YVRP - BACSU - GREMLIN Contacts

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YVRP - Putative efflux system protein YvrP

UniProt:	O35007	Sequences: MSKKKKWLIGGAICAGVLVLAGIGAGGFYFFTHMNQVAVSSEPYAESVAVYMGGDSESGQTFSGKVEPEKQQKVYIDSEKGSIKKTYVKEGDQVKKGDKLFEYEGEDHSDEVEQANLQIEMTNLQINRLQKSITETEKKLKVAGKEEKNQLQDELDQTNFDLKTSQLELKQHQKELAGLTKNKGSNVITSKHDGIVQSVNQDIADGATGDQAAGPYIQIVSTGKYLVKSQINELLMDTIKKGSKVRVTLKTGGEGEWKGKVTSIGKLPAGAGEGEESESFADEEMNPQSSNYPFTILLDSHKGLEVGYHVNIEVMSDNADADTIKLPSDMVIQDDGEPYVWKADENHKAVKQPVEIGETDENDMVEIKSGLTPEDYVIYPDPAVKEGKQVTVNADTE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	397 (346)
Sequences:	21753 (17297)
Seq/√Len:	929.9

ECOLI - ACRA ACRE MDTE MDTA MACA CUSB EMRK EMRA AAEA YIBH YDHJ YHII YIAV 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
85_K	102_E	3.104	1.00
99_K	187_V	2.966	1.00
355_E	369_S	2.780	1.00
339_Y	351_K	2.710	1.00
50_V	376_Y	2.709	1.00
344_D	350_V	2.672	1.00
95_K	193_D	2.600	1.00
352_Q	375_D	2.464	1.00
342_K	352_Q	2.375	1.00
337_E	353_P	2.323	1.00
67_E	228_K	2.318	1.00
328_S	365_V	2.265	1.00
53_G	373_P	2.227	1.00
325_K	364_M	2.174	1.00
262_T	297_L	2.170	1.00
116_N	180_T	2.165	1.00
244_K	258_K	2.164	1.00
102_E	187_V	2.164	1.00
130_Q	134_T	2.141	1.00
259_G	296_I	2.123	1.00
137_E	141_K	2.112	1.00
54_G	364_M	2.089	1.00
95_K	98_D	2.053	1.00
87_Y	102_E	2.040	1.00
159_N	163_K	2.008	1.00
53_G	322_D	2.003	1.00
99_K	189_T	1.988	1.00
77_D	185_S	1.954	1.00
54_G	325_K	1.937	1.00
357_G	366_E	1.925	1.00
372_T	375_D	1.919	1.00
87_Y	99_K	1.907	1.00
197_Q	220_V	1.872	1.00
246_R	256_E	1.868	1.00
93_Q	195_I	1.867	1.00
229_S	312_I	1.862	1.00
123_N	173_Q	1.853	1.00
246_R	258_K	1.829	1.00
348_K	389_Q	1.814	1.00
163_K	166_Q	1.809	1.00
105_G	109_S	1.779	1.00
28_F	31_F	1.774	1.00
350_V	386_E	1.768	1.00
170_K	173_Q	1.768	1.00
66_V	227_V	1.761	1.00
228_K	293_P	1.749	1.00
121_M	168_E	1.736	1.00
162_L	166_Q	1.733	1.00
59_G	313_E	1.701	1.00
356_I	365_V	1.701	1.00
355_E	368_K	1.684	1.00
120_E	123_N	1.680	1.00
245_V	296_I	1.677	1.00
152_Q	156_D	1.671	1.00
96_K	193_D	1.669	1.00
135_E	139_K	1.654	1.00
357_G	368_K	1.651	1.00
113_E	116_N	1.650	1.00
130_Q	166_Q	1.641	1.00
112_V	176_L	1.628	1.00
229_S	296_I	1.626	1.00
226_L	295_T	1.615	1.00
136_T	150_Q	1.604	1.00
136_T	158_T	1.587	1.00
83_I	201_Q	1.578	1.00
70_K	221_S	1.566	1.00
349_A	378_I	1.559	1.00
133_I	137_E	1.548	1.00
73_K	215_P	1.539	1.00
343_A	390_V	1.537	1.00
319_A	366_E	1.533	1.00
137_E	159_N	1.518	1.00
119_I	176_L	1.516	1.00
51_Y	374_E	1.498	1.00
358_E	366_E	1.498	1.00
177_A	180_T	1.480	1.00
55_D	321_A	1.478	1.00
249_L	310_V	1.472	1.00
51_Y	324_I	1.467	1.00
342_K	375_D	1.462	1.00
119_I	123_N	1.451	1.00
83_I	101_F	1.448	1.00
227_V	310_V	1.447	1.00
45_A	391_T	1.442	1.00
333_Q	338_P	1.439	1.00
340_V	354_V	1.429	1.00
127_N	130_Q	1.426	1.00
66_V	225_Y	1.423	1.00
123_N	127_N	1.419	1.00
81_G	103_Y	1.418	1.00
244_K	260_K	1.416	1.00
328_S	363_D	1.413	1.00
27_G	31_F	1.409	1.00
89_K	92_D	1.404	1.00
230_Q	293_P	1.392	1.00
155_L	159_N	1.387	1.00
169_L	173_Q	1.386	1.00
142_V	149_N	1.383	1.00
134_T	137_E	1.382	1.00
61_T	313_E	1.373	1.00
61_T	311_N	1.371	1.00
128_R	132_S	1.365	1.00
47_S	379_Y	1.364	1.00
140_L	152_Q	1.363	1.00
109_S	113_E	1.349	1.00
126_I	130_Q	1.341	1.00
232_N	235_L	1.340	1.00
84_K	104_E	1.337	1.00
48_V	343_A	1.331	1.00
246_R	313_E	1.326	1.00
100_L	217_I	1.323	1.00
173_Q	177_A	1.323	1.00
268_P	292_Y	1.320	1.00
48_V	376_Y	1.314	1.00
119_I	169_L	1.313	1.00
133_I	155_L	1.311	1.00
71_Q	218_Q	1.303	1.00
166_Q	170_K	1.296	1.00
326_L	377_V	1.293	1.00
126_I	162_L	1.287	1.00
221_S	224_K	1.285	1.00
109_S	183_K	1.277	1.00
25_A	29_Y	1.274	1.00
344_D	348_K	1.274	1.00
55_D	322_D	1.270	1.00
196_V	217_I	1.257	1.00
269_A	288_Q	1.250	1.00
121_M	125_Q	1.238	1.00
116_N	120_E	1.234	1.00
190_S	219_I	1.234	1.00
114_Q	175_E	1.233	1.00
246_R	315_M	1.233	1.00
334_D	351_K	1.230	1.00
324_I	373_P	1.210	1.00
323_T	366_E	1.204	1.00
108_H	186_N	1.197	1.00
154_E	157_Q	1.190	1.00
248_T	313_E	1.190	1.00
318_N	321_A	1.189	1.00
260_K	297_L	1.187	1.00
134_T	138_K	1.183	1.00
140_L	155_L	1.181	1.00
224_K	297_L	1.181	1.00
73_K	218_Q	1.179	1.00
354_V	367_I	1.172	1.00
248_T	256_E	1.172	1.00
126_I	169_L	1.169	1.00
130_Q	162_L	1.160	1.00
127_N	131_K	1.147	1.00
247_V	298_L	1.143	1.00
198_S	218_Q	1.142	1.00
112_V	116_N	1.142	1.00
132_S	136_T	1.139	1.00
101_F	217_I	1.136	1.00
126_I	166_Q	1.135	1.00
99_K	102_E	1.133	1.00
338_P	356_I	1.129	1.00
85_K	203_I	1.117	1.00
127_N	163_K	1.116	1.00
118_Q	121_M	1.113	1.00
263_S	295_T	1.113	1.00
88_V	98_D	1.110	1.00
228_K	295_T	1.109	1.00
199_V	202_D	1.109	1.00
180_T	184_G	1.106	1.00
227_V	312_I	1.102	1.00
178_G	182_N	1.090	1.00
199_V	217_I	1.085	1.00
252_G	257_W	1.083	1.00
112_V	180_T	1.081	1.00
328_S	359_T	1.078	1.00
101_F	188_I	1.076	1.00
161_D	165_S	1.075	1.00
343_A	376_Y	1.065	1.00
153_D	157_Q	1.063	1.00
24_G	28_F	1.062	1.00
157_Q	161_D	1.059	1.00
111_E	114_Q	1.059	1.00
90_E	198_S	1.058	1.00
133_I	159_N	1.056	1.00
265_G	293_P	1.050	1.00
360_D	363_D	1.048	1.00
342_K	350_V	1.044	1.00
125_Q	128_R	1.042	1.00
138_K	141_K	1.038	1.00
69_E	224_K	1.037	1.00
236_M	292_Y	1.037	1.00
114_Q	118_Q	1.037	1.00
89_K	199_V	1.035	1.00
119_I	173_Q	1.035	1.00
227_V	247_V	1.021	1.00
176_L	180_T	1.021	1.00
133_I	162_L	1.021	1.00
77_D	82_S	1.017	1.00
123_N	169_L	1.013	1.00
261_V	296_I	1.012	1.00
249_L	252_G	1.010	1.00
125_Q	168_E	1.008	1.00
72_Q	192_H	1.005	1.00
50_V	374_E	1.004	1.00
156_D	159_N	1.001	1.00
331_V	365_V	0.991	1.00
105_G	186_N	0.988	1.00
269_A	287_P	0.981	1.00
235_L	238_T	0.980	1.00
83_I	207_A	0.980	1.00
345_E	350_V	0.979	1.00
331_V	338_P	0.978	1.00
66_V	310_V	0.977	1.00
122_T	172_H	0.975	1.00
86_T	203_I	0.972	1.00
359_T	365_V	0.970	1.00
138_K	142_V	0.968	1.00
260_K	299_D	0.965	1.00
269_A	289_S	0.962	1.00
342_K	345_E	0.955	1.00
65_K	290_S	0.954	1.00
84_K	102_E	0.951	1.00
57_E	315_M	0.950	1.00
347_H	389_Q	0.937	1.00
360_D	364_M	0.936	1.00
226_L	297_L	0.936	1.00
129_L	165_S	0.933	1.00
66_V	304_L	0.931	1.00
26_G	30_F	0.930	1.00
120_E	170_K	0.928	1.00
161_D	164_T	0.928	1.00
76_I	188_I	0.927	1.00
137_E	155_L	0.926	1.00
248_T	311_N	0.915	1.00
88_V	217_I	0.913	1.00
116_N	176_L	0.913	1.00
190_S	193_D	0.911	1.00
132_S	157_Q	0.906	1.00
111_E	182_N	0.904	1.00
224_K	299_D	0.903	1.00
57_E	318_N	0.901	1.00
26_G	29_Y	0.900	1.00
69_E	226_L	0.895	1.00
27_G	30_F	0.889	1.00
207_A	216_Y	0.884	1.00
252_G	255_G	0.884	1.00
341_W	386_E	0.883	1.00
79_E	208_T	0.882	1.00
122_T	165_S	0.880	1.00
148_K	152_Q	0.872	1.00
58_S	238_T	0.864	1.00
125_Q	164_T	0.863	1.00
26_G	31_F	0.861	1.00
78_S	108_H	0.860	1.00
44_Y	388_K	0.860	1.00
200_N	215_P	0.859	1.00
93_Q	193_D	0.855	1.00
59_G	315_M	0.853	1.00
115_A	172_H	0.849	1.00
93_Q	303_G	0.847	1.00
101_F	199_V	0.847	1.00
261_V	294_F	0.845	1.00
113_E	177_A	0.845	1.00
92_D	98_D	0.844	1.00
194_G	219_I	0.844	1.00
315_M	318_N	0.842	1.00
351_K	386_E	0.842	1.00
101_F	216_Y	0.838	1.00
55_D	318_N	0.835	1.00
168_E	172_H	0.833	1.00
378_I	384_V	0.830	1.00
192_H	219_I	0.827	1.00
326_L	340_V	0.826	1.00
168_E	171_Q	0.825	1.00
319_A	323_T	0.825	1.00
343_A	349_A	0.821	1.00
334_D	337_E	0.821	1.00
343_A	347_H	0.821	1.00
357_G	365_V	0.815	1.00
208_T	214_G	0.813	1.00
88_V	199_V	0.812	1.00
118_Q	175_E	0.812	1.00
117_L	174_K	0.802	1.00
106_E	181_K	0.801	1.00
200_N	218_Q	0.798	1.00
84_K	105_G	0.792	1.00
68_P	306_V	0.792	1.00
247_V	259_G	0.792	1.00
53_G	324_I	0.789	1.00
181_K	185_S	0.788	1.00
136_T	139_K	0.782	1.00
367_I	371_L	0.781	1.00
28_F	32_T	0.779	1.00
79_E	212_A	0.779	1.00
111_E	178_G	0.776	1.00
181_K	184_G	0.775	1.00
341_W	351_K	0.770	1.00
122_T	125_Q	0.770	1.00
102_E	105_G	0.769	1.00
225_Y	306_V	0.769	1.00
88_V	196_V	0.769	1.00
248_T	254_E	0.764	1.00
208_T	212_A	0.764	1.00
339_Y	353_P	0.762	1.00
332_I	339_Y	0.757	1.00
52_M	373_P	0.755	1.00
56_S	360_D	0.753	1.00
70_K	203_I	0.753	1.00
31_F	34_M	0.751	1.00
105_G	187_V	0.751	1.00
118_Q	122_T	0.746	1.00
76_I	207_A	0.743	1.00
352_Q	372_T	0.743	1.00
240_K	243_S	0.742	1.00
165_S	169_L	0.741	1.00
49_A	327_P	0.741	1.00
231_I	294_F	0.740	1.00
343_A	378_I	0.737	1.00
76_I	101_F	0.736	1.00
349_A	390_V	0.735	1.00
49_A	52_M	0.735	1.00
349_A	384_V	0.734	1.00
58_S	317_D	0.734	1.00
159_N	162_L	0.733	1.00
136_T	154_E	0.733	1.00
67_E	226_L	0.731	1.00
23_I	26_G	0.728	1.00
86_T	101_F	0.727	1.00
82_S	206_G	0.727	1.00
229_S	314_V	0.726	1.00
300_S	303_G	0.724	1.00
231_I	239_I	0.722	1.00
128_R	131_K	0.718	1.00
90_E	199_V	0.717	1.00
132_S	153_D	0.716	1.00
46_E	378_I	0.713	1.00
344_D	347_H	0.712	1.00
385_K	388_K	0.712	1.00
319_A	322_D	0.709	1.00
77_D	107_D	0.708	1.00
357_G	370_G	0.707	1.00
131_K	134_T	0.706	1.00
123_N	126_I	0.704	1.00
341_W	349_A	0.703	1.00
29_Y	32_T	0.702	1.00
74_V	191_K	0.702	1.00
111_E	115_A	0.701	1.00
175_E	179_L	0.699	1.00
69_E	297_L	0.698	1.00
329_D	379_Y	0.698	1.00
69_E	221_S	0.695	1.00
160_F	164_T	0.694	1.00
125_Q	129_L	0.694	1.00
43_P	391_T	0.693	1.00
112_V	183_K	0.690	1.00
250_K	311_N	0.690	1.00
165_S	168_E	0.688	1.00
345_E	375_D	0.687	1.00
31_F	35_N	0.682	1.00
43_P	389_Q	0.680	1.00
345_E	352_Q	0.680	1.00
24_G	27_G	0.679	1.00
64_G	310_V	0.678	1.00
264_I	294_F	0.678	1.00
340_V	377_V	0.673	1.00
60_Q	235_L	0.670	1.00
345_E	348_K	0.668	1.00
139_K	142_V	0.667	1.00
164_T	168_E	0.667	1.00
70_K	202_D	0.666	1.00
93_Q	222_T	0.666	1.00
356_I	367_I	0.665	1.00
158_T	161_D	0.664	1.00
352_Q	370_G	0.664	1.00
262_T	295_T	0.663	1.00
111_E	179_L	0.662	1.00
334_D	339_Y	0.661	1.00
249_L	304_L	0.658	1.00
83_I	216_Y	0.657	1.00
150_Q	154_E	0.656	1.00
115_A	118_Q	0.656	1.00
269_A	293_P	0.654	1.00
364_M	368_K	0.652	1.00
51_Y	371_L	0.649	1.00
251_T	255_G	0.649	1.00
247_V	312_I	0.648	1.00
51_Y	375_D	0.648	1.00
62_F	229_S	0.647	1.00
326_L	330_M	0.646	1.00
179_L	182_N	0.646	1.00
341_W	384_V	0.643	1.00
60_Q	316_S	0.642	1.00
152_Q	159_N	0.638	1.00
79_E	206_G	0.637	1.00
241_K	264_I	0.636	1.00
195_I	222_T	0.632	1.00
244_K	315_M	0.631	1.00
70_K	192_H	0.630	1.00
128_R	160_F	0.629	1.00
251_T	254_E	0.627	1.00
110_D	181_K	0.627	1.00
52_M	364_M	0.625	1.00
62_F	235_L	0.624	1.00
25_A	31_F	0.624	1.00
62_F	231_I	0.622	1.00
49_A	364_M	0.618	1.00
154_E	158_T	0.616	1.00
148_K	151_L	0.616	1.00
110_D	174_K	0.612	1.00
72_Q	191_K	0.612	1.00
115_A	179_L	0.612	1.00
71_Q	220_V	0.608	1.00
118_Q	171_Q	0.605	1.00
24_G	31_F	0.604	1.00
340_V	370_G	0.599	1.00
347_H	376_Y	0.598	1.00
171_Q	175_E	0.597	1.00
326_L	331_V	0.595	1.00
226_L	262_T	0.595	1.00
132_S	161_D	0.595	1.00
330_M	377_V	0.594	1.00
115_A	119_I	0.594	1.00
25_A	28_F	0.591	1.00
140_L	148_K	0.590	1.00
225_Y	300_S	0.589	1.00
182_N	185_S	0.586	1.00
151_L	154_E	0.586	1.00
107_D	182_N	0.583	1.00
223_G	303_G	0.583	1.00
94_V	100_L	0.581	1.00
324_I	370_G	0.580	1.00
305_E	308_Y	0.580	1.00
342_K	377_V	0.579	1.00
23_I	27_G	0.578	1.00
67_E	71_Q	0.578	1.00
74_V	217_I	0.577	1.00
62_F	314_V	0.577	1.00
75_Y	215_P	0.576	1.00
150_Q	155_L	0.575	1.00
128_R	157_Q	0.574	1.00
120_E	124_L	0.573	1.00
292_Y	308_Y	0.573	1.00
33_H	36_Q	0.572	1.00
19_V	22_G	0.572	1.00
105_G	183_K	0.572	1.00
247_V	296_I	0.570	1.00
41_S	389_Q	0.570	1.00
184_G	189_T	0.568	1.00
201_Q	205_D	0.568	1.00
179_L	183_K	0.567	1.00
327_P	330_M	0.567	1.00
230_Q	291_N	0.567	1.00
68_P	71_Q	0.567	1.00
124_L	167_L	0.566	1.00
56_S	358_E	0.566	1.00
139_K	151_L	0.566	1.00
162_L	165_S	0.565	1.00
88_V	92_D	0.564	1.00
149_N	153_D	0.564	1.00
84_K	87_Y	0.564	1.00
62_F	312_I	0.563	1.00
230_Q	269_A	0.563	1.00
117_L	167_L	0.561	1.00
68_P	220_V	0.559	1.00
175_E	178_G	0.555	1.00
172_H	175_E	0.554	1.00
58_S	316_S	0.554	1.00
223_G	301_H	0.552	1.00
132_S	135_E	0.552	1.00
49_A	326_L	0.550	1.00
233_E	309_H	0.550	1.00
73_K	205_D	0.550	1.00
22_G	26_G	0.550	1.00
135_E	156_D	0.548	1.00
64_G	227_V	0.548	1.00
245_V	314_V	0.547	1.00
133_I	140_L	0.545	1.00
343_A	346_N	0.544	1.00
139_K	149_N	0.542	1.00
81_G	207_A	0.542	1.00
332_I	341_W	0.541	1.00
17_V	31_F	0.541	1.00
345_E	376_Y	0.540	1.00
53_G	372_T	0.540	1.00
169_L	172_H	0.539	1.00
268_P	290_S	0.539	1.00
174_K	177_A	0.538	1.00
131_K	156_D	0.538	1.00
257_W	304_L	0.538	1.00
118_Q	172_H	0.537	1.00
227_V	298_L	0.536	1.00
76_I	216_Y	0.533	1.00
58_S	358_E	0.533	1.00
371_L	375_D	0.532	1.00
34_M	37_V	0.532	1.00
220_V	306_V	0.532	1.00
140_L	150_Q	0.529	1.00
50_V	53_G	0.528	1.00
242_G	260_K	0.525	1.00
122_T	126_I	0.525	1.00
74_V	192_H	0.525	1.00
72_Q	219_I	0.524	1.00
87_Y	98_D	0.523	1.00
125_Q	161_D	0.523	1.00
56_S	366_E	0.523	1.00
49_A	53_G	0.519	1.00
135_E	142_V	0.519	1.00
208_T	213_A	0.517	1.00
86_T	199_V	0.516	1.00
109_S	112_V	0.515	1.00
97_G	189_T	0.514	1.00
233_E	290_S	0.512	1.00
325_K	366_E	0.512	1.00
56_S	325_K	0.512	1.00
66_V	249_L	0.511	1.00
201_Q	216_Y	0.510	1.00
239_I	261_V	0.508	1.00
215_P	218_Q	0.507	1.00
32_T	35_N	0.504	1.00
384_V	390_V	0.501	1.00
220_V	266_K	0.501	1.00
112_V	179_L	0.501	1.00
229_S	245_V	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
3lnnA	6	0.8262	100	0.283	Contact Map
1vf7A	5	0.5668	100	0.288	Contact Map
4dk0A	5	0.7708	100	0.29	Contact Map
3fppA	3	0.6272	100	0.304	Contact Map
3ne5B	3	0.7783	100	0.308	Contact Map
4l8jA	2	0.7884	100	0.315	Contact Map
4kkuA	1	0.6423	100	0.36	Contact Map
2f1mA	2	0.5844	100	0.426	Contact Map
4tkoB	1	0.5844	100	0.5	Contact Map
2k32A	1	0.2897	99.8	0.72	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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