EMRA - ECOLI - GREMLIN Contacts

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EMRA - Multidrug export protein EmrA

UniProt:	P27303	Sequences: MSANAETQTPQQPVKKSGKRKRLLLLLTLLFIIIAVAIGIYWFLVLRHFEETDDAYVAGNQIQIMSQVSGSVTKVWADNTDFVKEGDVLVTLDPTDARQAFEKAKTALASSVRQTHQLMINSKQLQANIEVQKIALAKAQSDYNRRVPLGNANLIGREELQHARDAVTSAQAQLDVAIQQYNANQAMILGTKLEDQPAVQQAATEVRNAWLALERTRIISPMTGYVSRRAVQPGAQISPTTPLMAVVPATNMWVDANFKETQIANMRIGQPVTITTDIYGDDVKYTGKVVGLDMGTGSAFSLLPAQNATGNWIKVVQRLPVRIELDQKQLEQYPLRIGLSTLVSVNTTNRDGQVLANKVRSTPVAVSTAREISLAPVNKLIDDIVKANAG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11354
Length:	390 (303)
Sequences:	19728 (15466)
Seq/√Len:	888.5

ECOLI - EMRA EMRK YIBH YIAV YHII YBHG MDTN MACA ACRA ACRE MDTA MDTE AAEA YDHJ CUSB
BACSU - YKNX YVRP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
74_K	91_T	3.278	1.00
84_K	223_T	3.107	1.00
88_V	217_R	3.031	1.00
290_V	324_E	2.860	1.00
91_T	217_R	2.567	1.00
271_P	286_T	2.430	1.00
164_R	168_T	2.400	1.00
287_G	323_I	2.396	1.00
140_Q	144_N	2.395	1.00
76_W	91_T	2.387	1.00
105_K	210_W	2.352	1.00
273_T	284_K	2.341	1.00
146_R	155_I	2.293	1.00
146_R	163_A	2.274	1.00
167_V	171_Q	2.235	1.00
147_V	164_R	2.207	1.00
84_K	87_D	2.189	1.00
94_P	98_R	2.183	1.00
67_Q	215_R	2.115	1.00
88_V	219_I	2.098	1.00
82_F	225_Y	2.085	1.00
85_E	223_T	2.020	1.00
147_V	151_N	2.017	1.00
101_F	206_V	1.985	1.00
140_Q	171_Q	1.984	1.00
255_D	320_P	1.980	1.00
150_G	157_R	1.961	1.00
273_T	286_T	1.950	1.00
76_W	88_V	1.945	1.00
138_K	142_D	1.906	1.00
157_R	161_Q	1.881	1.00
140_Q	167_V	1.877	1.00
227_S	247_V	1.857	1.00
253_W	322_R	1.829	1.00
136_L	167_V	1.819	1.00
288_K	326_D	1.803	1.00
143_Y	167_V	1.800	1.00
143_Y	160_L	1.781	1.00
38_I	42_W	1.751	1.00
40_I	44_L	1.741	1.00
108_L	206_V	1.737	1.00
159_E	162_H	1.713	1.00
256_A	343_V	1.712	1.00
143_Y	147_V	1.708	1.00
101_F	210_W	1.702	1.00
288_K	324_E	1.693	1.00
133_K	174_L	1.692	1.00
272_V	323_I	1.678	1.00
102_E	105_K	1.678	1.00
98_R	102_E	1.665	1.00
150_G	160_L	1.655	1.00
136_L	140_Q	1.634	1.00
271_P	288_K	1.624	1.00
101_F	105_K	1.621	1.00
78_D	81_D	1.614	1.00
57_V	254_V	1.610	1.00
136_L	171_Q	1.598	1.00
37_A	41_Y	1.595	1.00
291_G	322_R	1.585	1.00
137_A	141_S	1.584	1.00
98_R	213_L	1.573	1.00
103_K	205_E	1.562	1.00
256_A	323_I	1.527	1.00
160_L	164_R	1.523	1.00
70_G	92_L	1.502	1.00
40_I	43_F	1.500	1.00
254_V	341_T	1.499	1.00
200_Q	203_A	1.495	1.00
143_Y	164_R	1.484	1.00
123_K	126_Q	1.482	1.00
105_K	206_V	1.470	1.00
207_R	210_W	1.465	1.00
39_G	43_F	1.459	1.00
171_Q	175_D	1.458	1.00
162_H	166_A	1.450	1.00
130_E	133_K	1.442	1.00
136_L	174_L	1.440	1.00
72_V	231_V	1.439	1.00
108_L	203_A	1.428	1.00
133_K	178_I	1.423	1.00
238_S	241_T	1.423	1.00
142_D	162_H	1.416	1.00
100_A	103_K	1.412	1.00
82_F	249_A	1.405	1.00
296_T	319_L	1.401	1.00
72_V	90_V	1.400	1.00
273_T	346_N	1.380	1.00
73_T	93_D	1.375	1.00
133_K	137_A	1.375	1.00
168_T	171_Q	1.374	1.00
206_V	210_W	1.369	1.00
90_V	218_I	1.360	1.00
251_N	324_E	1.356	1.00
208_N	212_A	1.354	1.00
166_A	169_S	1.350	1.00
220_S	246_V	1.344	1.00
73_T	91_T	1.328	1.00
135_A	169_S	1.323	1.00
129_I	174_L	1.317	1.00
74_K	233_P	1.312	1.00
100_A	208_N	1.298	1.00
88_V	91_T	1.297	1.00
147_V	160_L	1.288	1.00
139_A	170_A	1.281	1.00
145_R	161_Q	1.276	1.00
203_A	207_R	1.274	1.00
103_K	107_A	1.271	1.00
25_L	29_L	1.269	1.00
276_T	341_T	1.266	1.00
259_K	262_Q	1.259	1.00
107_A	110_S	1.240	1.00
77_A	87_D	1.234	1.00
61_Q	245_A	1.229	1.00
101_F	213_L	1.216	1.00
275_T	344_S	1.212	1.00
211_L	215_R	1.205	1.00
175_D	178_I	1.203	1.00
100_A	212_A	1.202	1.00
144_N	148_P	1.200	1.00
226_V	244_M	1.183	1.00
255_D	322_R	1.180	1.00
108_L	199_V	1.178	1.00
158_E	162_H	1.174	1.00
131_V	173_Q	1.174	1.00
273_T	344_S	1.169	1.00
63_Q	245_A	1.169	1.00
89_L	244_M	1.158	1.00
148_P	152_A	1.156	1.00
137_A	140_Q	1.148	1.00
94_P	216_T	1.146	1.00
173_Q	176_V	1.136	1.00
129_I	133_K	1.136	1.00
210_W	214_E	1.133	1.00
166_A	170_A	1.128	1.00
148_P	151_N	1.126	1.00
97_A	216_T	1.123	1.00
144_N	147_V	1.114	1.00
275_T	284_K	1.104	1.00
105_K	109_A	1.102	1.00
198_A	201_Q	1.100	1.00
141_S	161_Q	1.098	1.00
66_S	218_I	1.097	1.00
257_N	320_P	1.092	1.00
329_Q	334_P	1.089	1.00
174_L	178_I	1.086	1.00
63_Q	242_P	1.082	1.00
169_S	173_Q	1.071	1.00
126_Q	181_Y	1.067	1.00
62_I	222_M	1.063	1.00
228_R	245_A	1.062	1.00
137_A	168_T	1.062	1.00
129_I	181_Y	1.060	1.00
69_S	239_P	1.056	1.00
129_I	178_I	1.054	1.00
81_D	87_D	1.054	1.00
286_T	326_D	1.052	1.00
142_D	158_E	1.051	1.00
115_T	119_M	1.038	1.00
107_A	201_Q	1.031	1.00
258_F	321_V	1.031	1.00
237_I	243_L	1.026	1.00
161_Q	164_R	1.025	1.00
75_V	90_V	1.004	1.00
102_E	207_R	1.002	1.00
126_Q	130_E	0.998	1.00
79_N	228_R	0.998	1.00
36_V	40_I	0.997	1.00
60_N	248_P	0.993	1.00
132_Q	170_A	0.992	1.00
283_V	334_P	0.986	1.00
229_R	232_Q	0.983	1.00
193_L	196_Q	0.980	1.00
274_I	325_L	0.980	1.00
289_V	321_V	0.978	1.00
224_G	246_V	0.974	1.00
258_F	266_M	0.972	1.00
135_A	138_K	0.965	1.00
199_V	203_A	0.964	1.00
248_P	251_N	0.961	1.00
67_Q	71_S	0.959	1.00
75_V	233_P	0.958	1.00
128_N	131_V	0.956	1.00
205_E	208_N	0.956	1.00
293_D	320_P	0.953	1.00
77_A	244_M	0.944	1.00
39_G	42_W	0.937	1.00
131_V	135_A	0.934	1.00
119_M	196_Q	0.933	1.00
90_V	243_L	0.932	1.00
220_S	223_T	0.932	1.00
164_R	167_V	0.926	1.00
57_V	252_M	0.919	1.00
196_Q	200_Q	0.919	1.00
94_P	217_R	0.918	1.00
82_F	223_T	0.917	1.00
115_T	196_Q	0.916	1.00
107_A	205_E	0.915	1.00
71_S	236_Q	0.914	1.00
138_K	162_H	0.901	1.00
163_A	166_A	0.895	1.00
266_M	345_V	0.894	1.00
253_W	290_V	0.893	1.00
24_L	27_L	0.891	1.00
138_K	165_D	0.888	1.00
267_R	270_Q	0.886	1.00
189_L	192_K	0.883	1.00
128_N	176_V	0.882	1.00
350_R	353_Q	0.882	1.00
50_E	344_S	0.882	1.00
346_N	349_N	0.881	1.00
90_V	244_M	0.879	1.00
37_A	40_I	0.878	1.00
201_Q	205_E	0.875	1.00
95_T	211_L	0.874	1.00
155_I	159_E	0.871	1.00
43_F	46_L	0.863	1.00
110_S	198_A	0.863	1.00
271_P	346_N	0.862	1.00
211_L	214_E	0.859	1.00
179_Q	182_N	0.856	1.00
106_T	204_T	0.854	1.00
266_M	289_V	0.854	1.00
142_D	146_R	0.854	1.00
91_T	94_P	0.852	1.00
57_V	335_L	0.849	1.00
173_Q	177_A	0.849	1.00
141_S	144_N	0.844	1.00
69_S	236_Q	0.839	1.00
257_N	318_R	0.836	1.00
146_R	159_E	0.832	1.00
132_Q	177_A	0.832	1.00
52_T	344_S	0.831	1.00
78_D	229_R	0.829	1.00
69_S	238_S	0.828	1.00
104_A	202_A	0.825	1.00
230_A	245_A	0.824	1.00
55_A	341_T	0.822	1.00
122_S	126_Q	0.819	1.00
100_A	104_A	0.816	1.00
254_V	274_I	0.815	1.00
34_I	38_I	0.815	1.00
135_A	173_Q	0.814	1.00
263_I	319_L	0.806	1.00
42_W	45_V	0.804	1.00
119_M	192_K	0.802	1.00
132_Q	135_A	0.801	1.00
276_T	279_Y	0.800	1.00
99_Q	204_T	0.799	1.00
104_A	107_A	0.791	1.00
128_N	132_Q	0.790	1.00
99_Q	211_L	0.789	1.00
107_A	111_S	0.789	1.00
258_F	345_V	0.788	1.00
72_V	237_I	0.784	1.00
52_T	342_L	0.783	1.00
254_V	343_V	0.782	1.00
274_I	287_G	0.781	1.00
170_A	173_Q	0.779	1.00
135_A	166_A	0.778	1.00
150_G	155_I	0.778	1.00
77_A	226_V	0.776	1.00
73_T	94_P	0.774	1.00
26_L	30_L	0.773	1.00
253_W	324_E	0.771	1.00
66_S	237_I	0.768	1.00
198_A	202_A	0.766	1.00
71_S	93_D	0.766	1.00
42_W	46_L	0.762	1.00
83_V	89_L	0.761	1.00
135_A	170_A	0.757	1.00
275_T	281_D	0.757	1.00
41_Y	44_L	0.752	1.00
101_F	209_A	0.750	1.00
96_D	212_A	0.749	1.00
104_A	209_A	0.749	1.00
229_R	244_M	0.744	1.00
289_V	323_I	0.743	1.00
124_Q	180_Q	0.740	1.00
275_T	342_L	0.735	1.00
41_Y	45_V	0.734	1.00
133_K	136_L	0.734	1.00
209_A	212_A	0.725	1.00
135_A	139_A	0.723	1.00
204_T	207_R	0.720	1.00
23_L	26_L	0.718	1.00
157_R	160_L	0.718	1.00
127_A	130_E	0.714	1.00
73_T	76_W	0.707	1.00
85_E	221_P	0.705	1.00
146_R	158_E	0.703	1.00
44_L	47_R	0.702	1.00
124_Q	128_N	0.700	1.00
153_N	157_R	0.698	1.00
29_L	33_I	0.696	1.00
103_K	208_N	0.694	1.00
109_A	200_Q	0.693	1.00
139_A	166_A	0.693	1.00
26_L	29_L	0.693	1.00
170_A	174_L	0.692	1.00
97_A	100_A	0.689	1.00
67_Q	96_D	0.688	1.00
100_A	209_A	0.686	1.00
178_I	182_N	0.685	1.00
159_E	163_A	0.683	1.00
138_K	141_S	0.678	1.00
180_Q	183_A	0.676	1.00
147_V	150_G	0.676	1.00
60_N	232_Q	0.675	1.00
274_I	341_T	0.674	1.00
38_I	43_F	0.674	1.00
122_S	181_Y	0.673	1.00
96_D	100_A	0.669	1.00
64_I	221_P	0.666	1.00
66_S	243_L	0.665	1.00
43_F	47_R	0.665	1.00
256_A	345_V	0.665	1.00
172_A	175_D	0.664	1.00
297_G	320_P	0.663	1.00
90_V	229_R	0.663	1.00
98_R	101_F	0.662	1.00
59_G	251_N	0.662	1.00
64_I	244_M	0.661	1.00
298_S	317_Q	0.661	1.00
272_V	287_G	0.660	1.00
327_Q	330_L	0.659	1.00
222_M	246_V	0.652	1.00
66_S	69_S	0.651	1.00
279_Y	285_Y	0.650	1.00
42_W	47_R	0.648	1.00
212_A	215_R	0.647	1.00
76_W	87_D	0.641	1.00
225_Y	249_A	0.640	1.00
94_P	213_L	0.640	1.00
252_M	337_I	0.639	1.00
111_S	202_A	0.639	1.00
132_Q	173_Q	0.639	1.00
268_I	292_L	0.638	1.00
128_N	180_Q	0.637	1.00
274_I	343_V	0.635	1.00
79_N	229_R	0.635	1.00
214_E	219_I	0.634	1.00
24_L	28_T	0.634	1.00
23_L	27_L	0.633	1.00
77_A	81_D	0.631	1.00
134_I	138_K	0.631	1.00
33_I	37_A	0.628	1.00
165_D	169_S	0.627	1.00
260_E	340_S	0.627	1.00
290_V	322_R	0.625	1.00
30_L	34_I	0.624	1.00
171_Q	174_L	0.620	1.00
126_Q	129_I	0.619	1.00
218_I	243_L	0.617	1.00
191_T	194_E	0.615	1.00
22_R	25_L	0.615	1.00
104_A	108_L	0.614	1.00
309_T	316_V	0.614	1.00
107_A	198_A	0.613	1.00
97_A	209_A	0.610	1.00
142_D	163_A	0.609	1.00
97_A	101_F	0.609	1.00
203_A	206_V	0.609	1.00
134_I	137_A	0.606	1.00
36_V	39_G	0.604	1.00
319_L	339_L	0.604	1.00
242_P	245_A	0.603	1.00
274_I	323_I	0.602	1.00
256_A	321_V	0.601	1.00
68_V	212_A	0.599	1.00
115_T	199_V	0.596	1.00
44_L	48_H	0.595	1.00
105_K	108_L	0.593	1.00
125_L	128_N	0.591	1.00
155_I	160_L	0.587	1.00
270_Q	347_T	0.587	1.00
202_A	205_E	0.581	1.00
279_Y	283_V	0.580	1.00
66_S	90_V	0.577	1.00
128_N	173_Q	0.571	1.00
77_A	229_R	0.571	1.00
79_N	322_R	0.570	1.00
176_V	180_Q	0.569	1.00
49_F	348_T	0.568	1.00
65_M	236_Q	0.567	1.00
129_I	177_A	0.566	1.00
97_A	212_A	0.562	1.00
150_G	153_N	0.560	1.00
21_K	25_L	0.560	1.00
208_N	211_L	0.557	1.00
268_I	290_V	0.557	1.00
38_I	41_Y	0.556	1.00
63_Q	235_A	0.555	1.00
145_R	158_E	0.554	1.00
214_E	217_R	0.554	1.00
247_V	337_I	0.554	1.00
269_G	288_K	0.553	1.00
102_E	106_T	0.550	1.00
202_A	206_V	0.550	1.00
139_A	163_A	0.549	1.00
194_E	198_A	0.549	1.00
99_Q	102_E	0.548	1.00
195_D	198_A	0.546	1.00
107_A	202_A	0.546	1.00
83_V	220_S	0.544	1.00
141_S	145_R	0.542	1.00
59_G	324_E	0.541	1.00
156_G	159_E	0.540	1.00
279_Y	339_L	0.539	1.00
157_R	164_R	0.538	1.00
132_Q	174_L	0.537	1.00
228_R	242_P	0.536	1.00
278_I	339_L	0.532	1.00
168_T	172_A	0.531	1.00
230_A	242_P	0.530	1.00
22_R	26_L	0.530	1.00
25_L	28_T	0.530	1.00
68_V	215_R	0.529	1.00
53_D	256_A	0.528	1.00
59_G	253_W	0.528	1.00
96_D	215_R	0.527	1.00
95_T	214_E	0.527	1.00
323_I	343_V	0.527	1.00
296_T	317_Q	0.527	1.00
108_L	202_A	0.526	1.00
142_D	166_A	0.526	1.00
272_V	345_V	0.524	1.00
73_T	233_P	0.522	1.00
139_A	142_D	0.522	1.00
146_R	150_G	0.521	1.00
68_V	97_A	0.520	1.00
125_L	129_I	0.520	1.00
138_K	166_A	0.520	1.00
39_G	44_L	0.519	1.00
123_K	127_A	0.518	1.00
276_T	285_Y	0.518	1.00
254_V	325_L	0.518	1.00
207_R	211_L	0.518	1.00
86_G	219_I	0.516	1.00
130_E	134_I	0.516	1.00
106_T	109_A	0.516	1.00
257_N	299_A	0.515	1.00
197_P	200_Q	0.513	1.00
75_V	229_R	0.511	1.00
262_Q	265_N	0.507	1.00
72_V	75_V	0.507	1.00
180_Q	184_N	0.507	1.00
125_L	177_A	0.507	1.00
258_F	343_V	0.505	1.00
272_V	343_V	0.504	1.00
161_Q	165_D	0.504	1.00
277_D	342_L	0.503	1.00
115_T	121_N	0.502	1.00
336_R	339_L	0.501	1.00
128_N	177_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
4dk0A	5	0.7718	100	0.344	Contact Map
3fppA	3	0.6744	100	0.354	Contact Map
4tkoB	1	0.7179	100	0.37	Contact Map
3lnnA	6	0.7974	100	0.401	Contact Map
1vf7A	5	0.5769	100	0.423	Contact Map
2f1mA	2	0.5974	100	0.436	Contact Map
4l8jA	2	0.7231	100	0.436	Contact Map
3ne5B	3	0.6564	100	0.439	Contact Map
4kkuA	1	0.5615	100	0.494	Contact Map
2k32A	1	0.2949	99.8	0.704	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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