YCJS - ECOLI - GREMLIN Contacts

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YCJS - Uncharacterized oxidoreductase YcjS

UniProt:	P77503	Sequences: MKSAMTSSPLRVAIIGAGQVADKVHASYYCTRNDLELVAVCDSRLSQAQALAEKYGNASVWDDPQAMLLAVKPDVVSVCSPNRFHYEHTLMALEAGCHVMCEKPPAMTPEQAREMCDTARKLGKVLAYDFHHRFALDTQQLREQVTNGVLGEIYVTTARALRRCGVPGWGVFTNKELQGGGPLIDIGIHMLDAAMYVLGFPAVKSVNAHSFQKIGTQKSCGQFGEWDPATYSVEDSLFGTIEFHNGGILWLETSFALNIREQSIMNVSFCGDKAGATLFPAHIYTDNNGELMTLMQREIADDNRHLRSMEAFINHVQGKPVMIADAEQGYIIQQLVAALYQSAETGTRVEL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13916
Length:	351 (315)
Sequences:	25648 (19340)
Seq/√Len:	1089.7

ECOLI - YCJS YDGJ YGJR YHHX YJHC YCEM
BACSU - YRBE YFII IOLX IOLW NTDC IOLG YULF YTET
HALSA - Q9HQT1
SULSO - Q97UJ6 Q97UK0 Q97UH0 Q97UK3 Q97UJ8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
65_Q	91_M	3.144	1.00
133_R	192_D	2.847	1.00
90_L	118_T	2.812	1.00
86_Y	114_E	2.812	1.00
11_R	36_E	2.773	1.00
205_S	242_E	2.767	1.00
45_L	49_Q	2.703	1.00
152_E	272_D	2.700	1.00
113_R	330_Y	2.689	1.00
140_Q	143_E	2.687	1.00
94_E	118_T	2.672	1.00
204_K	244_H	2.489	1.00
90_L	94_E	2.428	1.00
80_S	88_H	2.413	1.00
13_A	67_M	2.403	1.00
142_R	146_T	2.402	1.00
86_Y	111_Q	2.396	1.00
90_L	114_E	2.386	1.00
98_H	125_V	2.332	1.00
239_G	339_L	2.264	1.00
93_L	124_K	2.218	1.00
63_D	66_A	2.200	1.00
39_A	61_W	2.168	1.00
84_F	88_H	2.111	1.00
9_P	36_E	2.095	1.00
117_D	121_K	2.062	1.00
314_N	318_G	2.059	1.00
59_S	70_A	2.025	1.00
143_E	147_N	2.010	1.00
120_R	327_E	1.999	1.00
86_Y	90_L	1.985	1.00
89_T	101_C	1.977	1.00
140_Q	144_Q	1.948	1.00
49_Q	53_E	1.926	1.00
75_V	312_F	1.908	1.00
93_L	119_A	1.865	1.00
113_R	334_Q	1.864	1.00
80_S	84_F	1.854	1.00
113_R	117_D	1.849	1.00
118_T	122_L	1.840	1.00
87_E	91_M	1.831	1.00
150_L	271_G	1.781	1.00
98_H	124_K	1.779	1.00
243_F	249_L	1.769	1.00
94_E	122_L	1.756	1.00
13_A	73_P	1.755	1.00
109_P	337_A	1.715	1.00
12_V	75_V	1.710	1.00
44_R	47_Q	1.708	1.00
76_V	92_A	1.696	1.00
29_Y	77_S	1.665	1.00
108_T	111_Q	1.655	1.00
89_T	115_M	1.644	1.00
34_D	317_Q	1.636	1.00
35_L	313_I	1.614	1.00
68_L	92_A	1.606	1.00
126_L	326_A	1.593	1.00
73_P	97_C	1.592	1.00
62_D	66_A	1.582	1.00
69_L	95_A	1.574	1.00
210_S	343_A	1.574	1.00
142_R	196_Y	1.566	1.00
32_R	310_E	1.552	1.00
129_D	308_S	1.544	1.00
141_L	276_A	1.542	1.00
204_K	242_E	1.523	1.00
94_E	121_K	1.517	1.00
64_P	91_M	1.514	1.00
125_V	319_K	1.511	1.00
116_C	330_Y	1.475	1.00
107_M	111_Q	1.469	1.00
144_Q	149_V	1.468	1.00
116_C	326_A	1.467	1.00
50_A	54_K	1.457	1.00
154_Y	272_D	1.448	1.00
61_W	70_A	1.447	1.00
331_I	334_Q	1.447	1.00
118_T	121_K	1.438	1.00
66_A	69_L	1.433	1.00
65_Q	69_L	1.432	1.00
157_T	268_S	1.428	1.00
23_K	54_K	1.419	1.00
86_Y	115_M	1.410	1.00
91_M	94_E	1.390	1.00
45_L	62_D	1.387	1.00
93_L	122_L	1.374	1.00
61_W	67_M	1.368	1.00
106_A	115_M	1.353	1.00
106_A	112_A	1.351	1.00
198_L	247_G	1.349	1.00
11_R	38_V	1.347	1.00
314_N	320_P	1.343	1.00
268_S	277_T	1.331	1.00
11_R	74_D	1.328	1.00
200_F	244_H	1.317	1.00
203_V	243_F	1.310	1.00
209_H	242_E	1.300	1.00
112_A	330_Y	1.288	1.00
109_P	334_Q	1.285	1.00
109_P	113_R	1.284	1.00
91_M	95_A	1.283	1.00
200_F	245_N	1.279	1.00
150_L	274_A	1.275	1.00
48_A	60_V	1.275	1.00
311_A	315_H	1.274	1.00
195_M	331_I	1.272	1.00
41_C	64_P	1.269	1.00
17_A	40_V	1.259	1.00
66_A	70_A	1.235	1.00
195_M	243_F	1.229	1.00
78_V	88_H	1.224	1.00
92_A	99_V	1.215	1.00
46_S	49_Q	1.206	1.00
41_C	67_M	1.200	1.00
153_I	269_F	1.199	1.00
114_E	117_D	1.197	1.00
50_A	53_E	1.196	1.00
191_L	335_L	1.189	1.00
157_T	252_E	1.187	1.00
96_G	122_L	1.181	1.00
39_A	67_M	1.173	1.00
311_A	323_I	1.168	1.00
64_P	88_H	1.163	1.00
78_V	89_T	1.160	1.00
93_L	118_T	1.149	1.00
52_A	60_V	1.146	1.00
144_Q	147_N	1.140	1.00
105_P	112_A	1.138	1.00
116_C	327_E	1.135	1.00
325_D	328_Q	1.127	1.00
195_M	328_Q	1.125	1.00
310_E	314_N	1.121	1.00
207_N	240_T	1.115	1.00
337_A	341_Q	1.111	1.00
98_H	319_K	1.111	1.00
31_T	306_L	1.110	1.00
338_A	341_Q	1.106	1.00
67_M	73_P	1.101	1.00
313_I	317_Q	1.097	1.00
266_N	277_T	1.097	1.00
64_P	68_L	1.093	1.00
112_A	333_Q	1.093	1.00
114_E	118_T	1.088	1.00
100_M	129_D	1.087	1.00
72_K	97_C	1.084	1.00
71_V	97_C	1.082	1.00
12_V	35_L	1.079	1.00
81_P	84_F	1.079	1.00
117_D	120_R	1.078	1.00
10_L	75_V	1.061	1.00
83_R	178_Q	1.061	1.00
100_M	308_S	1.058	1.00
138_T	196_Y	1.058	1.00
10_L	316_V	1.056	1.00
194_A	249_L	1.052	1.00
68_L	91_M	1.047	1.00
116_C	120_R	1.042	1.00
156_T	198_L	1.039	1.00
150_L	276_A	1.036	1.00
39_A	73_P	1.022	1.00
48_A	62_D	1.022	1.00
111_Q	114_E	1.020	1.00
68_L	95_A	1.016	1.00
90_L	115_M	1.012	1.00
15_I	88_H	1.011	1.00
143_E	146_T	1.010	1.00
101_C	126_L	1.009	1.00
311_A	320_P	1.004	1.00
150_L	153_I	1.001	1.00
110_E	113_R	0.996	1.00
70_A	73_P	0.994	1.00
25_H	77_S	0.993	1.00
10_L	317_Q	0.991	1.00
134_F	311_A	0.989	1.00
156_T	249_L	0.989	1.00
307_R	310_E	0.972	1.00
106_A	111_Q	0.971	1.00
27_S	31_T	0.967	1.00
98_H	316_V	0.964	1.00
338_A	342_S	0.962	1.00
341_Q	344_E	0.955	1.00
139_Q	323_I	0.953	1.00
311_A	314_N	0.951	1.00
47_Q	50_A	0.950	1.00
59_S	72_K	0.947	1.00
105_P	326_A	0.939	1.00
203_V	241_I	0.939	1.00
89_T	99_V	0.936	1.00
115_M	126_L	0.934	1.00
314_N	319_K	0.929	1.00
61_W	66_A	0.929	1.00
306_L	310_E	0.929	1.00
141_L	278_L	0.927	1.00
46_S	50_A	0.927	1.00
133_R	328_Q	0.925	1.00
110_E	114_E	0.925	1.00
153_I	198_L	0.924	1.00
175_K	178_Q	0.921	1.00
48_A	52_A	0.920	1.00
285_T	288_N	0.918	1.00
88_H	91_M	0.916	1.00
17_A	42_D	0.910	1.00
109_P	330_Y	0.908	1.00
209_H	248_I	0.904	1.00
153_I	271_G	0.903	1.00
27_S	54_K	0.898	1.00
131_H	304_R	0.897	1.00
9_P	34_D	0.896	1.00
321_V	325_D	0.890	1.00
105_P	126_L	0.886	1.00
86_Y	106_A	0.885	1.00
45_L	48_A	0.881	1.00
327_E	331_I	0.876	1.00
52_A	57_N	0.872	1.00
200_F	331_I	0.871	1.00
34_D	310_E	0.870	1.00
127_A	312_F	0.866	1.00
49_Q	60_V	0.864	1.00
119_A	122_L	0.862	1.00
40_V	51_L	0.862	1.00
340_Y	344_E	0.853	1.00
78_V	92_A	0.850	1.00
158_A	267_V	0.847	1.00
42_D	48_A	0.845	1.00
238_F	250_W	0.845	1.00
284_Y	289_G	0.845	1.00
77_S	309_M	0.844	1.00
49_Q	52_A	0.843	1.00
38_V	72_K	0.841	1.00
334_Q	338_A	0.840	1.00
207_N	342_S	0.839	1.00
45_L	60_V	0.835	1.00
84_F	87_E	0.835	1.00
119_A	126_L	0.834	1.00
93_L	99_V	0.830	1.00
125_V	316_V	0.826	1.00
113_R	116_C	0.826	1.00
101_C	105_P	0.823	1.00
151_G	271_G	0.819	1.00
34_D	314_N	0.819	1.00
13_A	39_A	0.818	1.00
89_T	93_L	0.817	1.00
315_H	318_G	0.807	1.00
13_A	41_C	0.807	1.00
42_D	47_Q	0.803	1.00
29_Y	309_M	0.802	1.00
203_V	335_L	0.801	1.00
200_F	203_V	0.799	1.00
156_T	269_F	0.797	1.00
25_H	309_M	0.796	1.00
12_V	29_Y	0.795	1.00
195_M	332_I	0.795	1.00
11_R	73_P	0.791	1.00
268_S	275_G	0.789	1.00
139_Q	143_E	0.789	1.00
125_V	315_H	0.788	1.00
101_C	115_M	0.787	1.00
208_A	339_L	0.786	1.00
38_V	59_S	0.783	1.00
156_T	194_A	0.782	1.00
191_L	336_V	0.780	1.00
29_Y	35_L	0.774	1.00
119_A	124_K	0.774	1.00
157_T	250_W	0.772	1.00
15_I	64_P	0.770	1.00
151_G	274_A	0.768	1.00
315_H	322_M	0.768	1.00
175_K	232_S	0.766	1.00
119_A	326_A	0.763	1.00
145_V	271_G	0.763	1.00
181_G	234_E	0.762	1.00
203_V	244_H	0.760	1.00
287_N	290_E	0.757	1.00
21_A	79_C	0.752	1.00
158_A	190_M	0.751	1.00
127_A	315_H	0.748	1.00
20_V	305_H	0.748	1.00
315_H	320_P	0.746	1.00
330_Y	334_Q	0.744	1.00
112_A	116_C	0.742	1.00
32_R	35_L	0.742	1.00
266_N	279_F	0.742	1.00
182_P	253_T	0.741	1.00
14_I	26_A	0.741	1.00
70_A	97_C	0.738	1.00
82_N	185_D	0.738	1.00
75_V	98_H	0.736	1.00
241_I	249_L	0.732	1.00
21_A	27_S	0.732	1.00
93_L	126_L	0.731	1.00
15_I	80_S	0.731	1.00
20_V	79_C	0.730	1.00
38_V	73_P	0.724	1.00
20_V	25_H	0.724	1.00
128_Y	329_G	0.722	1.00
152_E	273_K	0.716	1.00
194_A	243_F	0.714	1.00
311_A	322_M	0.708	1.00
312_F	316_V	0.705	1.00
51_L	54_K	0.705	1.00
38_V	70_A	0.704	1.00
15_I	41_C	0.703	1.00
287_N	292_M	0.701	1.00
86_Y	118_T	0.698	1.00
130_F	188_I	0.698	1.00
188_I	332_I	0.698	1.00
183_L	336_V	0.698	1.00
13_A	76_V	0.696	1.00
209_H	240_T	0.696	1.00
240_T	248_I	0.696	1.00
176_E	232_S	0.694	1.00
146_T	199_G	0.691	1.00
159_R	252_E	0.690	1.00
328_Q	331_I	0.688	1.00
234_E	340_Y	0.682	1.00
172_F	175_K	0.681	1.00
26_A	37_L	0.681	1.00
105_P	128_Y	0.680	1.00
205_S	209_H	0.678	1.00
139_Q	307_R	0.674	1.00
96_G	124_K	0.674	1.00
152_E	245_N	0.674	1.00
85_H	101_C	0.672	1.00
158_A	194_A	0.671	1.00
285_T	289_G	0.671	1.00
333_Q	337_A	0.671	1.00
138_T	193_A	0.669	1.00
211_F	242_E	0.668	1.00
101_C	128_Y	0.667	1.00
11_R	72_K	0.667	1.00
93_L	115_M	0.666	1.00
198_L	243_F	0.664	1.00
285_T	291_L	0.663	1.00
17_A	48_A	0.663	1.00
132_H	135_A	0.662	1.00
90_L	93_L	0.661	1.00
12_V	313_I	0.661	1.00
288_N	291_L	0.660	1.00
187_G	253_T	0.659	1.00
145_V	269_F	0.657	1.00
270_C	275_G	0.657	1.00
192_D	332_I	0.656	1.00
185_D	255_F	0.655	1.00
130_F	192_D	0.654	1.00
243_F	247_G	0.653	1.00
305_H	308_S	0.651	1.00
197_V	269_F	0.650	1.00
155_V	248_I	0.648	1.00
87_E	114_E	0.647	1.00
239_G	251_L	0.647	1.00
26_A	51_L	0.643	1.00
51_L	55_Y	0.643	1.00
326_A	329_G	0.642	1.00
187_G	190_M	0.642	1.00
18_G	21_A	0.640	1.00
44_R	49_Q	0.639	1.00
142_R	197_V	0.637	1.00
100_M	127_A	0.634	1.00
242_E	248_I	0.633	1.00
130_F	332_I	0.631	1.00
183_L	237_L	0.631	1.00
76_V	97_C	0.630	1.00
133_R	196_Y	0.628	1.00
23_K	27_S	0.623	1.00
34_D	313_I	0.623	1.00
107_M	179_G	0.623	1.00
284_Y	288_N	0.617	1.00
75_V	316_V	0.616	1.00
64_P	92_A	0.616	1.00
67_M	70_A	0.615	1.00
208_A	239_G	0.614	1.00
125_V	321_V	0.613	1.00
159_R	266_N	0.612	1.00
12_V	77_S	0.610	1.00
97_C	124_K	0.609	1.00
235_D	256_A	0.607	1.00
131_H	305_H	0.606	1.00
89_T	126_L	0.606	1.00
208_A	237_L	0.602	1.00
36_E	58_A	0.600	1.00
65_Q	87_E	0.597	1.00
103_K	189_H	0.593	1.00
254_S	257_L	0.592	1.00
192_D	196_Y	0.589	1.00
286_D	289_G	0.587	1.00
285_T	290_E	0.585	1.00
153_I	247_G	0.584	1.00
32_R	313_I	0.584	1.00
207_N	242_E	0.582	1.00
213_K	235_D	0.578	1.00
127_A	311_A	0.578	1.00
210_S	237_L	0.575	1.00
176_E	344_E	0.575	1.00
195_M	335_L	0.574	1.00
20_V	102_E	0.571	1.00
284_Y	291_L	0.571	1.00
25_H	29_Y	0.571	1.00
191_L	339_L	0.569	1.00
145_V	197_V	0.567	1.00
132_H	192_D	0.567	1.00
155_V	270_C	0.567	1.00
87_E	90_L	0.566	1.00
17_A	51_L	0.565	1.00
77_S	100_M	0.564	1.00
141_L	197_V	0.563	1.00
194_A	251_L	0.563	1.00
21_A	51_L	0.560	1.00
39_A	59_S	0.559	1.00
40_V	60_V	0.559	1.00
290_E	293_T	0.558	1.00
184_I	337_A	0.557	1.00
139_Q	196_Y	0.555	1.00
78_V	85_H	0.554	1.00
148_G	152_E	0.553	1.00
35_L	75_V	0.551	1.00
236_S	254_S	0.551	1.00
240_T	250_W	0.547	1.00
160_A	186_I	0.546	1.00
314_N	317_Q	0.546	1.00
195_M	200_F	0.546	1.00
102_E	129_D	0.545	1.00
27_S	30_C	0.545	1.00
286_D	290_E	0.545	1.00
116_C	119_A	0.544	1.00
164_C	168_G	0.542	1.00
241_I	251_L	0.540	1.00
37_L	57_N	0.539	1.00
10_L	35_L	0.539	1.00
161_L	252_E	0.538	1.00
125_V	312_F	0.538	1.00
286_D	291_L	0.538	1.00
285_T	292_M	0.538	1.00
103_K	185_D	0.536	1.00
83_R	107_M	0.536	1.00
332_I	336_V	0.536	1.00
183_L	239_G	0.535	1.00
80_S	85_H	0.533	1.00
41_C	61_W	0.533	1.00
336_V	340_Y	0.531	1.00
155_V	250_W	0.530	1.00
149_V	152_E	0.529	1.00
89_T	119_A	0.528	1.00
18_G	79_C	0.526	1.00
180_G	184_I	0.525	1.00
43_S	80_S	0.525	1.00
61_W	71_V	0.525	1.00
303_N	306_L	0.521	1.00
173_T	185_D	0.519	1.00
108_T	337_A	0.518	1.00
15_I	76_V	0.517	1.00
19_Q	24_V	0.516	1.00
189_H	192_D	0.514	1.00
65_Q	95_A	0.513	1.00
134_F	324_A	0.513	1.00
296_Q	299_I	0.511	1.00
289_G	292_M	0.511	1.00
79_C	102_E	0.510	1.00
94_E	114_E	0.510	1.00
238_F	252_E	0.510	1.00
271_G	276_A	0.509	1.00
148_G	271_G	0.508	1.00
128_Y	189_H	0.508	1.00
288_N	293_T	0.506	1.00
125_V	322_M	0.505	1.00
15_I	78_V	0.505	1.00
136_L	307_R	0.504	1.00
283_I	289_G	0.502	1.00
179_G	233_V	0.501	1.00
14_I	37_L	0.501	1.00
302_D	306_L	0.500	1.00
53_E	60_V	0.500	1.00
273_K	287_N	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
1h6dA	8	0.9544	100	0.171	Contact Map
1zh8A	2	0.9003	100	0.178	Contact Map
3dtyA	4	0.9088	100	0.186	Contact Map
2nvwA	3	0.9601	100	0.195	Contact Map
3v5nA	4	0.8832	100	0.199	Contact Map
3moiA	2	0.9259	100	0.212	Contact Map
3oqbA	4	0.963	100	0.212	Contact Map
3q2iA	4	0.9316	100	0.212	Contact Map
4mkxA	4	0.9288	100	0.213	Contact Map
4gqaA	4	0.963	100	0.215	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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