RSPA - ECOLI - GREMLIN Contacts

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RSPA - Starvation-sensing protein RspA

UniProt:	P38104	Sequences: MKIVKAEVFVTCPGRNFVTLKITTEDGITGLGDATLNGRELSVASYLQDHLCPQLIGRDAHRIEDIWQFFYKGAYWRRGPVTMSAISAVDMALWDIKAKAANMPLYQLLGGASREGVMVYCHTTGHSIDEALDDYARHQELGFKAIRVQCGIPGMKTTYGMSKGKGLAYEPATKGQWPEEQLWSTEKYLDFMPKLFDAVRNKFGFNEHLLHDMHHRLTPIEAARFGKSIEDYRMFWMEDPTPAENQECFRLIRQHTVTPIAVGEVFNSIWDCKQLIEEQLIDYIRTTLTHAGGITGMRRIADFASLYQVRTGSHGPSDLSPVCMAAALHFDLWVPNFGVQEYMGYSEQMLEVFPHNWTFDNGYMHPGDKPGLGIEFDEKLAAKYPYEPAYLPVARLEDGTLWNW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12451
Length:	404 (338)
Sequences:	11586 (6700)
Seq/√Len:	364.4

ECOLI - RSPA DGOD GUDD GUDX RHMD AEEP MENC
BACSU - YITF AEEP GUDD MENC
HALSA - Q9HS20 Q9HP25 Q9HQN7
SULSO - GAD Q97VG1 ARAD Q97YL9 Q97YR3 Q97UK8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
58_R	69_F	3.671	1.00
116_G	363_Y	3.383	1.00
253_R	282_D	3.312	1.00
274_Q	278_E	3.223	1.00
250_R	254_Q	3.075	1.00
218_T	221_E	2.995	1.00
62_R	65_D	2.970	1.00
20_L	88_A	2.702	1.00
245_N	248_C	2.691	1.00
28_I	96_I	2.639	1.00
273_K	277_E	2.634	1.00
227_K	230_E	2.388	1.00
23_T	29_T	2.368	1.00
24_T	96_I	2.338	1.00
251_L	254_Q	2.320	1.00
226_G	237_M	2.235	1.00
21_K	29_T	2.230	1.00
45_S	49_D	2.221	1.00
64_E	299_R	2.180	1.00
227_K	255_H	2.168	1.00
7_E	23_T	2.134	1.00
230_E	257_V	2.100	1.00
5_K	23_T	2.093	1.00
7_E	21_K	2.078	1.00
276_I	309_V	2.076	1.00
354_P	375_E	2.068	1.00
250_R	278_E	2.056	1.00
251_L	255_H	2.048	1.00
136_A	202_K	2.007	1.00
283_Y	310_R	1.995	1.00
269_I	296_G	1.994	1.00
291_A	300_I	1.987	1.00
247_E	278_E	1.980	1.00
226_G	256_T	1.971	1.00
90_D	295_T	1.955	1.00
194_K	197_D	1.955	1.00
5_K	52_C	1.919	1.00
28_I	100_A	1.907	1.00
98_A	105_L	1.907	1.00
360_D	365_H	1.902	1.00
44_A	48_Q	1.898	1.00
24_T	28_I	1.897	1.00
26_D	100_A	1.864	1.00
225_F	229_I	1.835	1.00
66_I	93_L	1.833	1.00
118_M	144_K	1.830	1.00
11_T	33_D	1.798	1.00
76_W	270_W	1.797	1.00
208_H	235_F	1.789	1.00
58_R	65_D	1.776	1.00
272_C	300_I	1.775	1.00
223_A	255_H	1.757	1.00
9_F	21_K	1.752	1.00
277_E	307_Y	1.729	1.00
228_S	231_D	1.705	1.00
116_G	365_H	1.678	1.00
241_T	252_I	1.649	1.00
303_F	307_Y	1.634	1.00
22_I	93_L	1.631	1.00
132_L	136_A	1.625	1.00
220_I	251_L	1.623	1.00
197_D	232_Y	1.616	1.00
128_I	132_L	1.606	1.00
50_H	80_P	1.594	1.00
136_A	140_E	1.594	1.00
104_P	107_Q	1.585	1.00
302_D	305_S	1.565	1.00
276_I	303_F	1.562	1.00
103_M	107_Q	1.559	1.00
21_K	31_L	1.535	1.00
275_L	281_I	1.534	1.00
127_S	130_E	1.530	1.00
4_V	23_T	1.508	1.00
139_Q	207_E	1.502	1.00
142_G	207_E	1.499	1.00
28_I	99_K	1.496	1.00
99_K	375_E	1.494	1.00
137_R	141_L	1.492	1.00
197_D	201_N	1.466	1.00
122_H	192_M	1.461	1.00
198_A	201_N	1.456	1.00
6_A	22_I	1.456	1.00
219_P	251_L	1.455	1.00
219_P	252_I	1.445	1.00
298_R	302_D	1.426	1.00
61_H	100_A	1.417	1.00
112_A	115_E	1.413	1.00
191_F	194_K	1.412	1.00
133_D	136_A	1.408	1.00
134_D	137_R	1.400	1.00
223_A	251_L	1.397	1.00
332_L	366_P	1.390	1.00
105_L	372_L	1.381	1.00
58_R	66_I	1.368	1.00
34_A	88_A	1.365	1.00
274_Q	277_E	1.363	1.00
52_C	56_I	1.351	1.00
193_P	228_S	1.345	1.00
241_T	248_C	1.340	1.00
24_T	100_A	1.323	1.00
276_I	307_Y	1.310	1.00
132_L	202_K	1.308	1.00
210_L	236_W	1.308	1.00
49_D	53_P	1.300	1.00
90_D	94_W	1.299	1.00
68_Q	72_K	1.293	1.00
194_K	198_A	1.292	1.00
244_E	271_D	1.285	1.00
203_F	209_L	1.284	1.00
224_R	227_K	1.270	1.00
272_C	284_I	1.268	1.00
273_K	303_F	1.267	1.00
355_H	369_K	1.257	1.00
70_F	86_I	1.250	1.00
224_R	228_S	1.239	1.00
4_V	25_E	1.229	1.00
97_K	101_A	1.227	1.00
297_M	330_F	1.219	1.00
95_D	99_K	1.216	1.00
103_M	108_L	1.211	1.00
302_D	306_L	1.211	1.00
227_K	257_V	1.208	1.00
65_D	69_F	1.199	1.00
197_D	231_D	1.196	1.00
91_M	294_I	1.176	1.00
202_K	205_F	1.173	1.00
221_E	224_R	1.171	1.00
146_I	207_E	1.170	1.00
95_D	324_M	1.165	1.00
200_R	204_G	1.165	1.00
210_L	235_F	1.163	1.00
250_R	280_L	1.160	1.00
19_T	31_L	1.144	1.00
240_P	252_I	1.141	1.00
223_A	252_I	1.140	1.00
137_R	140_E	1.140	1.00
269_I	303_F	1.139	1.00
149_Q	214_H	1.138	1.00
32_G	35_T	1.138	1.00
219_P	248_C	1.135	1.00
240_P	260_I	1.133	1.00
48_Q	52_C	1.132	1.00
61_H	97_K	1.130	1.00
152_I	198_A	1.122	1.00
252_I	260_I	1.121	1.00
50_H	53_P	1.116	1.00
98_A	108_L	1.112	1.00
222_A	226_G	1.105	1.00
126_H	130_E	1.098	1.00
230_E	258_T	1.098	1.00
313_S	334_V	1.096	1.00
118_M	363_Y	1.089	1.00
296_G	299_R	1.086	1.00
188_Y	191_F	1.079	1.00
136_A	139_Q	1.077	1.00
61_H	101_A	1.075	1.00
42_S	45_S	1.070	1.00
211_H	234_M	1.065	1.00
213_M	237_M	1.064	1.00
64_E	298_R	1.058	1.00
271_D	274_Q	1.051	1.00
217_L	222_A	1.050	1.00
279_Q	309_V	1.048	1.00
288_L	297_M	1.042	1.00
6_A	52_C	1.041	1.00
59_D	62_R	1.040	1.00
120_Y	139_Q	1.030	1.00
9_F	19_T	1.029	1.00
284_I	304_A	1.029	1.00
19_T	322_V	1.029	1.00
261_A	283_Y	1.023	1.00
299_R	305_S	1.023	1.00
153_P	191_F	1.017	1.00
193_P	232_Y	1.016	1.00
54_Q	69_F	1.015	1.00
262_V	275_L	1.012	1.00
299_R	302_D	0.999	1.00
253_R	279_Q	0.998	1.00
193_P	197_D	0.998	1.00
139_Q	142_G	0.992	1.00
25_E	60_A	0.989	1.00
94_W	295_T	0.983	1.00
298_R	332_L	0.979	1.00
301_A	334_V	0.976	1.00
239_D	285_R	0.967	1.00
51_L	89_V	0.965	1.00
326_A	372_L	0.961	1.00
291_A	297_M	0.961	1.00
259_P	336_N	0.956	1.00
103_M	111_G	0.956	1.00
107_Q	368_D	0.956	1.00
6_A	55_L	0.954	1.00
200_R	206_N	0.954	1.00
276_I	284_I	0.953	1.00
135_Y	146_I	0.953	1.00
148_V	199_V	0.948	1.00
287_T	314_H	0.945	1.00
129_D	133_D	0.944	1.00
130_E	133_D	0.940	1.00
234_M	258_T	0.939	1.00
261_A	285_R	0.936	1.00
105_L	294_I	0.933	1.00
101_A	108_L	0.933	1.00
246_Q	280_L	0.931	1.00
132_L	203_F	0.923	1.00
190_D	194_K	0.921	1.00
281_I	284_I	0.919	1.00
58_R	62_R	0.917	1.00
153_P	194_K	0.917	1.00
151_G	192_M	0.915	1.00
267_N	271_D	0.914	1.00
199_V	203_F	0.913	1.00
217_L	225_F	0.912	1.00
220_I	224_R	0.911	1.00
63_I	97_K	0.909	1.00
94_W	294_I	0.900	1.00
196_F	232_Y	0.897	1.00
200_R	209_L	0.895	1.00
196_F	211_H	0.891	1.00
247_E	274_Q	0.888	1.00
254_Q	279_Q	0.882	1.00
369_K	375_E	0.879	1.00
203_F	207_E	0.877	1.00
196_F	229_I	0.872	1.00
189_L	193_P	0.872	1.00
60_A	93_L	0.869	1.00
66_I	69_F	0.868	1.00
205_F	233_R	0.864	1.00
8_V	48_Q	0.863	1.00
213_M	226_G	0.862	1.00
193_P	231_D	0.862	1.00
91_M	326_A	0.857	1.00
135_Y	203_F	0.855	1.00
97_K	108_L	0.852	1.00
67_W	90_D	0.851	1.00
301_A	311_T	0.847	1.00
222_A	241_T	0.841	1.00
109_L	298_R	0.841	1.00
66_I	70_F	0.834	1.00
101_A	104_P	0.834	1.00
189_L	225_F	0.832	1.00
241_T	249_F	0.829	1.00
22_I	55_L	0.824	1.00
128_I	194_K	0.822	1.00
41_L	45_S	0.820	1.00
60_A	100_A	0.820	1.00
298_R	333_W	0.819	1.00
24_T	60_A	0.812	1.00
268_S	271_D	0.811	1.00
69_F	72_K	0.809	1.00
249_F	260_I	0.809	1.00
263_G	287_T	0.808	1.00
8_V	47_L	0.804	1.00
106_Y	366_P	0.803	1.00
301_A	313_S	0.802	1.00
139_Q	143_F	0.799	1.00
193_P	203_F	0.796	1.00
273_K	307_Y	0.794	1.00
223_A	241_T	0.789	1.00
106_Y	329_H	0.786	1.00
148_V	151_G	0.785	1.00
294_I	298_R	0.785	1.00
133_D	137_R	0.784	1.00
33_D	320_S	0.781	1.00
116_G	361_N	0.780	1.00
249_F	262_V	0.779	1.00
143_F	341_E	0.778	1.00
246_Q	275_L	0.778	1.00
230_E	256_T	0.778	1.00
47_L	52_C	0.778	1.00
305_S	335_P	0.777	1.00
4_V	26_D	0.776	1.00
139_Q	146_I	0.776	1.00
197_D	202_K	0.774	1.00
286_T	297_M	0.773	1.00
67_W	295_T	0.773	1.00
344_G	347_E	0.772	1.00
288_L	327_A	0.768	1.00
365_H	368_D	0.767	1.00
138_H	141_L	0.760	1.00
247_E	250_R	0.760	1.00
262_V	281_I	0.760	1.00
223_A	256_T	0.758	1.00
60_A	97_K	0.758	1.00
128_I	198_A	0.758	1.00
198_A	202_K	0.756	1.00
190_D	228_S	0.754	1.00
252_I	256_T	0.754	1.00
345_Y	348_Q	0.753	1.00
71_Y	296_G	0.752	1.00
28_I	33_D	0.751	1.00
219_P	223_A	0.751	1.00
266_F	271_D	0.750	1.00
46_Y	50_H	0.747	1.00
343_M	348_Q	0.741	1.00
51_L	70_F	0.738	1.00
23_T	31_L	0.736	1.00
219_P	241_T	0.735	1.00
217_L	237_M	0.735	1.00
55_L	58_R	0.732	1.00
134_D	138_H	0.731	1.00
47_L	89_V	0.730	1.00
67_W	71_Y	0.727	1.00
224_R	255_H	0.725	1.00
77_R	80_P	0.724	1.00
269_I	300_I	0.723	1.00
23_T	27_G	0.721	1.00
344_G	348_Q	0.720	1.00
10_V	44_A	0.717	0.99
298_R	334_V	0.716	0.99
121_C	143_F	0.715	0.99
120_Y	123_T	0.714	0.99
64_E	68_Q	0.713	0.99
109_L	294_I	0.712	0.99
284_I	309_V	0.712	0.99
102_N	370_P	0.710	0.99
343_M	346_S	0.709	0.99
272_C	304_A	0.708	0.99
360_D	363_Y	0.708	0.99
303_F	306_L	0.706	0.99
112_A	368_D	0.706	0.99
60_A	96_I	0.706	0.99
246_Q	278_E	0.705	0.99
301_A	305_S	0.705	0.99
269_I	299_R	0.702	0.99
359_F	364_M	0.702	0.99
196_F	209_L	0.702	0.99
64_E	295_T	0.702	0.99
143_F	147_R	0.700	0.99
44_A	47_L	0.699	0.99
331_D	340_Q	0.699	0.99
142_G	145_A	0.699	0.99
266_F	272_C	0.698	0.99
324_M	328_L	0.698	0.99
253_R	260_I	0.695	0.99
269_I	273_K	0.690	0.99
145_A	210_L	0.689	0.99
54_Q	58_R	0.684	0.99
46_Y	85_A	0.684	0.99
345_Y	349_M	0.682	0.99
94_W	105_L	0.682	0.99
116_G	360_D	0.681	0.99
150_C	213_M	0.678	0.99
272_C	286_T	0.676	0.99
286_T	301_A	0.675	0.99
46_Y	81_V	0.675	0.99
270_W	273_K	0.675	0.99
196_F	203_F	0.674	0.99
29_T	375_E	0.673	0.99
213_M	217_L	0.672	0.99
200_R	233_R	0.671	0.99
328_L	366_P	0.671	0.99
246_Q	274_Q	0.671	0.99
328_L	364_M	0.670	0.99
346_S	349_M	0.668	0.99
31_L	322_V	0.666	0.99
54_Q	73_G	0.665	0.99
29_T	32_G	0.663	0.99
135_Y	199_V	0.660	0.99
281_I	309_V	0.657	0.99
222_A	252_I	0.656	0.99
86_I	293_G	0.656	0.99
133_D	202_K	0.656	0.99
251_L	279_Q	0.656	0.99
226_G	258_T	0.656	0.99
94_W	109_L	0.655	0.99
36_L	145_A	0.654	0.99
148_V	152_I	0.650	0.99
294_I	330_F	0.650	0.99
301_A	332_L	0.645	0.99
63_I	93_L	0.645	0.99
355_H	375_E	0.644	0.99
101_A	111_G	0.642	0.99
71_Y	86_I	0.640	0.99
325_A	374_I	0.639	0.99
29_T	99_K	0.638	0.99
28_I	32_G	0.638	0.99
131_A	134_D	0.635	0.99
358_T	365_H	0.635	0.99
10_V	133_D	0.634	0.99
36_L	39_R	0.633	0.99
191_F	195_L	0.633	0.99
304_A	309_V	0.631	0.99
45_S	48_Q	0.630	0.99
55_L	89_V	0.628	0.99
105_L	109_L	0.626	0.99
98_A	101_A	0.625	0.99
55_L	66_I	0.624	0.99
98_A	103_M	0.621	0.99
286_T	311_T	0.621	0.99
98_A	370_P	0.620	0.99
50_H	54_Q	0.620	0.99
10_V	13_P	0.620	0.99
40_E	43_V	0.620	0.99
256_T	260_I	0.620	0.99
105_L	108_L	0.619	0.99
192_M	217_L	0.618	0.99
9_F	31_L	0.615	0.98
67_W	70_F	0.615	0.98
135_Y	139_Q	0.614	0.98
10_V	41_L	0.613	0.98
311_T	334_V	0.612	0.98
64_E	115_E	0.612	0.98
270_W	274_Q	0.610	0.98
285_R	314_H	0.608	0.98
53_P	56_I	0.608	0.98
272_C	309_V	0.607	0.98
66_I	89_V	0.604	0.98
8_V	44_A	0.604	0.98
119_V	122_H	0.603	0.98
96_I	100_A	0.602	0.98
332_L	367_G	0.602	0.98
62_R	107_Q	0.601	0.98
59_D	107_Q	0.601	0.98
32_G	88_A	0.600	0.98
34_A	84_S	0.599	0.98
97_K	100_A	0.598	0.98
266_F	275_L	0.598	0.98
325_A	328_L	0.597	0.98
280_L	309_V	0.593	0.98
248_C	251_L	0.593	0.98
51_L	74_A	0.592	0.98
106_Y	112_A	0.590	0.98
18_V	44_A	0.589	0.98
68_Q	299_R	0.586	0.98
343_M	347_E	0.583	0.98
42_S	47_L	0.583	0.98
109_L	331_D	0.582	0.98
63_I	108_L	0.582	0.98
107_Q	112_A	0.580	0.98
143_F	342_Y	0.580	0.98
146_I	203_F	0.579	0.98
68_Q	71_Y	0.578	0.98
249_F	252_I	0.578	0.98
18_V	43_V	0.578	0.98
148_V	196_F	0.576	0.98
310_R	338_G	0.576	0.98
121_C	138_H	0.575	0.98
193_P	196_F	0.572	0.98
236_W	312_G	0.572	0.98
145_A	208_H	0.571	0.98
213_M	222_A	0.571	0.98
63_I	66_I	0.571	0.98
144_K	361_N	0.568	0.97
120_Y	124_T	0.567	0.97
95_D	323_C	0.566	0.97
6_A	89_V	0.566	0.97
223_A	227_K	0.566	0.97
20_L	47_L	0.565	0.97
288_L	294_I	0.563	0.97
38_G	42_S	0.563	0.97
271_D	280_L	0.562	0.97
132_L	198_A	0.560	0.97
132_L	201_N	0.559	0.97
226_G	229_I	0.558	0.97
135_Y	202_K	0.556	0.97
106_Y	368_D	0.556	0.97
305_S	336_N	0.554	0.97
42_S	46_Y	0.553	0.97
93_L	97_K	0.552	0.97
111_G	114_R	0.552	0.97
284_I	300_I	0.551	0.97
253_R	280_L	0.549	0.97
149_Q	191_F	0.548	0.97
63_I	295_T	0.547	0.97
305_S	311_T	0.546	0.97
343_M	349_M	0.546	0.97
294_I	326_A	0.545	0.97
99_K	369_K	0.545	0.97
119_V	312_G	0.544	0.97
355_H	358_T	0.544	0.97
26_D	60_A	0.544	0.97
142_G	147_R	0.544	0.97
239_D	265_V	0.542	0.97
315_G	324_M	0.541	0.97
4_V	7_E	0.540	0.97
239_D	263_G	0.539	0.96
321_P	353_F	0.537	0.96
209_L	234_M	0.533	0.96
123_T	138_H	0.532	0.96
304_A	311_T	0.530	0.96
128_I	131_A	0.528	0.96
55_L	93_L	0.527	0.96
190_D	205_F	0.527	0.96
193_P	229_I	0.524	0.96
297_M	313_S	0.523	0.96
119_V	364_M	0.520	0.96
118_M	208_H	0.520	0.96
9_F	12_C	0.519	0.96
132_L	135_Y	0.518	0.96
313_S	329_H	0.517	0.96
328_L	367_G	0.517	0.96
26_D	102_N	0.517	0.96
70_F	293_G	0.516	0.96
76_W	79_G	0.515	0.95
250_R	279_Q	0.514	0.95
125_G	134_D	0.514	0.95
3_I	22_I	0.514	0.95
139_Q	144_K	0.513	0.95
107_Q	110_G	0.512	0.95
20_L	89_V	0.505	0.95
200_R	232_Y	0.505	0.95
331_D	337_F	0.504	0.95
28_I	35_T	0.503	0.95
215_H	265_V	0.502	0.95
125_G	131_A	0.502	0.95
7_E	48_Q	0.500	0.95

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
3t6cA	5	0.9901	100	0.199	Contact Map
3v3wA	5	0.9802	100	0.199	Contact Map
3vcnA	5	0.9851	100	0.203	Contact Map
3rcyA	5	0.9183	100	0.206	Contact Map
3tjiA	5	0.9728	100	0.207	Contact Map
3sbfA	6	0.9728	100	0.212	Contact Map
4k8gA	5	0.9332	100	0.215	Contact Map
4il2A	5	0.9653	100	0.216	Contact Map
4hnlA	5	0.9678	100	0.226	Contact Map
4it1A	3	0.8911	100	0.229	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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