YJHC - ECOLI - GREMLIN Contacts

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YJHC - Uncharacterized oxidoreductase YjhC

UniProt:	P39353	Sequences: MINYGVVGVGYFGAELARFMNMHDNAKITCVYDPENGENIARELQCINMSSLDALVSSKLVDCVIVATPNYLHKEPVIKAAKNKKHVFCEKPIALSYEDCVDMVKACKEAGVTFMAGHIMNFFNGVQYARKLIKEGVIGEILSCHTKRNGWENKQERLSWKKMKEQSGGHLYHHIHELDCVQHLLGEIPETVTMIGGNLAHSGPGFGNEDDMLFMTLEFPSGKLATLEWGSAFNWPEHYVIINGTKGSIKIDMQETAGSLRIGGQTKHFLVHETQEEDDDRRKGNMTSEMDGAIAYGHPGKKTPLWLASLIRKETLFLHNILCGAKPEEDYIDLLNGEAAMSAIATADAATLSRSQDRKVKISEIIKHTSVM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12545
Length:	372 (312)
Sequences:	22140 (17620)
Seq/√Len:	997.5

ECOLI - YJHC YHHX YCJS YDGJ YGJR YCEM
BACSU - NTDC YRBE YFII IOLX IOLW IOLG YULF YTET
SULSO - Q97UH0 Q97UK3 Q97UJ6 Q97UK0 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
53_D	79_K	3.490	1.00
121_N	179_D	3.288	1.00
78_I	106_A	3.188	1.00
74_K	102_D	3.154	1.00
191_T	218_E	3.045	1.00
140_E	245_T	3.011	1.00
34_P	38_E	2.990	1.00
82_K	106_A	2.958	1.00
128_Y	131_K	2.907	1.00
3_N	27_K	2.892	1.00
190_E	220_P	2.718	1.00
130_R	134_K	2.691	1.00
74_K	99_D	2.686	1.00
5_G	55_L	2.671	1.00
78_I	102_D	2.664	1.00
78_I	82_K	2.629	1.00
68_T	76_P	2.628	1.00
86_H	113_T	2.584	1.00
81_A	112_V	2.515	1.00
131_K	135_E	2.419	1.00
30_C	49_M	2.392	1.00
51_S	54_A	2.386	1.00
72_L	76_P	2.379	1.00
105_K	109_E	2.289	1.00
77_V	89_C	2.233	1.00
74_K	78_I	2.184	1.00
128_Y	132_L	2.159	1.00
81_A	107_C	2.132	1.00
101_V	105_K	2.111	1.00
38_E	42_R	2.091	1.00
106_A	110_A	2.065	1.00
14_A	43_E	2.059	1.00
68_T	72_L	2.051	1.00
86_H	112_V	2.016	1.00
75_E	79_K	2.001	1.00
138_I	244_G	1.982	1.00
82_K	110_A	1.958	1.00
20_M	65_I	1.957	1.00
4_Y	63_C	1.905	1.00
56_V	80_A	1.868	1.00
77_V	103_M	1.862	1.00
64_V	80_A	1.860	1.00
219_F	225_A	1.854	1.00
5_G	61_V	1.837	1.00
61_V	85_K	1.793	1.00
50_S	54_A	1.793	1.00
96_S	99_D	1.770	1.00
132_L	137_V	1.740	1.00
57_S	83_N	1.710	1.00
129_A	249_I	1.703	1.00
82_K	109_E	1.697	1.00
39_N	43_E	1.679	1.00
130_R	183_H	1.644	1.00
142_L	245_T	1.643	1.00
190_E	218_E	1.642	1.00
49_M	58_S	1.640	1.00
52_L	79_K	1.626	1.00
34_P	50_S	1.623	1.00
54_A	57_S	1.613	1.00
95_L	99_D	1.597	1.00
74_K	103_M	1.567	1.00
106_A	109_E	1.561	1.00
145_H	241_I	1.507	1.00
185_L	223_K	1.506	1.00
53_D	57_S	1.484	1.00
49_M	55_L	1.469	1.00
79_K	82_K	1.462	1.00
97_Y	101_V	1.459	1.00
94_A	100_C	1.450	1.00
94_A	103_M	1.446	1.00
195_I	218_E	1.437	1.00
187_E	220_P	1.428	1.00
3_N	62_D	1.414	1.00
81_A	110_A	1.410	1.00
9_V	31_V	1.396	1.00
32_Y	52_L	1.390	1.00
79_K	83_N	1.385	1.00
241_I	250_K	1.374	1.00
71_Y	166_Q	1.369	1.00
3_N	29_T	1.368	1.00
138_I	247_G	1.357	1.00
189_P	219_F	1.353	1.00
66_V	77_V	1.352	1.00
4_Y	26_A	1.349	1.00
48_N	58_S	1.348	1.00
52_L	76_P	1.342	1.00
182_Q	219_F	1.337	1.00
54_A	58_S	1.326	1.00
319_H	323_C	1.323	1.00
93_I	100_C	1.322	1.00
289_E	293_A	1.319	1.00
141_I	242_I	1.317	1.00
187_E	221_S	1.314	1.00
32_Y	55_L	1.311	1.00
102_D	105_K	1.309	1.00
80_A	87_V	1.287	1.00
66_V	76_P	1.285	1.00
35_E	38_E	1.282	1.00
39_N	42_R	1.278	1.00
55_L	61_V	1.269	1.00
145_H	228_E	1.255	1.00
239_Y	250_K	1.248	1.00
132_L	135_E	1.238	1.00
84_K	110_A	1.231	1.00
81_A	106_A	1.224	1.00
292_G	296_Y	1.214	1.00
193_T	216_T	1.209	1.00
34_P	37_G	1.204	1.00
286_M	289_E	1.200	1.00
101_V	311_I	1.193	1.00
167_S	170_H	1.189	1.00
102_D	106_A	1.186	1.00
52_L	56_V	1.184	1.00
105_K	108_K	1.180	1.00
144_C	185_L	1.176	1.00
99_D	102_D	1.175	1.00
163_M	166_Q	1.174	1.00
59_K	85_K	1.171	1.00
181_V	225_A	1.171	1.00
78_I	103_M	1.170	1.00
69_P	72_L	1.169	1.00
35_E	39_N	1.168	1.00
287_T	291_D	1.158	1.00
30_C	55_L	1.151	1.00
131_K	134_K	1.150	1.00
126_V	183_H	1.147	1.00
56_V	83_N	1.138	1.00
7_V	76_P	1.138	1.00
30_C	61_V	1.137	1.00
60_L	85_K	1.135	1.00
144_C	225_A	1.135	1.00
33_D	37_G	1.127	1.00
36_N	39_N	1.127	1.00
94_A	99_D	1.120	1.00
295_A	299_P	1.117	1.00
88_F	117_G	1.117	1.00
307_L	310_L	1.116	1.00
89_C	114_F	1.110	1.00
56_V	79_K	1.103	1.00
189_P	217_L	1.101	1.00
320_N	324_G	1.101	1.00
104_V	108_K	1.088	1.00
138_I	249_I	1.084	1.00
293_A	297_G	1.065	1.00
108_K	308_A	1.064	1.00
141_I	244_G	1.064	1.00
16_L	65_I	1.064	1.00
58_S	61_V	1.062	1.00
138_I	141_I	1.055	1.00
93_I	114_F	1.054	1.00
101_V	104_V	1.050	1.00
98_E	101_V	1.048	1.00
47_I	58_S	1.042	1.00
285_N	289_E	1.039	1.00
309_S	312_R	1.035	1.00
195_I	224_L	1.035	1.00
18_R	22_M	1.030	1.00
76_P	79_K	1.029	1.00
37_G	41_A	1.029	1.00
103_M	114_F	1.020	1.00
107_C	110_A	1.007	1.00
77_V	87_V	1.005	1.00
38_E	41_A	0.998	1.00
49_M	54_A	0.997	1.00
9_V	33_D	0.997	1.00
66_V	80_A	0.997	1.00
98_E	102_D	0.994	1.00
37_G	50_S	0.980	1.00
107_C	114_F	0.973	1.00
4_Y	20_M	0.969	1.00
74_K	94_A	0.966	1.00
77_V	81_A	0.965	1.00
81_A	87_V	0.951	1.00
312_R	316_L	0.946	1.00
214_F	226_T	0.939	1.00
18_R	43_E	0.936	1.00
291_D	295_A	0.936	1.00
129_A	251_I	0.928	1.00
70_N	172_Y	0.927	1.00
81_A	114_F	0.920	1.00
100_C	104_V	0.914	1.00
141_I	185_L	0.910	1.00
321_I	325_A	0.901	1.00
107_C	112_V	0.900	1.00
5_G	30_C	0.896	1.00
315_T	319_H	0.896	1.00
20_M	26_A	0.891	1.00
288_S	291_D	0.889	1.00
294_I	298_H	0.886	1.00
292_G	295_A	0.885	1.00
189_P	220_P	0.878	1.00
13_G	67_A	0.869	1.00
72_L	75_E	0.869	1.00
12_F	67_A	0.868	1.00
169_G	210_D	0.866	1.00
89_C	93_I	0.865	1.00
144_C	242_I	0.863	1.00
25_N	298_H	0.862	1.00
89_C	103_M	0.862	1.00
3_N	61_V	0.861	1.00
146_T	240_V	0.860	1.00
318_L	322_L	0.856	1.00
88_F	115_M	0.853	1.00
134_K	186_G	0.851	1.00
7_V	52_L	0.850	1.00
258_G	262_I	0.850	1.00
127_Q	131_K	0.845	1.00
306_W	309_S	0.840	1.00
6_V	17_A	0.839	1.00
317_F	321_I	0.837	1.00
2_I	63_C	0.833	1.00
29_T	60_L	0.832	1.00
40_I	44_L	0.832	1.00
144_C	181_V	0.831	1.00
147_K	228_E	0.830	1.00
33_D	36_N	0.829	1.00
17_A	28_I	0.829	1.00
241_I	248_S	0.827	1.00
293_A	296_Y	0.825	1.00
308_A	311_I	0.823	1.00
23_H	26_A	0.821	1.00
12_F	16_L	0.821	1.00
5_G	32_Y	0.820	1.00
181_V	219_F	0.820	1.00
282_R	285_N	0.818	1.00
305_L	309_S	0.813	1.00
147_K	239_Y	0.813	1.00
239_Y	252_D	0.813	1.00
306_W	310_L	0.811	1.00
164_K	208_N	0.810	1.00
322_L	326_K	0.810	1.00
40_I	43_E	0.810	1.00
146_T	177_E	0.809	1.00
133_I	244_G	0.807	1.00
194_M	215_M	0.806	1.00
58_S	85_K	0.804	1.00
93_I	116_A	0.792	1.00
120_M	123_F	0.790	1.00
139_G	244_G	0.790	1.00
284_G	287_T	0.788	1.00
140_E	221_S	0.788	1.00
215_M	321_I	0.788	1.00
145_H	226_T	0.787	1.00
13_G	18_R	0.786	1.00
63_C	321_I	0.783	1.00
7_V	68_T	0.781	1.00
14_A	39_N	0.781	1.00
139_G	247_G	0.780	1.00
118_H	175_I	0.779	1.00
292_G	304_P	0.773	1.00
29_T	61_V	0.771	1.00
191_T	195_I	0.770	1.00
174_H	177_E	0.770	1.00
29_T	58_S	0.765	1.00
217_L	225_A	0.760	1.00
5_G	64_V	0.760	1.00
31_V	40_I	0.759	1.00
63_C	293_A	0.754	1.00
27_K	47_I	0.753	1.00
163_M	208_N	0.753	1.00
307_L	311_I	0.752	1.00
289_E	294_I	0.748	1.00
176_H	179_D	0.748	1.00
195_I	216_T	0.745	1.00
179_D	183_H	0.745	1.00
7_V	32_Y	0.745	1.00
288_S	292_G	0.744	1.00
12_F	90_E	0.741	1.00
218_E	224_L	0.739	1.00
126_V	180_C	0.733	1.00
295_A	301_K	0.733	1.00
22_M	287_T	0.732	1.00
269_F	273_E	0.730	1.00
216_T	224_L	0.729	1.00
63_C	86_H	0.727	1.00
140_E	246_K	0.727	1.00
9_V	37_G	0.726	1.00
89_C	116_A	0.719	1.00
118_H	179_D	0.718	1.00
52_L	80_A	0.718	1.00
23_H	291_D	0.713	1.00
282_R	286_M	0.712	1.00
185_L	219_F	0.712	1.00
295_A	300_G	0.710	1.00
121_N	183_H	0.709	1.00
174_H	229_W	0.707	1.00
289_E	292_G	0.704	1.00
215_M	227_L	0.704	1.00
290_M	293_A	0.700	1.00
323_C	326_K	0.699	1.00
296_Y	299_P	0.698	1.00
133_I	242_I	0.696	1.00
78_I	81_A	0.694	1.00
320_N	323_C	0.693	1.00
285_N	288_S	0.692	1.00
258_G	263_G	0.691	1.00
85_K	112_V	0.689	1.00
75_E	102_D	0.687	1.00
84_K	112_V	0.686	1.00
4_Y	65_I	0.684	1.00
172_Y	231_S	0.684	1.00
74_K	106_A	0.683	1.00
243_N	248_S	0.683	1.00
133_I	184_L	0.683	1.00
143_S	224_L	0.681	1.00
305_L	308_A	0.678	1.00
26_A	63_C	0.677	1.00
258_G	261_R	0.674	1.00
219_F	223_K	0.674	1.00
230_G	233_F	0.674	1.00
308_A	312_R	0.671	1.00
146_T	181_V	0.671	1.00
97_Y	319_H	0.670	1.00
95_L	167_S	0.670	1.00
26_A	294_I	0.668	1.00
81_A	103_M	0.665	1.00
55_L	58_S	0.664	1.00
3_N	60_L	0.662	1.00
113_T	300_G	0.659	1.00
197_G	218_E	0.656	1.00
289_E	296_Y	0.651	1.00
141_I	223_K	0.648	1.00
184_L	242_I	0.647	1.00
53_D	75_E	0.647	1.00
77_V	114_F	0.642	1.00
291_D	294_I	0.641	1.00
130_R	184_L	0.635	1.00
129_A	184_L	0.635	1.00
73_H	89_C	0.634	1.00
104_V	107_C	0.632	1.00
10_G	67_A	0.632	1.00
45_Q	48_N	0.632	1.00
101_V	316_L	0.631	1.00
64_V	85_K	0.629	1.00
296_Y	303_T	0.629	1.00
14_A	18_R	0.629	1.00
281_R	285_N	0.627	1.00
297_G	300_G	0.626	1.00
283_K	287_T	0.626	1.00
160_W	163_M	0.625	1.00
196_G	213_L	0.623	1.00
296_Y	301_K	0.623	1.00
289_E	297_G	0.623	1.00
217_L	227_L	0.618	1.00
9_V	40_I	0.616	1.00
262_I	267_K	0.616	1.00
263_G	267_K	0.615	1.00
91_K	172_Y	0.615	1.00
120_M	179_D	0.612	1.00
315_T	318_L	0.608	1.00
193_T	218_E	0.608	1.00
49_M	59_K	0.607	1.00
48_N	60_L	0.605	1.00
143_S	226_T	0.604	1.00
194_M	213_L	0.604	1.00
284_G	288_S	0.603	1.00
65_I	88_F	0.603	1.00
271_V	274_T	0.599	1.00
213_L	229_W	0.598	1.00
316_L	319_H	0.598	1.00
25_N	291_D	0.596	1.00
37_G	48_N	0.596	1.00
82_K	102_D	0.594	1.00
41_A	48_N	0.593	1.00
143_S	212_M	0.592	1.00
14_A	44_L	0.591	1.00
75_E	78_I	0.591	1.00
259_S	262_I	0.590	1.00
29_T	47_I	0.589	1.00
294_I	297_G	0.589	1.00
57_S	79_K	0.589	1.00
211_D	232_A	0.589	1.00
116_A	176_H	0.587	1.00
304_P	308_A	0.586	1.00
119_I	176_H	0.586	1.00
305_L	310_L	0.584	1.00
67_A	90_E	0.584	1.00
262_I	265_Q	0.584	1.00
317_F	322_L	0.583	1.00
14_A	36_N	0.582	1.00
171_L	213_L	0.580	1.00
7_V	64_V	0.578	1.00
182_Q	187_E	0.578	1.00
267_K	272_H	0.577	1.00
303_T	307_L	0.576	1.00
178_L	317_F	0.575	1.00
161_K	172_Y	0.574	1.00
32_Y	49_M	0.574	1.00
212_M	230_G	0.574	1.00
267_K	270_L	0.570	1.00
16_L	20_M	0.569	1.00
13_G	17_A	0.569	1.00
14_A	40_I	0.568	1.00
317_F	324_G	0.566	1.00
285_N	297_G	0.566	1.00
156_E	159_S	0.566	1.00
263_G	266_T	0.566	1.00
120_M	253_M	0.566	1.00
216_T	226_T	0.564	1.00
90_E	117_G	0.562	1.00
77_V	107_C	0.560	1.00
137_V	140_E	0.559	1.00
321_I	324_G	0.559	1.00
189_P	225_A	0.559	1.00
18_R	21_N	0.555	1.00
118_H	121_N	0.554	1.00
265_Q	269_F	0.553	1.00
295_A	298_H	0.552	1.00
212_M	228_E	0.552	1.00
118_H	176_H	0.551	1.00
196_G	210_D	0.549	1.00
270_L	273_E	0.548	1.00
71_Y	95_L	0.548	1.00
93_I	103_M	0.546	1.00
286_M	292_G	0.544	1.00
143_S	228_E	0.544	1.00
259_S	263_G	0.543	1.00
181_V	227_L	0.543	1.00
11_Y	15_E	0.542	1.00
178_L	182_Q	0.539	1.00
13_G	40_I	0.539	1.00
68_T	73_H	0.538	1.00
143_S	243_N	0.537	1.00
25_N	326_K	0.535	1.00
107_C	111_G	0.532	1.00
165_E	208_N	0.530	1.00
114_F	307_L	0.530	1.00
78_I	110_A	0.529	1.00
182_Q	309_S	0.529	1.00
293_A	299_P	0.528	1.00
66_V	73_H	0.526	1.00
170_H	229_W	0.525	1.00
17_A	40_I	0.525	1.00
292_G	301_K	0.524	1.00
260_L	265_Q	0.523	1.00
148_R	151_W	0.523	1.00
143_S	214_F	0.522	1.00
130_R	186_G	0.522	1.00
152_E	156_E	0.521	1.00
263_G	269_F	0.520	1.00
260_L	264_G	0.520	1.00
266_T	270_L	0.516	1.00
303_T	306_W	0.515	1.00
180_C	184_L	0.515	1.00
302_K	306_W	0.515	1.00
130_R	133_I	0.514	1.00
267_K	271_V	0.512	1.00
127_Q	183_H	0.512	1.00
7_V	66_V	0.510	1.00
185_L	221_S	0.509	1.00
140_E	223_K	0.509	1.00
10_G	13_G	0.508	1.00
214_F	224_L	0.508	1.00
15_E	18_R	0.508	1.00
319_H	322_L	0.508	1.00
91_K	176_H	0.508	1.00
16_L	67_A	0.507	1.00
17_A	21_N	0.507	1.00
15_E	19_F	0.506	1.00
6_V	28_I	0.505	1.00
182_Q	189_P	0.504	1.00
6_V	65_I	0.503	1.00
253_M	256_T	0.503	1.00
166_Q	170_H	0.503	1.00
144_C	240_V	0.502	1.00
136_G	244_G	0.502	1.00
117_G	289_E	0.501	1.00
73_H	93_I	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
3dtyA	4	0.9167	100	0.27	Contact Map
3v5nA	4	0.8737	100	0.274	Contact Map
1h6dA	8	0.914	100	0.276	Contact Map
2nvwA	3	0.8898	100	0.278	Contact Map
1zh8A	2	0.8414	100	0.28	Contact Map
3db2A	2	0.9059	100	0.289	Contact Map
3i23A	2	0.922	100	0.29	Contact Map
3fhlA	2	0.8925	100	0.291	Contact Map
3btvA	2	0.9059	100	0.293	Contact Map
3oqbA	4	0.922	100	0.296	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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