612	0.76
33_R	36_I	0.611	0.76
251_E	254_E	0.610	0.76
194_K	197_D	0.610	0.76
133_L	243_I	0.609	0.76
76_L	240_A	0.602	0.75
91_N	134_S	0.602	0.75
266_E	269_D	0.598	0.75
95_L	192_T	0.597	0.75
26_G	29_L	0.596	0.74
220_N	224_I	0.595	0.74
152_V	253_F	0.594	0.74
39_H	265_W	0.594	0.74
90_T	109_A	0.591	0.74
123_W	296_G	0.590	0.74
277_K	317_R	0.590	0.74
60_L	63_P	0.589	0.74
139_L	198_A	0.589	0.74
161_L	167_D	0.589	0.74
243_I	247_R	0.587	0.73
103_S	138_R	0.586	0.73
148_G	152_V	0.584	0.73
92_Q	95_L	0.583	0.73
160_V	238_L	0.582	0.73
256_E	260_P	0.582	0.73
103_S	254_E	0.580	0.72
31_M	36_I	0.579	0.72
298_L	309_W	0.578	0.72
163_K	244_R	0.578	0.72
165_G	168_K	0.577	0.72
280_I	307_K	0.576	0.72
153_I	156_V	0.575	0.72
265_W	310_M	0.574	0.72
210_A	230_G	0.572	0.71
123_W	191_L	0.569	0.71
37_N	57_G	0.568	0.71
271_F	274_R	0.567	0.71
38_K	57_G	0.567	0.71
276_V	309_W	0.567	0.71
141_Q	145_A	0.565	0.71
150_S	154_G	0.564	0.70
97_R	101_L	0.560	0.70
67_L	239_A	0.557	0.69
126_P	211_M	0.557	0.69
289_S	298_L	0.557	0.69
136_F	139_L	0.557	0.69
123_W	195_T	0.555	0.69
52_T	59_S	0.553	0.69
217_S	221_Q	0.552	0.69
92_Q	116_R	0.551	0.69
159_E	268_L	0.551	0.69
87_I	109_A	0.551	0.69
68_N	74_G	0.548	0.68
289_S	300_L	0.546	0.68
266_E	292_I	0.544	0.68
304_G	307_K	0.543	0.67
68_N	234_D	0.543	0.67
156_V	245_E	0.543	0.67
67_L	72_I	0.543	0.67
68_N	236_N	0.543	0.67
258_L	266_E	0.543	0.67
210_A	233_L	0.542	0.67
107_C	136_F	0.542	0.67
211_M	224_I	0.540	0.67
161_L	207_I	0.538	0.67
81_V	106_A	0.538	0.67
83_V	108_I	0.536	0.67
178_Y	265_W	0.536	0.67
135_M	247_R	0.535	0.66
286_F	302_Q	0.534	0.66
35_A	58_Y	0.534	0.66
178_Y	316_L	0.533	0.66
229_A	233_L	0.533	0.66
145_A	148_G	0.532	0.66
147_I	151_L	0.531	0.66
104_G	137_W	0.531	0.66
181_D	270_N	0.531	0.66
20_H	28_T	0.530	0.66
32_S	35_A	0.528	0.65
278_L	313_E	0.528	0.65
157_M	207_I	0.526	0.65
123_W	210_A	0.524	0.65
149_L	253_F	0.524	0.65
72_I	237_T	0.523	0.65
152_V	201_I	0.523	0.65
84_L	88_D	0.522	0.64
98_I	101_L	0.521	0.64
48_V	71_Q	0.521	0.64
116_R	190_E	0.521	0.64
181_D	268_L	0.520	0.64
111_Y	132_Y	0.520	0.64
293_D	299_L	0.518	0.64
233_L	238_L	0.518	0.64
88_D	109_A	0.516	0.64
120_G	313_E	0.516	0.64
174_P	265_W	0.515	0.63
162_R	267_K	0.515	0.63
252_L	260_P	0.515	0.63
174_P	296_G	0.512	0.63
23_E	42_T	0.506	0.62
83_V	94_L	0.506	0.62
80_S	102_K	0.501	0.61
94_L	97_R	0.501	0.61
139_L	146_A	0.501	0.61
151_L	174_P	0.500	0.61
41_Q	45_D	0.500	0.61

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
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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
1biaA	1	0.9097	100	0.163	Contact Map
3rkxA	1	0.9283	100	0.191	Contact Map
2eayA	2	0.6885	100	0.34	Contact Map
2dxuA	2	0.7165	100	0.346	Contact Map
4op0A	1	0.7726	100	0.35	Contact Map
2ej9A	1	0.7134	100	0.357	Contact Map
3bfmA	2	0.7009	100	0.477	Contact Map
1vqzA	1	0.7664	99.9	0.76	Contact Map
2p5iA	1	0.6729	99.9	0.781	Contact Map
2p0lA	1	0.7321	99.7	0.825	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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