LSRR - ECOLI - GREMLIN Contacts

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LSRR - Transcriptional regulator LsrR

UniProt:	P76141	Sequences: MTINDSAISEQGMCEEEQVARIAWFYYHDGLTQSEISDRLGLTRLKVSRLLEKGHQSGIIRVQINSRFEGCLEYETQLRRQFSLQHVRVIPGLADADVGGRLGIGAAHMLMSLLQPQQMLAIGFGEATMNTLQRLSGFISSQQIRLVTLSGGVGSYMTGIGQLNAACSVNIIPAPLRASSADIARTLKNENCVKDVLLAAQAADVAIVGIGAVSQQDDATIIRSGYISQGEQLMIGRKGAVGDILGYFFDAKGDVVTNIKIHNELIGLPLSALKTIPVRVGVAGGENKAEAIAAAMKGGYINALVTDQDTAAAILRS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13805
Length:	317 (297)
Sequences:	2158 (1681)
Seq/√Len:	97.5

ECOLI - LSRR YJHU
BACSU - DEOR CGGR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
250_D	254_D	6.849	1.00
201_Q	272_A	4.169	1.00
121_A	203_A	3.441	1.00
102_L	284_G	3.294	1.00
118_Q	204_D	3.081	1.00
61_R	65_N	3.038	1.00
82_F	293_A	2.848	1.00
292_I	310_T	2.834	1.00
210_I	281_G	2.773	1.00
251_A	290_E	2.730	1.00
109_M	305_V	2.720	1.00
249_F	294_A	2.713	1.00
82_F	296_M	2.688	1.00
293_A	297_K	2.633	1.00
31_L	39_R	2.628	1.00
106_A	282_V	2.543	1.00
184_A	188_K	2.518	1.00
306_T	310_T	2.505	1.00
281_G	301_I	2.496	1.00
194_K	198_L	2.263	1.00
90_I	105_G	2.245	1.00
209_G	281_G	2.155	1.00
313_A	316_R	2.152	1.00
242_G	294_A	2.146	1.00
119_M	199_A	2.145	1.00
283_A	292_I	2.121	1.00
204_D	277_P	2.111	1.00
278_V	303_A	2.085	1.00
289_A	314_I	2.064	1.00
77_Q	80_R	2.014	1.00
289_A	313_A	2.006	1.00
52_E	56_Q	1.996	1.00
53_K	57_S	1.992	1.00
117_Q	143_Q	1.983	1.00
242_G	249_F	1.922	1.00
106_A	131_T	1.915	1.00
181_A	185_R	1.884	1.00
279_R	302_N	1.878	1.00
293_A	314_I	1.868	1.00
205_V	280_V	1.849	1.00
269_P	272_A	1.846	1.00
88_R	105_G	1.842	1.00
131_T	282_V	1.837	1.00
99_G	126_E	1.834	1.00
289_A	310_T	1.823	1.00
119_M	202_A	1.817	1.00
78_L	87_V	1.799	1.00
200_A	203_A	1.771	1.00
145_R	170_N	1.748	1.00
178_A	183_I	1.741	1.00
119_M	203_A	1.715	1.00
233_L	237_R	1.711	1.00
181_A	263_N	1.710	1.00
86_H	303_A	1.692	1.00
76_T	79_R	1.689	1.00
149_L	206_A	1.674	1.00
109_M	303_A	1.667	1.00
22_I	42_L	1.663	1.00
208_V	281_G	1.662	1.00
208_V	279_R	1.652	1.00
203_A	276_I	1.650	1.00
135_L	163_L	1.636	1.00
22_I	36_I	1.627	1.00
156_Y	159_G	1.591	1.00
91_P	308_Q	1.587	1.00
249_F	291_A	1.577	1.00
179_S	191_N	1.551	1.00
85_Q	278_V	1.538	1.00
79_R	87_V	1.529	1.00
45_L	48_S	1.523	1.00
19_V	50_L	1.523	1.00
120_L	205_V	1.520	1.00
252_K	297_K	1.503	1.00
210_I	291_A	1.482	1.00
285_G	307_D	1.481	1.00
100_G	134_R	1.460	1.00
109_M	113_L	1.455	1.00
251_A	294_A	1.433	1.00
231_E	264_E	1.428	1.00
123_G	245_L	1.388	0.99
22_I	40_L	1.386	0.99
79_R	86_H	1.371	0.99
145_R	199_A	1.362	0.99
120_L	146_L	1.338	0.99
197_L	200_A	1.327	0.99
228_S	231_E	1.325	0.99
130_N	133_Q	1.323	0.99
308_Q	312_A	1.319	0.99
206_A	276_I	1.310	0.99
114_L	120_L	1.307	0.99
234_M	238_K	1.307	0.99
162_Q	165_A	1.305	0.99
292_I	306_T	1.299	0.99
30_G	55_H	1.289	0.99
19_V	59_I	1.288	0.99
31_L	35_E	1.285	0.99
103_G	130_N	1.283	0.99
258_N	262_H	1.271	0.99
170_N	199_A	1.253	0.99
78_L	89_V	1.253	0.99
107_A	135_L	1.250	0.99
250_D	256_V	1.250	0.99
179_S	190_E	1.240	0.99
132_L	163_L	1.222	0.99
27_Y	62_V	1.222	0.99
164_N	169_V	1.212	0.98
121_A	124_F	1.211	0.98
121_A	149_L	1.211	0.98
178_A	187_L	1.200	0.98
37_S	47_V	1.184	0.98
73_E	77_Q	1.174	0.98
110_L	205_V	1.170	0.98
19_V	53_K	1.164	0.98
286_E	313_A	1.160	0.98
25_F	39_R	1.146	0.98
24_W	28_H	1.141	0.98
47_V	51_L	1.136	0.98
18_Q	50_L	1.131	0.98
193_V	197_L	1.130	0.98
116_P	142_Q	1.129	0.98
119_M	204_D	1.123	0.98
22_I	50_L	1.123	0.98
198_L	202_A	1.121	0.97
312_A	316_R	1.111	0.97
20_A	59_I	1.111	0.97
131_T	207_I	1.101	0.97
283_A	306_T	1.097	0.97
234_M	237_R	1.096	0.97
206_A	273_L	1.093	0.97
296_M	301_I	1.093	0.97
110_L	207_I	1.092	0.97
152_G	243_D	1.089	0.97
118_Q	205_V	1.085	0.97
76_T	80_R	1.077	0.97
247_Y	267_G	1.072	0.97
133_Q	162_Q	1.065	0.97
233_L	236_G	1.064	0.97
77_Q	81_Q	1.052	0.96
26_Y	44_R	1.050	0.96
86_H	112_S	1.049	0.96
113_L	278_V	1.031	0.96
208_V	301_I	1.020	0.96
85_Q	302_N	1.017	0.96
185_R	189_N	1.014	0.95
32_T	35_E	1.011	0.95
78_L	315_L	1.008	0.95
183_I	190_E	0.993	0.95
81_Q	314_I	0.993	0.95
198_L	201_Q	0.984	0.95
102_L	106_A	0.964	0.94
249_F	295_A	0.961	0.94
81_Q	315_L	0.960	0.94
247_Y	262_H	0.960	0.94
82_F	314_I	0.958	0.94
82_F	87_V	0.949	0.94
270_L	300_Y	0.948	0.94
174_A	266_I	0.936	0.93
210_I	292_I	0.930	0.93
251_A	293_A	0.929	0.93
32_T	44_R	0.929	0.93
187_L	266_I	0.927	0.93
124_F	247_Y	0.926	0.93
16_E	67_R	0.923	0.93
257_T	263_N	0.922	0.93
115_Q	118_Q	0.911	0.92
123_G	247_Y	0.911	0.92
19_V	22_I	0.910	0.92
209_G	283_A	0.907	0.92
268_L	276_I	0.907	0.92
243_D	246_G	0.907	0.92
34_S	38_D	0.906	0.92
145_R	168_S	0.904	0.92
295_A	298_G	0.900	0.92
307_D	310_T	0.898	0.92
78_L	314_I	0.894	0.91
176_L	246_G	0.892	0.91
124_F	243_D	0.884	0.91
45_L	66_S	0.882	0.91
23_A	51_L	0.882	0.91
189_N	194_K	0.881	0.91
289_A	293_A	0.880	0.91
209_G	301_I	0.879	0.91
25_F	33_Q	0.873	0.90
48_S	66_S	0.872	0.90
104_I	134_R	0.863	0.90
103_G	284_G	0.862	0.90
195_D	198_L	0.861	0.90
36_I	64_I	0.855	0.89
25_F	36_I	0.855	0.89
240_A	256_V	0.853	0.89
16_E	57_S	0.851	0.89
251_A	297_K	0.846	0.89
123_G	148_T	0.841	0.89
36_I	49_R	0.841	0.89
84_L	304_L	0.838	0.88
22_I	47_V	0.836	0.88
235_I	240_A	0.835	0.88
110_L	131_T	0.833	0.88
257_T	262_H	0.831	0.88
221_I	224_S	0.830	0.88
294_A	297_K	0.826	0.88
188_K	197_L	0.826	0.88
146_L	167_C	0.824	0.88
109_M	280_V	0.824	0.88
177_R	265_L	0.816	0.87
22_I	25_F	0.813	0.87
148_T	173_P	0.809	0.87
119_M	147_V	0.804	0.86
186_T	190_E	0.803	0.86
18_Q	42_L	0.801	0.86
281_G	292_I	0.799	0.86
88_R	109_M	0.797	0.86
176_L	213_V	0.793	0.86
109_M	112_S	0.789	0.85
18_Q	21_R	0.785	0.85
51_L	243_D	0.783	0.85
209_G	265_L	0.782	0.85
24_W	66_S	0.774	0.84
229_Q	233_L	0.771	0.84
124_F	148_T	0.768	0.84
36_I	106_A	0.765	0.83
115_Q	204_D	0.763	0.83
24_W	48_S	0.761	0.83
163_L	291_A	0.760	0.83
84_L	302_N	0.760	0.83
71_C	75_E	0.759	0.83
209_G	292_I	0.758	0.83
21_R	24_W	0.758	0.83
149_L	245_L	0.755	0.83
177_R	264_E	0.750	0.82
113_L	205_V	0.746	0.82
130_N	209_G	0.742	0.82
71_C	89_V	0.737	0.81
20_A	66_S	0.733	0.81
77_Q	312_A	0.732	0.81
92_G	309_D	0.730	0.81
207_I	280_V	0.728	0.80
45_L	64_I	0.727	0.80
71_C	91_P	0.723	0.80
183_I	186_T	0.723	0.80
47_V	273_L	0.721	0.80
22_I	46_K	0.717	0.79
74_Y	89_V	0.717	0.79
33_Q	45_L	0.716	0.79
33_Q	48_S	0.716	0.79
87_V	296_M	0.713	0.79
294_A	298_G	0.710	0.79
172_I	266_I	0.710	0.79
247_Y	265_L	0.707	0.78
148_T	190_E	0.707	0.78
160_I	164_N	0.706	0.78
60_I	64_I	0.706	0.78
114_L	141_S	0.705	0.78
27_Y	51_L	0.703	0.78
195_D	199_A	0.702	0.78
74_Y	312_A	0.701	0.78
160_I	169_V	0.700	0.78
292_I	304_L	0.699	0.78
102_L	306_T	0.699	0.78
283_A	288_K	0.698	0.78
106_A	305_V	0.696	0.77
299_G	302_N	0.694	0.77
285_G	288_K	0.694	0.77
125_G	308_Q	0.692	0.77
116_P	143_Q	0.691	0.77
260_K	289_A	0.687	0.76
90_I	102_L	0.687	0.76
198_L	316_R	0.687	0.76
50_L	169_V	0.683	0.76
178_A	266_I	0.682	0.76
25_F	31_L	0.678	0.75
219_A	222_I	0.678	0.75
35_E	38_D	0.678	0.75
284_G	292_I	0.671	0.75
262_H	265_L	0.670	0.75
284_G	310_T	0.669	0.74
102_L	282_V	0.668	0.74
113_L	303_A	0.666	0.74
211_G	243_D	0.665	0.74
23_A	54_G	0.664	0.74
106_A	209_G	0.663	0.74
81_Q	297_K	0.656	0.73
54_G	66_S	0.651	0.72
177_R	181_A	0.651	0.72
48_S	243_D	0.649	0.72
273_L	276_I	0.643	0.72
50_L	54_G	0.643	0.72
17_E	24_W	0.639	0.71
197_L	266_I	0.639	0.71
190_E	246_G	0.639	0.71
268_L	272_A	0.638	0.71
83_S	299_G	0.637	0.71
271_S	274_K	0.636	0.71
210_I	301_I	0.634	0.70
121_A	128_T	0.633	0.70
218_D	287_N	0.633	0.70
114_L	144_I	0.632	0.70
247_Y	269_P	0.628	0.70
147_V	196_V	0.627	0.70
21_R	79_R	0.627	0.70
244_I	295_A	0.625	0.69
198_L	290_E	0.623	0.69
229_Q	286_E	0.623	0.69
150_S	220_T	0.622	0.69
280_V	302_N	0.621	0.69
146_L	164_N	0.621	0.69
234_M	260_K	0.620	0.69
49_R	173_P	0.619	0.69
45_L	150_S	0.619	0.69
45_L	176_L	0.618	0.69
178_A	193_V	0.617	0.68
100_G	130_N	0.615	0.68
46_K	50_L	0.613	0.68
76_T	309_D	0.611	0.68
241_V	294_A	0.611	0.68
150_S	176_L	0.610	0.68
120_L	252_K	0.610	0.68
92_G	164_N	0.609	0.67
274_K	299_G	0.609	0.67
51_L	55_H	0.609	0.67
26_Y	48_S	0.607	0.67
34_S	44_R	0.607	0.67
44_R	48_S	0.606	0.67
26_Y	33_Q	0.605	0.67
111_M	136_S	0.605	0.67
24_W	148_T	0.604	0.67
51_L	59_I	0.603	0.67
113_L	302_N	0.602	0.67
95_D	309_D	0.601	0.66
213_V	291_A	0.600	0.66
90_I	98_V	0.599	0.66
109_M	277_P	0.598	0.66
76_T	286_E	0.597	0.66
240_A	248_F	0.597	0.66
71_C	308_Q	0.596	0.66
17_E	75_E	0.596	0.66
42_L	47_V	0.595	0.66
204_D	276_I	0.595	0.66
176_L	248_F	0.595	0.66
18_Q	40_L	0.594	0.66
284_G	307_D	0.591	0.65
45_L	248_F	0.591	0.65
25_F	29_D	0.589	0.65
123_G	170_N	0.589	0.65
178_A	273_L	0.589	0.65
241_V	256_V	0.588	0.65
301_I	304_L	0.587	0.65
77_Q	83_S	0.586	0.64
175_P	178_A	0.586	0.64
146_L	247_Y	0.585	0.64
108_H	111_M	0.580	0.64
128_T	169_V	0.575	0.63
187_L	193_V	0.573	0.63
48_S	52_E	0.572	0.63
212_A	236_G	0.571	0.62
44_R	55_H	0.570	0.62
88_R	303_A	0.570	0.62
160_I	171_I	0.566	0.62
261_I	265_L	0.565	0.62
169_V	190_E	0.565	0.62
150_S	209_G	0.564	0.62
48_S	64_I	0.563	0.61
91_P	105_G	0.563	0.61
227_I	231_E	0.562	0.61
199_A	203_A	0.562	0.61
201_Q	275_T	0.562	0.61
28_H	123_G	0.562	0.61
19_V	54_G	0.561	0.61
129_M	209_G	0.561	0.61
86_H	109_M	0.561	0.61
261_I	282_V	0.559	0.61
127_A	285_G	0.559	0.61
152_G	174_A	0.559	0.61
288_K	307_D	0.559	0.61
234_M	258_N	0.555	0.60
163_L	167_C	0.555	0.60
247_Y	270_L	0.554	0.60
113_L	280_V	0.552	0.60
16_E	59_I	0.552	0.60
114_L	139_I	0.551	0.60
123_G	132_L	0.551	0.60
154_G	221_I	0.550	0.60
73_E	274_K	0.550	0.60
255_V	270_L	0.547	0.59
122_I	223_R	0.547	0.59
148_T	200_A	0.546	0.59
45_L	49_R	0.546	0.59
84_L	303_A	0.546	0.59
286_E	309_D	0.545	0.59
48_S	51_L	0.545	0.59
183_I	187_L	0.543	0.59
139_I	142_Q	0.542	0.59
198_L	234_M	0.542	0.59
89_V	291_A	0.538	0.58
81_Q	97_D	0.538	0.58
122_I	160_I	0.537	0.58
100_G	133_Q	0.536	0.58
137_G	166_A	0.535	0.58
174_A	178_A	0.532	0.57
164_N	167_C	0.532	0.57
124_F	149_L	0.531	0.57
152_G	248_F	0.530	0.57
146_L	163_L	0.530	0.57
235_I	248_F	0.530	0.57
125_G	265_L	0.529	0.57
200_A	268_L	0.528	0.57
251_A	254_D	0.528	0.57
144_I	166_A	0.528	0.57
81_Q	293_A	0.527	0.56
92_G	307_D	0.526	0.56
163_L	295_A	0.524	0.56
208_V	302_N	0.523	0.56
149_L	200_A	0.522	0.56
303_A	306_T	0.521	0.56
44_R	176_L	0.520	0.55
295_A	301_I	0.520	0.55
206_A	267_G	0.519	0.55
18_Q	75_E	0.519	0.55
154_G	193_V	0.517	0.55
123_G	243_D	0.517	0.55
245_L	270_L	0.517	0.55
144_I	168_S	0.515	0.55
279_R	303_A	0.514	0.55
291_A	294_A	0.514	0.55
150_S	154_G	0.514	0.55
32_T	45_L	0.513	0.54
230_G	234_M	0.513	0.54
246_G	267_G	0.513	0.54
44_R	62_V	0.512	0.54
221_I	294_A	0.512	0.54
46_K	49_R	0.510	0.54
16_E	24_W	0.509	0.54
129_M	162_Q	0.507	0.54
21_R	308_Q	0.507	0.54
95_D	98_V	0.507	0.54
106_A	109_M	0.506	0.53
244_I	270_L	0.506	0.53
124_F	150_S	0.505	0.53
140_S	182_D	0.504	0.53
176_L	243_D	0.503	0.53
304_L	310_T	0.503	0.53
175_P	246_G	0.502	0.53
148_T	214_S	0.501	0.53
272_A	275_T	0.500	0.53
174_A	277_P	0.500	0.53
190_E	262_H	0.500	0.53

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)
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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
4l5jA	4	0.9685	100	0.353	Contact Map
2w48A	3	0.9495	100	0.394	Contact Map
4l4yA	2	0.7539	100	0.436	Contact Map
3efbA	2	0.7539	100	0.484	Contact Map
2o0mA	1	0.7413	100	0.495	Contact Map
2r5fA	1	0.6467	100	0.501	Contact Map
2gnpA	1	0.7823	100	0.504	Contact Map
4r9nA	1	0.7508	100	0.504	Contact Map
3kv1A	2	0.7539	100	0.505	Contact Map
4oqpA	2	0.7697	100	0.507	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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