DEGS - BACSU - GREMLIN Contacts

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DEGS - Signal transduction histidine-protein kinase/phosphatase DegS

UniProt:	P13799	Sequences: MNKTKMDSKVLDSILMKMLKTVDGSKDEVFQIGEQSRQQYEQLVEELKQIKQQVYEVIELGDKLEVQTRHARNRLSEVSRNFHRFSEEEIRNAYEKAHKLQVELTMIQQREKQLRERRDDLERRLLGLQEIIERSESLVSQITVVLNYLNQDLREVGLLLADAQAKQDFGLRIIEAQEEERKRVSREIHDGPAQMLANVMMRSELIERIFRDRGAEDGFQEIKNLRQNVRNALYEVRRIIYDLRPMALDDLGLIPTLRKYLYTTEEYNGKVKIHFQCIGETEDQRLAPQFEVALFRLAQEAVSNALKHSESEEITVKVEITKDFVILMIKDNGKGFDLKEAKEKKNKSFGLLGMKERVDLLEGTMTIDSKIGLGTFIMIKVPLSL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	385 (323)
Sequences:	42272 (36720)
Seq/√Len:	2043.1

ECOLI - ARCB RCSD RCSC ATOS EVGS NARX NARQ TORS PHOR BARA ZRAS NTRB DCUS DPIB CREC CUSS GLRK BAES PHOQ CPXA KDPD ENVZ RSTB QSEC YEDV BASS UHPB YPDA
BACSU - DEGS KINE KINA YYCG PHOR RESE KINC DCTS MALK CITS KIND YHCY COMP YCLK YVRG LYTS KINB YVCQ CSSS YKOH BCES YCBM LIAS GLNK YXDK YRKQ YBDK YDFH YESM YFIJ
HALSA - Q9HQ16 O51970 Q9HQG5 Q9HR10 Q9HRE4 Q9HRG1 Q9HNA6 Q9HNM2 Q9HQB9 BAT Q9HQE9 Q9HQ15

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
251_L	289_Q	3.374	1.00
366_T	378_M	3.257	1.00
330_K	376_F	3.143	1.00
309_S	332_N	2.880	1.00
331_D	335_G	2.869	1.00
324_F	380_K	2.799	1.00
355_K	359_D	2.792	1.00
337_D	340_E	2.713	1.00
370_K	373_L	2.663	1.00
341_A	367_I	2.578	1.00
289_Q	361_L	2.550	1.00
328_M	376_F	2.528	1.00
317_K	328_M	2.526	1.00
326_I	380_K	2.493	1.00
63_K	147_N	2.487	1.00
278_I	317_K	2.452	1.00
326_I	378_M	2.446	1.00
276_Q	313_E	2.435	1.00
276_Q	315_T	2.431	1.00
199_V	225_L	2.404	1.00
321_T	326_I	2.400	1.00
328_M	378_M	2.356	1.00
315_T	330_K	2.302	1.00
319_E	326_I	2.288	1.00
354_M	365_M	2.257	1.00
250_D	288_P	2.174	1.00
297_L	358_V	2.112	1.00
358_V	363_G	2.108	1.00
70_H	74_R	2.105	1.00
367_I	377_I	2.099	1.00
336_F	340_E	2.098	1.00
317_K	330_K	2.097	1.00
259_K	295_F	2.083	1.00
274_H	313_E	2.039	1.00
319_E	328_M	2.014	1.00
249_D	291_E	1.973	1.00
153_L	156_V	1.959	1.00
58_I	77_E	1.953	1.00
368_D	376_F	1.944	1.00
369_S	375_T	1.933	1.00
252_G	255_P	1.918	1.00
278_I	315_T	1.906	1.00
313_E	332_N	1.903	1.00
297_L	354_M	1.902	1.00
215_A	218_G	1.863	1.00
66_V	144_V	1.860	1.00
338_L	341_A	1.849	1.00
214_G	218_G	1.836	1.00
117_R	121_L	1.828	1.00
312_E	332_N	1.815	1.00
364_T	380_K	1.805	1.00
81_N	84_R	1.762	1.00
203_S	226_R	1.762	1.00
358_V	379_I	1.743	1.00
309_S	312_E	1.716	1.00
254_I	318_V	1.698	1.00
341_A	369_S	1.693	1.00
186_R	190_D	1.651	1.00
368_D	378_M	1.647	1.00
309_S	314_I	1.642	1.00
264_T	299_Q	1.637	1.00
290_F	293_A	1.635	1.00
51_K	55_Y	1.608	1.00
327_L	379_I	1.583	1.00
64_L	85_F	1.568	1.00
152_D	156_V	1.556	1.00
64_L	146_L	1.543	1.00
177_Q	181_R	1.533	1.00
61_G	65_E	1.527	1.00
233_L	237_R	1.526	1.00
297_L	357_R	1.514	1.00
357_R	361_L	1.508	1.00
359_D	364_T	1.502	1.00
88_E	118_R	1.494	1.00
298_A	327_L	1.491	1.00
175_E	179_E	1.482	1.00
250_D	286_L	1.472	1.00
174_I	177_Q	1.460	1.00
50_I	53_Q	1.459	1.00
337_D	371_I	1.443	1.00
127_G	146_L	1.440	1.00
80_R	84_R	1.440	1.00
248_L	288_P	1.411	1.00
203_S	223_K	1.410	1.00
265_E	269_G	1.408	1.00
303_S	307_K	1.408	1.00
134_R	138_L	1.406	1.00
187_E	190_D	1.405	1.00
289_Q	294_L	1.402	1.00
196_L	229_V	1.395	1.00
55_Y	59_E	1.393	1.00
126_L	147_N	1.392	1.00
369_S	373_L	1.391	1.00
268_N	306_L	1.391	1.00
279_G	318_V	1.386	1.00
169_F	172_R	1.381	1.00
83_H	90_I	1.364	1.00
293_A	296_R	1.364	1.00
96_K	100_L	1.359	1.00
78_V	82_F	1.346	1.00
366_T	380_K	1.322	1.00
200_M	226_R	1.295	1.00
186_R	191_G	1.291	1.00
59_E	80_R	1.290	1.00
259_K	291_E	1.288	1.00
104_L	107_I	1.281	1.00
252_G	286_L	1.269	1.00
324_F	364_T	1.268	1.00
69_R	72_R	1.266	1.00
126_L	152_D	1.265	1.00
285_R	320_I	1.252	1.00
117_R	123_R	1.252	1.00
196_L	230_R	1.251	1.00
174_I	178_E	1.233	1.00
197_A	201_M	1.231	1.00
89_E	92_N	1.222	1.00
321_T	380_K	1.219	1.00
369_S	372_G	1.206	1.00
305_A	314_I	1.206	1.00
66_V	82_F	1.194	1.00
190_D	194_Q	1.182	1.00
103_E	106_M	1.165	1.00
226_R	230_R	1.162	1.00
66_V	75_L	1.161	1.00
98_H	101_Q	1.147	1.00
98_H	102_V	1.146	1.00
293_A	360_L	1.135	1.00
254_I	258_R	1.126	1.00
187_E	191_G	1.105	1.00
234_Y	292_V	1.103	1.00
258_R	277_C	1.099	1.00
336_F	375_T	1.096	1.00
191_G	195_M	1.095	1.00
44_V	48_K	1.089	1.00
224_N	228_N	1.087	1.00
194_Q	198_N	1.081	1.00
252_G	284_Q	1.081	1.00
82_F	86_S	1.078	1.00
254_I	279_G	1.077	1.00
111_E	114_L	1.075	1.00
80_R	83_H	1.072	1.00
297_L	379_I	1.069	1.00
124_R	153_L	1.068	1.00
264_T	302_V	1.067	1.00
267_Y	270_K	1.063	1.00
156_V	160_L	1.060	1.00
336_F	341_A	1.059	1.00
198_N	202_R	1.056	1.00
131_I	139_V	1.046	1.00
301_A	354_M	1.045	1.00
78_V	83_H	1.039	1.00
252_G	285_R	1.035	1.00
173_I	177_Q	1.034	1.00
331_D	374_G	1.031	1.00
223_K	227_Q	1.029	1.00
198_N	221_E	1.028	1.00
342_K	345_K	1.022	1.00
293_A	357_R	1.015	1.00
83_H	89_E	1.011	1.00
220_Q	224_N	1.007	1.00
302_V	314_I	1.004	1.00
199_V	203_S	1.002	1.00
186_R	189_H	1.000	1.00
334_K	344_K	0.998	1.00
151_Q	154_R	0.994	1.00
246_M	290_F	0.993	1.00
321_T	324_F	0.992	1.00
201_M	205_L	0.992	1.00
295_F	299_Q	0.989	1.00
199_V	229_V	0.988	1.00
228_N	231_N	0.986	1.00
291_E	295_F	0.981	1.00
296_R	357_R	0.980	1.00
261_L	265_E	0.976	1.00
263_T	299_Q	0.968	1.00
260_Y	295_F	0.959	1.00
54_V	58_I	0.955	1.00
214_G	217_D	0.952	1.00
157_G	160_L	0.952	1.00
251_L	256_T	0.951	1.00
129_Q	142_I	0.950	1.00
300_E	354_M	0.948	1.00
78_V	93_A	0.947	1.00
261_L	277_C	0.947	1.00
133_E	139_V	0.944	1.00
248_L	361_L	0.944	1.00
154_R	158_L	0.942	1.00
203_S	225_L	0.941	1.00
315_T	332_N	0.938	1.00
48_K	52_Q	0.929	1.00
90_I	94_Y	0.925	1.00
48_K	51_K	0.924	1.00
336_F	367_I	0.922	1.00
225_L	229_V	0.920	1.00
43_L	47_L	0.917	1.00
280_E	283_D	0.909	1.00
219_F	223_K	0.905	1.00
193_A	197_A	0.902	1.00
262_Y	265_E	0.896	1.00
358_V	365_M	0.894	1.00
246_M	293_A	0.893	1.00
298_A	302_V	0.890	1.00
256_T	260_Y	0.884	1.00
52_Q	56_E	0.883	1.00
203_S	219_F	0.883	1.00
257_L	318_V	0.882	1.00
280_E	318_V	0.879	1.00
114_L	122_E	0.877	1.00
186_R	195_M	0.877	1.00
194_Q	228_N	0.876	1.00
294_L	361_L	0.873	1.00
103_E	107_I	0.871	1.00
113_Q	116_E	0.867	1.00
229_V	233_L	0.861	1.00
112_K	115_R	0.859	1.00
354_M	358_V	0.852	1.00
280_E	319_E	0.848	1.00
155_E	158_L	0.846	1.00
242_D	352_L	0.840	1.00
69_R	129_Q	0.840	1.00
69_R	73_N	0.837	1.00
43_L	46_E	0.836	1.00
326_I	366_T	0.834	1.00
74_R	97_A	0.832	1.00
47_L	50_I	0.826	1.00
238_R	293_A	0.824	1.00
301_A	377_I	0.823	1.00
356_E	359_D	0.818	1.00
301_A	365_M	0.816	1.00
338_L	370_K	0.815	1.00
195_M	229_V	0.811	1.00
358_V	381_V	0.810	1.00
76_S	141_Q	0.809	1.00
200_M	230_R	0.809	1.00
62_D	65_E	0.802	1.00
156_V	159_L	0.800	1.00
88_E	92_N	0.799	1.00
198_N	201_M	0.795	1.00
255_P	259_K	0.793	1.00
96_K	101_Q	0.792	1.00
255_P	291_E	0.790	1.00
331_D	375_T	0.790	1.00
335_G	375_T	0.789	1.00
216_E	219_F	0.789	1.00
248_L	289_Q	0.784	1.00
199_V	226_R	0.784	1.00
179_E	183_R	0.780	1.00
224_N	227_Q	0.780	1.00
273_I	306_L	0.779	1.00
363_G	379_I	0.775	1.00
53_Q	77_E	0.773	1.00
253_L	327_L	0.773	1.00
97_A	100_L	0.770	1.00
220_Q	223_K	0.768	1.00
186_R	194_Q	0.766	1.00
256_T	289_Q	0.765	1.00
202_R	221_E	0.765	1.00
50_I	54_V	0.763	1.00
124_R	150_N	0.763	1.00
109_Q	114_L	0.763	1.00
168_D	172_R	0.757	1.00
77_E	90_I	0.756	1.00
215_A	219_F	0.754	1.00
257_L	316_V	0.750	1.00
45_E	49_Q	0.749	1.00
69_R	144_V	0.749	1.00
49_Q	53_Q	0.746	1.00
116_E	122_E	0.746	1.00
150_N	154_R	0.745	1.00
205_L	218_G	0.745	1.00
154_R	157_G	0.745	1.00
261_L	275_F	0.740	1.00
234_Y	238_R	0.740	1.00
298_A	329_I	0.739	1.00
194_Q	197_A	0.739	1.00
198_N	228_N	0.737	1.00
123_R	148_Y	0.736	1.00
177_Q	190_D	0.734	1.00
172_R	176_A	0.733	1.00
200_M	204_E	0.733	1.00
195_M	225_L	0.732	1.00
273_I	309_S	0.732	1.00
366_T	379_I	0.731	1.00
176_A	179_E	0.731	1.00
171_L	175_E	0.730	1.00
113_Q	127_G	0.729	1.00
263_T	295_F	0.729	1.00
153_L	157_G	0.727	1.00
192_P	195_M	0.720	1.00
111_E	115_R	0.717	1.00
69_R	75_L	0.717	1.00
70_H	76_S	0.715	1.00
118_R	121_L	0.713	1.00
246_M	360_L	0.710	1.00
293_A	361_L	0.709	1.00
110_R	115_R	0.709	1.00
64_L	82_F	0.704	1.00
64_L	81_N	0.702	1.00
280_E	284_Q	0.699	1.00
187_E	296_R	0.699	1.00
54_V	57_V	0.698	1.00
134_R	137_S	0.698	1.00
300_E	303_S	0.698	1.00
202_R	218_G	0.697	1.00
285_R	325_V	0.693	1.00
47_L	51_K	0.691	1.00
110_R	113_Q	0.691	1.00
199_V	202_R	0.690	1.00
198_N	224_N	0.687	1.00
68_T	77_E	0.686	1.00
260_Y	302_V	0.686	1.00
61_G	64_L	0.683	1.00
178_E	182_K	0.682	1.00
195_M	199_V	0.681	1.00
296_R	299_Q	0.681	1.00
46_E	50_I	0.681	1.00
227_Q	259_K	0.674	1.00
190_D	193_A	0.674	1.00
308_H	344_K	0.668	1.00
240_I	244_R	0.668	1.00
267_Y	303_S	0.667	1.00
64_L	79_S	0.664	1.00
308_H	334_K	0.663	1.00
356_E	360_L	0.663	1.00
260_Y	299_Q	0.660	1.00
305_A	329_I	0.660	1.00
189_H	237_R	0.657	1.00
180_E	187_E	0.656	1.00
95_E	98_H	0.656	1.00
170_G	173_I	0.655	1.00
57_V	61_G	0.651	1.00
80_R	90_I	0.651	1.00
184_V	239_I	0.651	1.00
241_Y	293_A	0.651	1.00
57_V	65_E	0.648	1.00
125_L	146_L	0.648	1.00
130_E	143_T	0.646	1.00
260_Y	264_T	0.646	1.00
258_R	262_Y	0.646	1.00
237_R	241_Y	0.646	1.00
45_E	48_K	0.646	1.00
246_M	361_L	0.646	1.00
302_V	316_V	0.645	1.00
103_E	110_R	0.645	1.00
155_E	159_L	0.645	1.00
253_L	325_V	0.644	1.00
251_L	291_E	0.644	1.00
152_D	155_E	0.643	1.00
192_P	232_A	0.643	1.00
202_R	222_I	0.642	1.00
192_P	236_V	0.639	1.00
66_V	69_R	0.637	1.00
92_N	118_R	0.637	1.00
129_Q	144_V	0.632	1.00
58_I	65_E	0.631	1.00
106_M	109_Q	0.631	1.00
109_Q	113_Q	0.631	1.00
132_I	141_Q	0.629	1.00
83_H	93_A	0.628	1.00
181_R	185_S	0.627	1.00
44_V	47_L	0.626	1.00
149_L	153_L	0.625	1.00
278_I	319_E	0.624	1.00
169_F	173_I	0.624	1.00
257_L	298_A	0.624	1.00
274_H	277_C	0.624	1.00
228_N	232_A	0.621	1.00
336_F	377_I	0.620	1.00
313_E	330_K	0.619	1.00
175_E	178_E	0.619	1.00
151_Q	155_E	0.618	1.00
63_K	66_V	0.616	1.00
341_A	377_I	0.613	1.00
196_L	233_L	0.612	1.00
180_E	184_V	0.611	1.00
304_N	350_G	0.610	1.00
217_D	221_E	0.608	1.00
69_R	142_I	0.608	1.00
221_E	225_L	0.607	1.00
198_N	205_L	0.607	1.00
363_G	381_V	0.606	1.00
231_N	295_F	0.605	1.00
70_H	141_Q	0.603	1.00
254_I	285_R	0.600	1.00
114_L	124_R	0.598	1.00
271_V	306_L	0.597	1.00
336_F	369_S	0.596	1.00
256_T	294_L	0.593	1.00
297_L	361_L	0.591	1.00
63_K	81_N	0.588	1.00
110_R	126_L	0.587	1.00
367_I	375_T	0.585	1.00
202_R	225_L	0.584	1.00
301_A	379_I	0.582	1.00
134_R	140_S	0.581	1.00
251_L	288_P	0.580	1.00
196_L	200_M	0.580	1.00
248_L	362_E	0.580	1.00
307_K	343_E	0.579	1.00
264_T	303_S	0.578	1.00
283_D	320_I	0.576	1.00
272_K	311_S	0.576	1.00
316_V	329_I	0.574	1.00
180_E	186_R	0.574	1.00
124_R	149_L	0.574	1.00
310_E	334_K	0.573	1.00
180_E	191_G	0.572	1.00
363_G	382_P	0.572	1.00
51_K	54_V	0.572	1.00
197_A	202_R	0.570	1.00
66_V	146_L	0.568	1.00
264_T	306_L	0.567	1.00
341_A	368_D	0.566	1.00
294_L	298_A	0.566	1.00
201_M	221_E	0.564	1.00
56_E	60_L	0.562	1.00
190_D	197_A	0.561	1.00
126_L	129_Q	0.560	1.00
254_I	284_Q	0.558	1.00
336_F	351_L	0.558	1.00
71_A	140_S	0.557	1.00
230_R	234_Y	0.557	1.00
79_S	82_F	0.555	1.00
213_R	218_G	0.554	1.00
365_M	377_I	0.554	1.00
190_D	195_M	0.551	1.00
307_K	345_K	0.550	1.00
168_D	171_L	0.550	1.00
268_N	273_I	0.550	1.00
328_M	368_D	0.549	1.00
258_R	261_L	0.549	1.00
93_A	97_A	0.548	1.00
94_Y	97_A	0.544	1.00
61_G	145_V	0.543	1.00
93_A	96_K	0.543	1.00
318_V	327_L	0.542	1.00
71_A	139_V	0.541	1.00
320_I	325_V	0.539	1.00
334_K	375_T	0.539	1.00
220_Q	262_Y	0.539	1.00
266_E	269_G	0.536	1.00
221_E	224_N	0.536	1.00
177_Q	182_K	0.535	1.00
203_S	222_I	0.533	1.00
230_R	233_L	0.533	1.00
105_T	108_Q	0.533	1.00
127_G	144_V	0.532	1.00
349_F	353_G	0.531	1.00
280_E	320_I	0.530	1.00
183_R	190_D	0.529	1.00
97_A	101_Q	0.529	1.00
78_V	90_I	0.528	1.00
95_E	101_Q	0.527	1.00
128_L	147_N	0.526	1.00
88_E	93_A	0.525	1.00
244_R	347_K	0.525	1.00
109_Q	112_K	0.525	1.00
46_E	49_Q	0.523	1.00
255_P	258_R	0.523	1.00
189_H	233_L	0.521	1.00
117_R	120_D	0.521	1.00
223_K	226_R	0.520	1.00
268_N	275_F	0.519	1.00
245_P	248_L	0.519	1.00
99_K	102_V	0.519	1.00
78_V	86_S	0.518	1.00
280_E	285_R	0.518	1.00
352_L	356_E	0.515	1.00
83_H	88_E	0.514	1.00
81_N	85_F	0.514	1.00
353_G	357_R	0.514	1.00
69_R	98_H	0.514	1.00
127_G	131_I	0.514	1.00
149_L	152_D	0.513	1.00
57_V	143_T	0.510	1.00
202_R	224_N	0.509	1.00
103_E	109_Q	0.509	1.00
180_E	189_H	0.507	1.00
112_K	153_L	0.504	1.00
273_I	332_N	0.503	1.00
256_T	295_F	0.503	1.00
193_A	200_M	0.502	1.00
133_E	140_S	0.501	1.00
90_I	93_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	0.8623	100	0.295	Contact Map
4gczA	2	0.8805	100	0.311	Contact Map
3a0rA	2	0.8026	100	0.313	Contact Map
4r3aA	1	0.761	100	0.379	Contact Map
4q20A	2	0.5584	100	0.457	Contact Map
4r39A	1	0.5247	100	0.465	Contact Map
2c2aA	2	0.574	100	0.47	Contact Map
3jz3A	2	0.4026	100	0.47	Contact Map
4bixA	2	0.5558	100	0.477	Contact Map
3d36A	2	0.5403	100	0.479	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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