ACRA - ECOLI - GREMLIN Contacts

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ACRA - Multidrug efflux pump subunit AcrA

UniProt:	P0AE06	Sequences: MNKNRGFTPLAVVLMLSGSLALTGCDDKQAQQGGQQMPAVGVVTVKTEPLQITTELPGRTSAYRIAEVRPQVSGIILKRNFKEGSDIEAGVSLYQIDPATYQATYDSAKGDLAKAQAAANIAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTAAKAAVETARINLAYTKVTSPISGRIGKSNVTEGALVQNGQATALATVQQLDPIYVDVTQSSNDFLRLKQELANGTLKQENGKAKVSLITSDGIKFPQDGTLEFSDVTVDQTTGSITLRAIFPNPDHTLLPGMFVRARLEEGLNPNAILVPQQGVTRTPRGDATVLVVGADDKVETRPIVASQAIGDKWLVTEGLKAGDRVVISGLQKVRPGVQVKAQEVTADNNQQAASGAQPEQSKS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11703
Length:	397 (349)
Sequences:	21936 (17449)
Seq/√Len:	934.0

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
78_K	95_Q	3.115	1.00
92_S	175_K	2.947	1.00
338_V	351_E	2.776	1.00
44_T	358_R	2.709	1.00
327_G	333_E	2.672	1.00
322_T	334_T	2.585	1.00
88_E	181_S	2.557	1.00
335_R	357_D	2.430	1.00
325_V	335_R	2.367	1.00
61_S	215_D	2.354	1.00
123_Q	127_N	2.310	1.00
310_Q	347_W	2.282	1.00
261_E	279_I	2.215	1.00
47_T	355_A	2.213	1.00
258_G	278_A	2.174	1.00
307_L	346_K	2.166	1.00
95_Q	175_K	2.158	1.00
109_K	168_R	2.147	1.00
129_Y	138_I	2.095	1.00
48_E	346_K	2.088	1.00
130_Q	134_G	2.083	1.00
80_N	95_Q	2.075	1.00
147_L	151_Q	2.074	1.00
241_K	257_D	2.068	1.00
47_T	304_N	2.041	1.00
71_Q	173_Y	2.034	1.00
98_P	102_Q	2.033	1.00
88_E	91_V	2.031	1.00
92_S	177_T	1.976	1.00
129_Y	146_A	1.920	1.00
354_K	357_D	1.911	1.00
48_E	307_L	1.902	1.00
340_S	348_L	1.890	1.00
130_Q	147_L	1.888	1.00
80_N	92_S	1.876	1.00
252_I	286_T	1.856	1.00
243_K	257_D	1.847	1.00
86_D	183_R	1.828	1.00
216_V	295_A	1.824	1.00
243_K	253_K	1.801	1.00
140_K	144_D	1.787	1.00
133_L	143_Y	1.782	1.00
60_T	214_V	1.746	1.00
333_E	369_P	1.737	1.00
113_A	116_Q	1.735	1.00
185_G	207_Q	1.735	1.00
215_D	275_T	1.716	1.00
331_K	372_Q	1.716	1.00
22_L	25_C	1.687	1.00
339_A	347_W	1.686	1.00
53_T	296_R	1.686	1.00
89_A	181_S	1.683	1.00
150_A	154_N	1.673	1.00
121_I	125_T	1.667	1.00
338_V	350_T	1.663	1.00
213_Y	277_R	1.656	1.00
116_Q	161_K	1.635	1.00
332_V	360_V	1.631	1.00
340_S	350_T	1.629	1.00
123_Q	154_N	1.628	1.00
133_L	140_K	1.619	1.00
242_A	278_A	1.615	1.00
158_T	161_K	1.611	1.00
106_D	109_K	1.597	1.00
76_I	189_V	1.593	1.00
119_A	150_A	1.587	1.00
216_V	278_A	1.577	1.00
241_K	259_T	1.557	1.00
326_V	373_V	1.555	1.00
126_V	130_Q	1.545	1.00
319_G	336_P	1.533	1.00
67_E	202_A	1.519	1.00
151_Q	154_N	1.500	1.00
341_Q	348_L	1.500	1.00
64_R	208_Q	1.492	1.00
76_I	94_Y	1.487	1.00
21_A	25_C	1.478	1.00
114_K	156_A	1.476	1.00
316_T	334_T	1.475	1.00
45_V	306_I	1.473	1.00
315_R	321_A	1.469	1.00
325_V	357_D	1.467	1.00
142_E	145_Q	1.459	1.00
82_K	85_S	1.455	1.00
323_V	337_I	1.454	1.00
120_N	123_Q	1.450	1.00
123_Q	150_A	1.448	1.00
60_T	212_I	1.443	1.00
214_V	293_V	1.442	1.00
45_V	356_G	1.425	1.00
65_I	205_T	1.416	1.00
55_E	296_R	1.407	1.00
208_Q	211_P	1.404	1.00
49_P	303_P	1.394	1.00
246_L	293_V	1.388	1.00
217_T	275_T	1.386	1.00
310_Q	345_D	1.384	1.00
126_V	143_Y	1.384	1.00
55_E	294_R	1.378	1.00
119_A	123_Q	1.376	1.00
165_E	168_R	1.371	1.00
112_L	116_Q	1.370	1.00
41_G	362_S	1.368	1.00
126_V	150_A	1.364	1.00
267_V	274_I	1.359	1.00
105_Y	164_V	1.354	1.00
145_Q	149_D	1.349	1.00
112_L	164_V	1.347	1.00
302_N	348_L	1.340	1.00
77_L	97_D	1.337	1.00
42_V	375_A	1.336	1.00
143_Y	147_L	1.327	1.00
93_L	204_A	1.324	1.00
308_V	359_V	1.322	1.00
74_G	96_I	1.318	1.00
39_A	374_K	1.315	1.00
219_S	222_D	1.313	1.00
120_N	124_L	1.296	1.00
114_K	118_A	1.296	1.00
42_V	326_V	1.294	1.00
102_Q	171_L	1.291	1.00
327_G	331_K	1.290	1.00
42_V	358_R	1.288	1.00
243_K	298_E	1.285	1.00
154_N	158_T	1.270	1.00
127_N	130_Q	1.270	1.00
43_V	361_I	1.265	1.00
102_Q	106_D	1.262	1.00
184_I	204_A	1.262	1.00
22_L	26_D	1.259	1.00
305_A	348_L	1.256	1.00
49_P	304_N	1.256	1.00
243_K	296_R	1.248	1.00
116_Q	120_N	1.241	1.00
161_K	165_E	1.237	1.00
178_S	206_V	1.224	1.00
196_Q	199_Q	1.219	1.00
259_T	279_I	1.216	1.00
245_S	296_R	1.211	1.00
211_P	279_I	1.208	1.00
126_V	147_L	1.206	1.00
166_T	170_N	1.199	1.00
101_Y	174_T	1.193	1.00
306_I	355_A	1.188	1.00
73_S	197_N	1.187	1.00
67_E	205_T	1.186	1.00
245_S	253_K	1.186	1.00
186_K	205_T	1.180	1.00
92_S	95_Q	1.167	1.00
112_L	157_V	1.164	1.00
168_R	172_A	1.158	1.00
262_F	277_R	1.155	1.00
337_I	349_V	1.151	1.00
111_D	114_K	1.148	1.00
120_N	151_Q	1.144	1.00
94_Y	204_A	1.141	1.00
105_Y	109_K	1.141	1.00
214_V	295_A	1.132	1.00
78_K	191_E	1.128	1.00
81_F	91_V	1.126	1.00
187_S	204_A	1.115	1.00
187_S	190_T	1.112	1.00
131_K	135_T	1.112	1.00
215_D	277_R	1.104	1.00
244_V	280_F	1.098	1.00
125_T	129_Y	1.097	1.00
127_N	131_K	1.091	1.00
223_F	274_I	1.089	1.00
321_A	339_A	1.084	1.00
119_A	154_N	1.080	1.00
264_D	275_T	1.071	1.00
326_V	358_R	1.068	1.00
82_K	187_S	1.067	1.00
63_Y	211_P	1.065	1.00
343_I	346_K	1.063	1.00
164_V	168_R	1.062	1.00
157_V	161_K	1.061	1.00
122_A	153_A	1.061	1.00
310_Q	342_A	1.059	1.00
141_Q	145_Q	1.058	1.00
260_L	278_A	1.054	1.00
128_R	144_D	1.052	1.00
131_K	134_G	1.052	1.00
94_Y	176_V	1.051	1.00
325_V	333_E	1.051	1.00
71_Q	75_I	1.045	1.00
83_E	186_K	1.043	1.00
313_V	347_W	1.041	1.00
59_R	272_G	1.038	1.00
130_Q	143_Y	1.035	1.00
222_D	225_R	1.028	1.00
105_Y	168_R	1.024	1.00
76_I	195_V	1.021	1.00
104_T	107_S	1.020	1.00
214_V	244_V	1.018	1.00
98_P	174_T	1.016	1.00
125_T	145_Q	1.015	1.00
149_D	153_A	1.013	1.00
60_T	287_L	1.007	1.00
147_L	150_A	1.005	1.00
107_S	163_A	1.003	1.00
44_T	356_G	1.000	1.00
342_A	347_W	0.995	1.00
109_K	113_A	0.993	1.00
313_V	321_A	0.993	1.00
70_P	176_V	0.992	1.00
60_T	293_V	0.989	1.00
213_Y	279_I	0.988	1.00
79_R	191_E	0.981	1.00
282_N	285_H	0.977	1.00
325_V	328_A	0.972	1.00
328_A	333_E	0.972	1.00
51_Q	298_E	0.967	1.00
77_L	95_Q	0.967	1.00
249_S	254_F	0.965	1.00
195_V	203_L	0.961	1.00
25_C	28_K	0.945	1.00
259_T	281_P	0.944	1.00
330_D	372_Q	0.936	1.00
136_Q	140_K	0.930	1.00
63_Y	213_Y	0.929	1.00
211_P	281_P	0.925	1.00
178_S	181_S	0.924	1.00
66_A	180_I	0.914	1.00
324_L	369_P	0.910	1.00
144_D	147_L	0.906	1.00
116_Q	157_V	0.905	1.00
268_D	271_T	0.902	1.00
51_Q	301_L	0.902	1.00
19_S	23_T	0.898	1.00
119_A	157_V	0.898	1.00
149_D	152_Q	0.896	1.00
129_Y	142_E	0.894	1.00
118_A	152_Q	0.893	1.00
81_F	204_A	0.891	1.00
115_A	118_A	0.888	1.00
308_V	323_V	0.883	1.00
107_S	111_D	0.882	1.00
81_F	187_S	0.881	1.00
188_N	202_A	0.881	1.00
86_D	285_H	0.880	1.00
334_T	369_P	0.876	1.00
326_V	330_D	0.875	1.00
245_S	294_R	0.874	1.00
73_S	196_Q	0.869	1.00
53_T	298_E	0.869	1.00
156_A	160_A	0.868	1.00
86_D	181_S	0.864	1.00
326_V	332_V	0.862	1.00
94_Y	187_S	0.860	1.00
111_D	163_A	0.858	1.00
180_I	206_V	0.858	1.00
20_L	24_G	0.856	1.00
118_A	121_I	0.856	1.00
62_A	289_P	0.855	1.00
49_P	301_L	0.854	1.00
94_Y	203_L	0.854	1.00
260_L	276_L	0.850	1.00
52_I	225_R	0.850	1.00
85_S	91_V	0.848	1.00
47_T	306_I	0.845	1.00
108_A	160_A	0.840	1.00
72_V	101_Y	0.840	1.00
182_G	206_V	0.840	1.00
340_S	347_W	0.838	1.00
298_E	301_L	0.838	1.00
360_V	367_V	0.837	1.00
121_I	148_A	0.836	1.00
115_A	160_A	0.834	1.00
38_P	371_V	0.833	1.00
316_T	322_T	0.830	1.00
104_T	170_N	0.825	1.00
124_L	127_N	0.821	1.00
167_A	170_N	0.819	1.00
218_Q	276_L	0.812	1.00
81_F	184_I	0.810	1.00
118_A	156_A	0.809	1.00
109_K	164_V	0.807	1.00
99_A	169_I	0.807	1.00
106_D	165_E	0.806	1.00
95_Q	98_P	0.804	1.00
169_I	172_A	0.804	1.00
77_L	98_P	0.804	1.00
188_N	205_T	0.803	1.00
160_A	163_A	0.800	1.00
43_V	309_P	0.800	1.00
314_T	322_T	0.799	1.00
18_G	22_L	0.799	1.00
46_K	355_A	0.790	1.00
212_I	289_P	0.788	1.00
124_L	144_D	0.788	1.00
125_T	141_Q	0.787	1.00
302_N	305_A	0.786	1.00
50_L	343_I	0.786	1.00
332_V	373_V	0.786	1.00
118_A	122_A	0.784	1.00
121_I	145_Q	0.783	1.00
169_I	173_Y	0.783	1.00
121_I	124_L	0.781	1.00
20_L	25_C	0.781	1.00
146_A	149_D	0.780	1.00
228_Q	240_G	0.776	1.00
43_V	46_K	0.769	1.00
115_A	153_A	0.769	1.00
335_R	354_K	0.769	1.00
112_L	161_K	0.765	1.00
218_Q	226_L	0.765	1.00
98_P	175_K	0.764	1.00
118_A	149_D	0.763	1.00
113_A	158_T	0.761	1.00
86_D	209_L	0.760	1.00
70_P	195_V	0.757	1.00
40_V	360_V	0.757	1.00
148_A	152_Q	0.754	1.00
228_Q	263_S	0.754	1.00
23_T	26_D	0.754	1.00
332_V	367_V	0.754	1.00
83_E	187_S	0.754	1.00
70_P	94_Y	0.753	1.00
37_M	372_Q	0.752	1.00
63_Y	279_I	0.751	1.00
61_S	213_Y	0.747	1.00
246_L	249_S	0.747	1.00
349_V	353_L	0.747	1.00
65_I	207_Q	0.746	1.00
227_K	240_G	0.744	1.00
216_V	297_L	0.740	1.00
79_R	94_Y	0.740	1.00
110_G	162_A	0.740	1.00
368_R	371_V	0.739	1.00
21_A	24_G	0.739	1.00
324_L	334_T	0.738	1.00
17_S	20_L	0.736	1.00
167_A	171_L	0.732	1.00
326_V	360_V	0.731	1.00
323_V	359_V	0.727	1.00
322_T	336_P	0.726	1.00
328_A	357_D	0.726	1.00
54_T	222_D	0.725	1.00
104_T	166_T	0.723	1.00
244_V	258_G	0.722	1.00
75_I	194_L	0.721	1.00
52_I	300_G	0.718	1.00
247_I	294_R	0.717	1.00
311_Q	362_S	0.717	1.00
340_S	352_G	0.716	1.00
324_L	332_V	0.716	1.00
328_A	335_R	0.715	1.00
327_G	330_D	0.715	1.00
64_R	190_T	0.705	1.00
63_Y	208_Q	0.704	1.00
20_L	23_T	0.702	1.00
68_V	179_P	0.702	1.00
335_R	352_G	0.700	1.00
69_R	199_Q	0.699	1.00
56_L	216_V	0.696	1.00
244_V	295_A	0.695	1.00
324_L	367_V	0.695	1.00
183_R	209_L	0.693	1.00
76_I	203_L	0.692	1.00
339_A	349_V	0.692	1.00
71_Q	100_T	0.689	1.00
105_Y	171_L	0.689	1.00
64_R	191_E	0.688	1.00
58_G	293_V	0.685	1.00
37_M	374_K	0.685	1.00
358_R	375_A	0.680	1.00
162_A	165_E	0.676	1.00
159_A	163_A	0.675	1.00
312_G	361_I	0.674	1.00
45_V	353_L	0.674	1.00
328_A	331_K	0.673	1.00
111_D	115_A	0.673	1.00
246_L	287_L	0.671	1.00
14_L	18_G	0.669	1.00
104_T	108_A	0.669	1.00
263_S	276_L	0.668	1.00
308_V	312_G	0.666	1.00
13_V	20_L	0.659	1.00
156_A	159_A	0.655	1.00
138_I	142_E	0.655	1.00
45_V	357_D	0.654	1.00
77_L	80_N	0.652	1.00
245_S	251_G	0.647	1.00
69_R	202_A	0.640	1.00
346_K	350_T	0.638	1.00
133_L	138_I	0.638	1.00
43_V	308_V	0.636	1.00
108_A	111_D	0.636	1.00
12_V	19_S	0.632	1.00
54_T	299_E	0.632	1.00
81_F	85_S	0.632	1.00
56_L	218_Q	0.631	1.00
42_V	361_I	0.631	1.00
309_P	312_G	0.629	1.00
73_S	194_L	0.628	1.00
261_E	277_R	0.628	1.00
199_Q	202_A	0.628	1.00
56_L	222_D	0.628	1.00
253_K	296_R	0.627	1.00
288_L	291_M	0.626	1.00
133_L	136_Q	0.625	1.00
330_D	375_A	0.623	1.00
103_A	169_I	0.620	1.00
56_L	297_L	0.620	1.00
64_R	180_I	0.615	1.00
87_I	93_L	0.615	1.00
119_A	126_V	0.614	1.00
68_V	204_A	0.613	1.00
172_A	177_T	0.610	1.00
46_K	346_K	0.610	1.00
213_Y	261_E	0.610	1.00
306_I	352_G	0.607	1.00
43_V	346_K	0.607	1.00
116_Q	119_A	0.603	1.00
210_D	283_P	0.602	1.00
58_G	214_V	0.601	1.00
11_A	25_C	0.600	1.00
189_V	193_A	0.598	1.00
330_D	358_R	0.598	1.00
125_T	149_D	0.598	1.00
67_E	193_A	0.598	1.00
312_G	359_V	0.594	1.00
210_D	285_H	0.594	1.00
244_V	278_A	0.594	1.00
52_I	341_Q	0.594	1.00
11_A	15_M	0.593	1.00
142_E	146_A	0.589	1.00
220_S	292_F	0.588	1.00
50_L	307_L	0.587	1.00
50_L	341_Q	0.587	1.00
325_V	359_V	0.586	1.00
214_V	280_F	0.586	1.00
140_K	147_L	0.584	1.00
139_S	142_E	0.583	1.00
367_V	373_V	0.581	1.00
125_T	146_A	0.578	1.00
274_I	291_M	0.576	1.00
100_T	104_T	0.574	1.00
308_V	313_V	0.570	1.00
61_S	65_I	0.570	1.00
56_L	295_A	0.570	1.00
62_A	207_Q	0.569	1.00
207_Q	289_P	0.568	1.00
100_T	170_N	0.568	1.00
328_A	358_R	0.567	1.00
252_I	284_D	0.566	1.00
241_K	298_E	0.566	1.00
207_Q	265_V	0.566	1.00
104_T	167_A	0.564	1.00
163_A	167_A	0.564	1.00
323_V	352_G	0.562	1.00
108_A	167_A	0.561	1.00
122_A	149_D	0.561	1.00
23_T	27_D	0.559	1.00
59_R	290_G	0.559	1.00
90_G	177_T	0.558	1.00
50_L	348_L	0.558	1.00
314_T	324_L	0.558	1.00
113_A	117_A	0.555	1.00
43_V	47_T	0.554	1.00
44_T	47_T	0.554	1.00
13_V	16_L	0.551	1.00
70_P	203_L	0.550	1.00
18_G	21_A	0.549	1.00
52_I	299_E	0.548	1.00
258_G	280_F	0.548	1.00
212_I	282_N	0.548	1.00
122_A	125_T	0.547	1.00
19_S	22_L	0.544	1.00
153_A	157_V	0.544	1.00
202_A	205_T	0.543	1.00
253_K	257_D	0.543	1.00
115_A	119_A	0.542	1.00
47_T	354_K	0.542	1.00
272_G	292_F	0.541	1.00
36_Q	39_A	0.539	1.00
98_P	171_L	0.539	1.00
244_V	248_T	0.538	1.00
140_K	143_Y	0.534	1.00
46_K	307_L	0.534	1.00
353_L	357_D	0.533	1.00
108_A	112_L	0.532	1.00
163_A	166_T	0.532	1.00
226_L	260_L	0.529	1.00
217_T	268_D	0.529	1.00
209_L	289_P	0.528	1.00
118_A	153_A	0.527	1.00
60_T	246_L	0.527	1.00
307_L	348_L	0.525	1.00
129_Y	132_L	0.525	1.00
117_A	121_I	0.524	1.00
278_A	295_A	0.524	1.00
189_V	195_V	0.524	1.00
101_Y	167_A	0.524	1.00
176_V	203_L	0.523	1.00
123_Q	126_V	0.522	1.00
313_V	337_I	0.522	1.00
110_G	155_A	0.521	1.00
302_N	350_T	0.521	1.00
124_L	148_A	0.519	1.00
316_T	319_G	0.519	1.00
220_S	248_T	0.518	1.00
187_S	191_E	0.518	1.00
153_A	156_A	0.516	1.00
138_I	143_Y	0.516	1.00
122_A	146_A	0.515	1.00
79_R	187_S	0.513	1.00
216_V	276_L	0.512	1.00
109_K	112_L	0.511	1.00
68_V	180_I	0.511	1.00
152_Q	156_A	0.510	1.00
217_T	273_S	0.508	1.00
66_A	206_V	0.507	1.00
11_A	18_G	0.506	1.00
249_S	252_I	0.505	1.00
54_T	297_L	0.505	1.00
128_R	132_L	0.505	1.00
326_V	329_D	0.505	1.00
128_R	141_Q	0.504	1.00
148_A	151_Q	0.504	1.00
228_Q	261_E	0.503	1.00
75_I	97_D	0.501	1.00
189_V	203_L	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
1vf7A	5	0.5995	100	0.271	Contact Map
3lnnA	6	0.8287	100	0.28	Contact Map
4dk0A	5	0.7657	100	0.283	Contact Map
3fppA	3	0.6247	100	0.309	Contact Map
4l8jA	2	0.7909	100	0.311	Contact Map
3ne5B	3	0.7935	100	0.313	Contact Map
4kkuA	1	0.6675	100	0.36	Contact Map
2f1mA	2	0.5919	100	0.42	Contact Map
4tkoB	1	0.5869	100	0.501	Contact Map
2k32A	1	0.2897	99.8	0.717	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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