LIAS - BACSU - GREMLIN Contacts

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LIAS - Sensor histidine kinase LiaS

UniProt:	O32198	Sequences: MRKKMLASLQWRAIRMTTGISLLLFVCLISFMMFYYRLDPLVLLSSSWFGIPFILILLLISVTVGFASGYMYGNRLKTRIDTLIESILTFENGNFAYRIPPLGDDEIGLAADQLNEMAKRVELQVASLQKLSNERAEWQAQMKKSVISEERQRLARDLHDAVSQQLFAISMMTSAVLEHVKDADDKTVKRIRMVEHMAGEAQNEMRALLLHLRPVTLEGKGLKEGLTELLDEFRKKQPIDIEWDIQDTAISKGVEDHLFRIVQEALSNVFRHSKASKVTVILGIKNSQLRLKVIDNGKGFKMDQVKASSYGLNSMKERASEIGGVAEVISVEGKGTQIEVKVPIFPEEKGENERDSSIID	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	360 (307)
Sequences:	72767 (59808)
Seq/√Len:	3413.4

ECOLI - TORS BARA NARX NARQ ENVZ GLRK BAES RCSD PHOQ RCSC CPXA CUSS CREC YEDV ATOS QSEC RSTB ZRAS UHPB BASS ARCB KDPD PHOR DPIB DCUS EVGS YPDA NTRB
BACSU - LIAS YCLK YYCG YVRG RESE CSSS YKOH KINB YVCQ PHOR YRKQ COMP YCBM YFIJ YXJM KINE YESM YDFH KINA YXDK BCES YBDK GLNK CITS DESK DCTS MALK KINC YVFT KIND DEGS YWPD YHCY LYTS NATK
HALSA - Q9HQE9 Q9HQ15 Q9HQ16 Q9HQG5 Q9HRG1 Q9HR10 O51970 Q9HRE4 Q9HNM2 Q9HNA6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
294_I	337_Q	3.691	1.00
288_Q	341_K	3.382	1.00
316_K	320_S	3.193	1.00
327_E	339_E	3.166	1.00
292_K	337_Q	3.096	1.00
220_K	253_G	3.036	1.00
292_K	339_E	2.935	1.00
173_T	194_V	2.904	1.00
295_D	299_G	2.782	1.00
281_I	292_K	2.780	1.00
290_R	341_K	2.671	1.00
242_E	279_T	2.637	1.00
277_K	296_N	2.556	1.00
290_R	339_E	2.549	1.00
284_I	344_I	2.543	1.00
177_L	195_E	2.542	1.00
283_G	290_R	2.521	1.00
242_E	277_K	2.509	1.00
328_V	338_I	2.508	1.00
305_V	330_S	2.490	1.00
273_S	296_N	2.466	1.00
244_D	281_I	2.366	1.00
301_K	304_Q	2.281	1.00
253_G	322_I	2.272	1.00
170_S	199_G	2.265	1.00
329_I	339_E	2.262	1.00
279_T	294_I	2.235	1.00
285_K	290_R	2.206	1.00
315_M	326_A	2.204	1.00
177_L	192_R	2.191	1.00
170_S	198_A	2.181	1.00
283_G	292_K	2.152	1.00
329_I	337_Q	2.110	1.00
244_D	279_T	2.102	1.00
304_Q	307_A	2.091	1.00
331_V	334_K	2.055	1.00
281_I	294_I	2.018	1.00
325_V	341_K	2.000	1.00
261_I	319_A	1.946	1.00
319_A	340_V	1.895	1.00
221_G	224_E	1.872	1.00
170_S	202_Q	1.858	1.00
184_D	187_T	1.847	1.00
228_E	259_F	1.833	1.00
319_A	324_G	1.828	1.00
267_S	271_R	1.821	1.00
156_R	159_H	1.773	1.00
240_D	277_K	1.772	1.00
300_F	336_T	1.748	1.00
302_M	305_V	1.747	1.00
276_S	296_N	1.741	1.00
202_Q	206_R	1.739	1.00
169_I	198_A	1.730	1.00
233_F	263_Q	1.716	1.00
327_E	341_K	1.710	1.00
305_V	328_V	1.695	1.00
174_S	195_E	1.692	1.00
195_E	199_G	1.692	1.00
330_S	336_T	1.687	1.00
261_I	315_M	1.627	1.00
261_I	318_R	1.608	1.00
183_A	187_T	1.589	1.00
300_F	304_Q	1.582	1.00
273_S	276_S	1.561	1.00
253_G	258_L	1.551	1.00
262_V	291_L	1.550	1.00
318_R	322_I	1.497	1.00
176_V	191_I	1.485	1.00
172_M	190_R	1.473	1.00
121_V	125_V	1.470	1.00
177_L	188_V	1.467	1.00
125_V	128_L	1.467	1.00
223_K	227_T	1.460	1.00
320_S	325_V	1.448	1.00
173_T	195_E	1.424	1.00
254_V	257_H	1.409	1.00
279_T	296_N	1.404	1.00
149_E	153_R	1.402	1.00
170_S	195_E	1.377	1.00
273_S	278_V	1.363	1.00
179_H	187_T	1.361	1.00
121_V	124_Q	1.332	1.00
269_V	278_V	1.332	1.00
319_A	326_A	1.318	1.00
114_L	117_M	1.312	1.00
89_T	94_N	1.312	1.00
105_D	108_G	1.311	1.00
232_E	259_F	1.296	1.00
145_S	149_E	1.295	1.00
264_E	315_M	1.294	1.00
301_K	332_E	1.285	1.00
183_A	186_K	1.283	1.00
172_M	193_M	1.270	1.00
289_L	344_I	1.264	1.00
330_S	333_G	1.260	1.00
124_Q	128_L	1.258	1.00
169_I	194_V	1.242	1.00
69_G	73_G	1.236	1.00
125_V	129_Q	1.226	1.00
257_H	321_E	1.223	1.00
291_L	340_V	1.219	1.00
239_I	243_W	1.216	1.00
261_I	340_V	1.207	1.00
30_S	34_F	1.195	1.00
122_E	126_A	1.181	1.00
255_E	259_F	1.180	1.00
168_A	197_M	1.174	1.00
285_K	341_K	1.164	1.00
223_K	282_L	1.162	1.00
111_A	115_N	1.161	1.00
173_T	198_A	1.158	1.00
221_G	250_I	1.152	1.00
120_R	124_Q	1.152	1.00
227_T	243_W	1.149	1.00
168_A	172_M	1.147	1.00
257_H	318_R	1.140	1.00
257_H	260_R	1.134	1.00
192_R	196_H	1.129	1.00
265_A	338_I	1.129	1.00
330_S	334_K	1.127	1.00
203_N	256_D	1.126	1.00
118_A	122_E	1.125	1.00
225_G	229_L	1.118	1.00
104_D	108_G	1.113	1.00
295_D	335_G	1.112	1.00
84_I	88_L	1.107	1.00
230_L	243_W	1.098	1.00
249_A	284_I	1.097	1.00
144_K	147_I	1.096	1.00
94_N	97_Y	1.087	1.00
294_I	331_V	1.086	1.00
328_V	336_T	1.081	1.00
193_M	197_M	1.079	1.00
157_D	260_R	1.068	1.00
150_E	154_L	1.063	1.00
144_K	148_S	1.060	1.00
258_L	322_I	1.058	1.00
184_D	188_V	1.050	1.00
324_G	342_V	1.048	1.00
229_L	263_Q	1.047	1.00
228_E	255_E	1.039	1.00
317_E	320_S	1.034	1.00
176_V	187_T	1.034	1.00
189_K	193_M	1.032	1.00
288_Q	325_V	1.030	1.00
173_T	177_L	1.028	1.00
249_A	289_L	1.025	1.00
220_K	225_G	1.024	1.00
170_S	174_S	1.020	1.00
232_E	263_Q	1.017	1.00
229_L	233_F	1.006	1.00
245_I	282_L	1.004	1.00
84_I	109_L	1.003	1.00
103_G	108_G	0.996	1.00
229_L	259_F	0.996	1.00
259_F	263_Q	0.995	1.00
197_M	200_E	0.995	1.00
168_A	171_M	0.992	1.00
221_G	248_T	0.991	1.00
265_A	315_M	0.991	1.00
223_K	245_I	0.976	1.00
118_A	121_V	0.971	1.00
123_L	127_S	0.964	1.00
187_T	190_R	0.963	1.00
66_F	70_Y	0.958	1.00
317_E	321_E	0.949	1.00
188_V	192_R	0.945	1.00
246_Q	283_G	0.938	1.00
207_A	257_H	0.937	1.00
52_P	56_I	0.932	1.00
324_G	340_V	0.931	1.00
206_R	210_L	0.928	1.00
113_Q	116_E	0.923	1.00
223_K	248_T	0.923	1.00
285_K	288_Q	0.921	1.00
67_A	71_M	0.920	1.00
122_E	125_V	0.916	1.00
108_G	111_A	0.915	1.00
73_G	77_K	0.910	1.00
173_T	191_I	0.909	1.00
272_H	298_K	0.907	1.00
192_R	195_E	0.904	1.00
225_G	253_G	0.900	1.00
124_Q	127_S	0.899	1.00
31_F	35_Y	0.895	1.00
239_I	273_S	0.894	1.00
263_Q	267_S	0.893	1.00
119_K	123_L	0.887	1.00
262_V	266_L	0.886	1.00
295_D	336_T	0.886	1.00
40_P	43_L	0.885	1.00
118_A	125_V	0.883	1.00
199_G	202_Q	0.882	1.00
111_A	114_L	0.882	1.00
153_R	157_D	0.879	1.00
171_M	175_A	0.879	1.00
87_I	91_E	0.878	1.00
226_L	282_L	0.876	1.00
236_K	267_S	0.872	1.00
84_I	113_Q	0.870	1.00
300_F	305_V	0.870	1.00
264_E	267_S	0.870	1.00
120_R	123_L	0.869	1.00
233_F	266_L	0.868	1.00
299_G	336_T	0.868	1.00
147_I	151_R	0.864	1.00
148_S	152_Q	0.863	1.00
252_K	345_F	0.862	1.00
256_D	259_F	0.861	1.00
227_T	231_D	0.857	1.00
110_A	114_L	0.856	1.00
182_D	187_T	0.854	1.00
287_S	344_I	0.851	1.00
175_A	179_H	0.848	1.00
189_K	192_R	0.841	1.00
310_Y	314_S	0.840	1.00
229_L	232_E	0.833	1.00
89_T	97_Y	0.832	1.00
302_M	330_S	0.828	1.00
274_K	298_K	0.824	1.00
194_V	198_A	0.821	1.00
300_F	338_I	0.818	1.00
319_A	342_V	0.814	1.00
203_N	207_A	0.813	1.00
266_L	280_V	0.813	1.00
146_V	149_E	0.812	1.00
240_D	243_W	0.809	1.00
81_D	84_I	0.808	1.00
71_M	75_R	0.808	1.00
193_M	196_H	0.808	1.00
143_K	147_I	0.804	1.00
190_R	193_M	0.801	1.00
288_Q	344_I	0.800	1.00
88_L	109_L	0.799	1.00
260_R	263_Q	0.796	1.00
83_L	87_I	0.796	1.00
198_A	202_Q	0.795	1.00
221_G	249_A	0.785	1.00
70_Y	74_N	0.785	1.00
185_D	188_V	0.784	1.00
224_E	228_E	0.781	1.00
300_F	306_K	0.777	1.00
230_L	234_R	0.774	1.00
98_R	119_K	0.773	1.00
88_L	92_N	0.772	1.00
227_T	245_I	0.770	1.00
316_K	325_V	0.768	1.00
315_M	319_A	0.767	1.00
220_K	255_E	0.765	1.00
172_M	197_M	0.762	1.00
179_H	182_D	0.761	1.00
210_L	260_R	0.759	1.00
159_H	206_R	0.758	1.00
211_H	313_N	0.757	1.00
222_L	291_L	0.757	1.00
292_K	329_I	0.756	1.00
73_G	76_L	0.751	1.00
200_E	259_F	0.749	1.00
229_L	266_L	0.744	1.00
280_V	293_V	0.743	1.00
164_Q	168_A	0.741	1.00
231_D	234_R	0.741	1.00
226_L	262_V	0.733	1.00
100_P	115_N	0.732	1.00
230_L	233_F	0.730	1.00
120_R	125_V	0.730	1.00
262_V	293_V	0.726	1.00
257_H	322_I	0.724	1.00
110_A	115_N	0.723	1.00
228_E	232_E	0.720	1.00
94_N	98_R	0.720	1.00
314_S	318_R	0.719	1.00
87_I	113_Q	0.718	1.00
167_F	171_M	0.717	1.00
300_F	330_S	0.716	1.00
305_V	338_I	0.715	1.00
177_L	191_I	0.714	1.00
91_E	116_E	0.711	1.00
32_M	36_Y	0.710	1.00
326_A	338_I	0.708	1.00
150_E	157_D	0.708	1.00
96_A	122_E	0.706	1.00
74_N	78_T	0.702	1.00
265_A	340_V	0.697	1.00
76_L	79_R	0.692	1.00
207_A	260_R	0.692	1.00
39_D	43_L	0.690	1.00
84_I	87_I	0.688	1.00
150_E	156_R	0.688	1.00
265_A	326_A	0.687	1.00
51_I	55_L	0.685	1.00
143_K	146_V	0.683	1.00
107_I	110_A	0.680	1.00
230_L	241_I	0.680	1.00
266_L	278_V	0.679	1.00
88_L	113_Q	0.675	1.00
237_Q	270_F	0.671	1.00
37_R	41_L	0.670	1.00
282_L	291_L	0.669	1.00
196_H	228_E	0.667	1.00
82_T	86_S	0.667	1.00
269_V	293_V	0.666	1.00
246_Q	281_I	0.662	1.00
40_P	44_L	0.659	1.00
209_L	213_R	0.659	1.00
151_R	156_R	0.659	1.00
227_T	230_L	0.656	1.00
86_S	99_I	0.656	1.00
93_G	97_Y	0.656	1.00
202_Q	205_M	0.655	1.00
246_Q	282_L	0.654	1.00
87_I	90_F	0.652	1.00
29_I	33_M	0.651	1.00
225_G	259_F	0.649	1.00
108_G	112_D	0.648	1.00
151_R	155_A	0.646	1.00
195_E	198_A	0.645	1.00
288_Q	343_P	0.645	1.00
233_F	267_S	0.644	1.00
75_R	79_R	0.644	1.00
265_A	319_A	0.643	1.00
260_R	318_R	0.642	1.00
87_I	114_L	0.642	1.00
223_K	247_D	0.638	1.00
191_I	195_E	0.638	1.00
174_S	178_E	0.632	1.00
90_F	118_A	0.632	1.00
33_M	37_R	0.631	1.00
168_A	193_M	0.631	1.00
148_S	215_V	0.631	1.00
313_N	317_E	0.628	1.00
246_Q	249_A	0.622	1.00
98_R	115_N	0.621	1.00
52_P	55_L	0.620	1.00
59_L	63_T	0.618	1.00
282_L	289_L	0.617	1.00
101_P	112_D	0.616	1.00
150_E	159_H	0.615	1.00
117_M	121_V	0.614	1.00
214_P	217_L	0.613	1.00
199_G	203_N	0.609	1.00
210_L	257_H	0.606	1.00
145_S	148_S	0.606	1.00
225_G	228_E	0.605	1.00
86_S	89_T	0.604	1.00
53_F	56_I	0.603	1.00
152_Q	157_D	0.600	1.00
238_P	275_A	0.600	1.00
86_S	97_Y	0.599	1.00
175_A	190_R	0.599	1.00
230_L	280_V	0.597	1.00
179_H	190_R	0.597	1.00
290_R	327_E	0.597	1.00
55_L	59_L	0.595	1.00
244_D	283_G	0.594	1.00
167_F	170_S	0.592	1.00
44_L	48_W	0.592	1.00
226_L	280_V	0.592	1.00
107_I	111_A	0.592	1.00
147_I	156_R	0.587	1.00
41_L	45_S	0.585	1.00
34_F	38_L	0.585	1.00
220_K	252_K	0.583	1.00
268_N	311_G	0.582	1.00
278_V	293_V	0.581	1.00
186_K	190_R	0.581	1.00
30_S	33_M	0.580	1.00
172_M	194_V	0.579	1.00
305_V	329_I	0.578	1.00
85_E	89_T	0.578	1.00
265_A	293_V	0.575	1.00
261_I	322_I	0.572	1.00
231_D	235_K	0.572	1.00
294_I	333_G	0.571	1.00
90_F	117_M	0.570	1.00
331_V	337_Q	0.569	1.00
258_L	342_V	0.568	1.00
103_G	106_E	0.568	1.00
242_E	245_I	0.567	1.00
56_I	60_I	0.567	1.00
101_P	108_G	0.564	1.00
101_P	111_A	0.563	1.00
83_L	86_S	0.563	1.00
207_A	256_D	0.562	1.00
300_F	328_V	0.561	1.00
98_R	118_A	0.560	1.00
176_V	190_R	0.559	1.00
295_D	298_K	0.559	1.00
77_K	81_D	0.558	1.00
81_D	85_E	0.555	1.00
89_T	93_G	0.554	1.00
166_L	205_M	0.554	1.00
187_T	191_I	0.554	1.00
91_E	94_N	0.553	1.00
174_S	177_L	0.551	1.00
225_G	258_L	0.549	1.00
232_E	236_K	0.549	1.00
123_L	126_A	0.547	1.00
172_M	175_A	0.547	1.00
302_M	331_V	0.547	1.00
97_Y	100_P	0.547	1.00
223_K	249_A	0.546	1.00
102_L	106_E	0.543	1.00
115_N	118_A	0.542	1.00
49_F	52_P	0.540	1.00
302_M	306_K	0.540	1.00
114_L	118_A	0.540	1.00
330_S	335_G	0.540	1.00
209_L	212_L	0.539	1.00
166_L	201_A	0.539	1.00
225_G	230_L	0.539	1.00
43_L	47_S	0.538	1.00
112_D	116_E	0.538	1.00
239_I	270_F	0.538	1.00
91_E	95_F	0.538	1.00
103_G	111_A	0.536	1.00
119_K	122_E	0.535	1.00
164_Q	171_M	0.534	1.00
233_F	270_F	0.533	1.00
249_A	282_L	0.532	1.00
197_M	232_E	0.531	1.00
49_F	53_F	0.530	1.00
236_K	270_F	0.529	1.00
284_I	289_L	0.528	1.00
201_A	205_M	0.528	1.00
219_G	257_H	0.525	1.00
233_F	236_K	0.525	1.00
152_Q	156_R	0.524	1.00
301_K	305_V	0.524	1.00
186_K	189_K	0.524	1.00
226_L	230_L	0.523	1.00
315_M	318_R	0.523	1.00
121_V	128_L	0.520	1.00
80_I	83_L	0.519	1.00
224_E	227_T	0.518	1.00
197_M	201_A	0.517	1.00
222_L	289_L	0.516	1.00
103_G	107_I	0.516	1.00
126_A	129_Q	0.514	1.00
249_A	252_K	0.514	1.00
226_L	229_L	0.513	1.00
201_A	204_E	0.512	1.00
112_D	115_N	0.509	1.00
45_S	48_W	0.508	1.00
89_T	92_N	0.508	1.00
99_I	115_N	0.508	1.00
324_G	343_P	0.507	1.00
169_I	173_T	0.507	1.00
269_V	273_S	0.507	1.00
111_A	117_M	0.506	1.00
79_R	83_L	0.505	1.00
99_I	111_A	0.505	1.00
326_A	340_V	0.505	1.00
190_R	194_V	0.505	1.00
154_L	157_D	0.503	1.00
75_R	78_T	0.501	1.00
88_L	91_E	0.501	1.00
225_G	255_E	0.501	1.00
151_R	154_L	0.501	1.00
105_D	111_A	0.500	1.00

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
4i5sA	2	0.7472	100	0.339	Contact Map
4bixA	2	0.5833	100	0.422	Contact Map
4ctiA	2	0.6194	100	0.439	Contact Map
4r39A	1	0.5722	100	0.493	Contact Map
2c2aA	2	0.5944	100	0.495	Contact Map
4q20A	2	0.5778	100	0.495	Contact Map
3jz3A	2	0.4194	100	0.496	Contact Map
4mpcA	2	0.8083	100	0.499	Contact Map
3d36A	2	0.5611	100	0.5	Contact Map
2q8gA	2	0.8139	100	0.506	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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