YKNX - BACSU - GREMLIN Contacts

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YKNX - Putative efflux system component YknX

UniProt:	O31710	Sequences: MKKVWIGIGIAVIVALFVGINIYRSAAPTSGSAGKEVQTGSVEENEISSTVMVPGTLKFSNEQYVFYEADKGTLEDIKVKEGDKVKKGTALVTYTNEQLSLEKEQNQLTSESNRLQIDQIQEKLKALDSKERELEKQVGKKEAEKQIESERTELQMQKKTAEIELKQTELQRQSLANRVSDLEVKSEIEGTVISVNQEAASKKSDIQEPVIHIGNPKDLVVSGKLSEYDTLKVKKGQKVTLTSDVIQGKTWKGTVSAVGLVPDQQESAAAQGTEQAVQYPLQVKIKGNLPEGKPGFKFIMNIETDKRKANTLPSKAVKKEDDQYYVYTVKDGKAKRVDVKIGEVTDDLTEIKEGLTQDDQVILNPSDQVTDGMEVKS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	377 (344)
Sequences:	22589 (18149)
Seq/√Len:	978.5

ECOLI - ACRA ACRE MDTE MDTA MACA CUSB EMRK EMRA YIBH YDHJ AAEA YIAV YHII YBHG MDTN
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
330_K	335_K	3.225	1.00
76_D	93_T	3.024	1.00
90_A	183_E	2.829	1.00
340_K	353_E	2.690	1.00
325_Y	336_R	2.688	1.00
41_S	360_Q	2.681	1.00
86_K	189_E	2.554	1.00
107_Q	176_A	2.416	1.00
20_I	23_Y	2.410	1.00
337_V	359_D	2.368	1.00
328_T	337_V	2.326	1.00
58_K	222_S	2.313	1.00
314_S	349_T	2.282	1.00
256_S	284_K	2.281	1.00
311_T	348_L	2.179	1.00
323_Q	338_D	2.142	1.00
44_E	357_Q	2.139	1.00
238_K	252_K	2.134	1.00
93_T	183_E	2.107	1.00
45_N	348_L	2.093	1.00
253_G	283_V	2.093	1.00
96_N	100_S	2.064	1.00
114_R	169_E	2.054	1.00
44_E	308_K	2.050	1.00
78_K	93_T	2.032	1.00
68_E	181_D	2.004	1.00
86_K	89_T	1.990	1.00
90_A	185_K	1.972	1.00
121_Q	125_K	1.938	1.00
84_K	191_T	1.918	1.00
240_T	252_K	1.899	1.00
240_T	250_T	1.888	1.00
193_I	214_G	1.884	1.00
128_D	132_R	1.884	1.00
249_K	291_E	1.873	1.00
45_N	311_T	1.873	1.00
78_K	90_A	1.870	1.00
103_K	172_R	1.868	1.00
356_T	359_D	1.854	1.00
342_G	350_E	1.820	1.00
223_G	300_M	1.798	1.00
222_S	280_P	1.792	1.00
148_E	152_T	1.785	1.00
333_K	374_E	1.756	1.00
155_Q	159_K	1.747	1.00
335_K	371_D	1.731	1.00
50_T	301_N	1.723	1.00
57_L	221_V	1.714	1.00
166_K	169_E	1.704	1.00
126_A	130_K	1.682	1.00
104_E	107_Q	1.680	1.00
220_V	282_Q	1.673	1.00
105_Q	171_Q	1.672	1.00
87_K	189_E	1.672	1.00
342_G	352_K	1.661	1.00
341_I	349_T	1.655	1.00
340_K	352_K	1.652	1.00
239_V	283_V	1.639	1.00
112_S	164_E	1.622	1.00
74_L	197_Q	1.620	1.00
111_E	114_R	1.571	1.00
223_G	283_V	1.554	1.00
64_Y	209_P	1.533	1.00
103_K	176_A	1.517	1.00
107_Q	111_E	1.509	1.00
110_S	172_R	1.504	1.00
319_K	324_Y	1.502	1.00
100_S	104_E	1.500	1.00
334_A	362_I	1.499	1.00
121_Q	162_E	1.493	1.00
158_K	162_E	1.481	1.00
343_E	350_E	1.481	1.00
159_K	162_E	1.463	1.00
42_V	310_N	1.462	1.00
114_R	118_D	1.454	1.00
162_E	166_K	1.449	1.00
74_L	92_V	1.444	1.00
221_V	298_F	1.443	1.00
110_S	165_L	1.440	1.00
173_Q	176_A	1.437	1.00
19_G	23_Y	1.430	1.00
110_S	114_R	1.426	1.00
19_G	22_I	1.424	1.00
103_K	107_Q	1.423	1.00
320_E	336_R	1.422	1.00
243_S	298_F	1.421	1.00
118_D	121_Q	1.418	1.00
117_I	121_Q	1.414	1.00
52_M	301_N	1.413	1.00
169_E	173_Q	1.413	1.00
117_I	162_E	1.409	1.00
238_K	254_T	1.408	1.00
80_K	83_D	1.407	1.00
215_N	218_D	1.400	1.00
328_T	359_D	1.397	1.00
100_S	179_V	1.394	1.00
224_K	280_P	1.392	1.00
262_P	279_Y	1.384	1.00
314_S	347_D	1.384	1.00
61_N	215_N	1.382	1.00
326_V	339_V	1.378	1.00
105_Q	109_T	1.376	1.00
151_R	155_Q	1.376	1.00
38_Q	364_N	1.370	1.00
46_E	307_R	1.364	1.00
119_Q	123_K	1.359	1.00
117_I	165_L	1.356	1.00
75_E	95_T	1.337	1.00
39_T	329_V	1.331	1.00
52_M	299_I	1.320	1.00
240_T	301_N	1.319	1.00
42_V	358_D	1.319	1.00
57_L	219_L	1.307	1.00
62_E	212_H	1.301	1.00
72_G	94_Y	1.299	1.00
114_R	165_L	1.290	1.00
124_L	128_D	1.284	1.00
117_I	158_K	1.280	1.00
40_G	363_L	1.277	1.00
128_D	155_Q	1.276	1.00
263_D	275_Q	1.274	1.00
125_K	128_D	1.273	1.00
226_S	229_D	1.268	1.00
242_T	250_T	1.268	1.00
165_L	169_E	1.267	1.00
240_T	303_E	1.267	1.00
46_E	308_K	1.263	1.00
309_A	350_E	1.263	1.00
242_T	301_N	1.253	1.00
39_T	360_Q	1.251	1.00
91_L	211_I	1.249	1.00
107_Q	172_R	1.245	1.00
192_V	211_I	1.244	1.00
312_L	361_V	1.240	1.00
254_T	284_K	1.236	1.00
218_D	284_K	1.233	1.00
102_E	105_Q	1.230	1.00
172_R	176_A	1.217	1.00
186_S	213_I	1.208	1.00
102_E	178_R	1.205	1.00
71_K	206_I	1.196	1.00
99_L	182_L	1.194	1.00
64_Y	212_H	1.192	1.00
121_Q	158_K	1.188	1.00
113_N	168_T	1.181	1.00
194_S	212_H	1.173	1.00
257_A	282_Q	1.169	1.00
109_T	112_S	1.166	1.00
90_A	93_T	1.164	1.00
110_S	169_E	1.158	1.00
310_N	357_Q	1.151	1.00
79_V	89_T	1.146	1.00
195_V	198_E	1.142	1.00
112_S	116_Q	1.140	1.00
109_T	171_Q	1.140	1.00
329_V	360_Q	1.134	1.00
241_L	285_I	1.125	1.00
221_V	300_M	1.123	1.00
92_V	211_I	1.119	1.00
314_S	344_V	1.116	1.00
174_S	178_R	1.115	1.00
104_E	173_Q	1.115	1.00
76_D	199_A	1.111	1.00
127_L	154_L	1.096	1.00
339_V	351_I	1.094	1.00
18_V	22_I	1.093	1.00
102_E	174_S	1.092	1.00
195_V	211_I	1.090	1.00
60_S	218_D	1.084	1.00
176_A	180_S	1.077	1.00
106_N	168_T	1.076	1.00
118_D	122_E	1.071	1.00
259_G	280_P	1.064	1.00
222_S	282_Q	1.064	1.00
246_I	251_W	1.060	1.00
255_V	283_V	1.059	1.00
328_T	335_K	1.056	1.00
230_T	279_Y	1.048	1.00
157_Q	160_T	1.046	1.00
111_E	166_K	1.046	1.00
80_K	195_V	1.044	1.00
92_V	184_V	1.040	1.00
330_K	333_K	1.037	1.00
120_I	161_A	1.036	1.00
123_K	127_L	1.033	1.00
81_E	194_S	1.033	1.00
324_Y	341_I	1.032	1.00
254_T	286_K	1.025	1.00
116_Q	164_E	1.020	1.00
320_E	323_Q	1.020	1.00
229_D	232_K	1.009	1.00
75_E	93_T	1.009	1.00
103_K	179_V	1.007	1.00
317_V	349_T	1.006	1.00
330_K	337_V	1.006	1.00
157_Q	161_A	1.004	1.00
344_V	349_T	1.001	1.00
221_V	241_L	0.999	1.00
17_F	20_I	0.995	1.00
317_V	324_Y	0.992	1.00
96_N	182_L	0.991	1.00
68_E	73_T	0.981	1.00
124_L	151_R	0.980	1.00
41_S	358_D	0.975	1.00
152_T	155_Q	0.973	1.00
57_L	292_G	0.969	1.00
63_Q	188_I	0.965	1.00
263_D	276_A	0.964	1.00
48_S	303_E	0.962	1.00
131_E	148_E	0.956	1.00
345_T	348_L	0.949	1.00
56_T	277_V	0.947	1.00
287_G	290_P	0.947	1.00
133_E	145_K	0.946	1.00
67_Y	184_V	0.939	1.00
125_K	129_S	0.937	1.00
220_V	284_K	0.936	1.00
16_L	20_I	0.921	1.00
124_L	158_K	0.920	1.00
106_N	175_L	0.920	1.00
150_E	153_E	0.918	1.00
71_K	205_D	0.916	1.00
74_L	204_S	0.915	1.00
17_F	21_N	0.907	1.00
186_S	189_E	0.907	1.00
116_Q	119_Q	0.907	1.00
205_D	208_E	0.905	1.00
218_D	286_K	0.903	1.00
57_L	298_F	0.902	1.00
60_S	220_V	0.901	1.00
108_L	170_L	0.900	1.00
204_S	210_V	0.898	1.00
77_I	199_A	0.892	1.00
124_L	155_Q	0.890	1.00
129_S	132_R	0.888	1.00
329_V	332_G	0.879	1.00
332_G	374_E	0.878	1.00
242_T	299_I	0.876	1.00
241_L	253_G	0.875	1.00
20_I	24_R	0.872	1.00
153_E	157_Q	0.872	1.00
196_N	212_H	0.871	1.00
329_V	334_A	0.870	1.00
127_L	146_Q	0.867	1.00
164_E	167_Q	0.862	1.00
118_D	159_K	0.862	1.00
48_S	306_K	0.860	1.00
116_Q	160_T	0.859	1.00
83_D	89_T	0.858	1.00
312_L	326_V	0.858	1.00
190_G	213_I	0.858	1.00
146_Q	150_E	0.857	1.00
49_S	232_K	0.855	1.00
113_N	161_A	0.854	1.00
84_K	290_P	0.852	1.00
246_I	249_K	0.850	1.00
92_V	195_V	0.850	1.00
50_T	303_E	0.848	1.00
79_V	211_I	0.846	1.00
149_S	153_E	0.844	1.00
35_K	373_M	0.842	1.00
196_N	209_P	0.840	1.00
109_T	113_N	0.840	1.00
101_L	177_N	0.837	1.00
177_N	181_D	0.837	1.00
46_E	306_K	0.834	1.00
96_N	183_E	0.831	1.00
92_V	210_V	0.830	1.00
131_E	151_R	0.829	1.00
102_E	175_L	0.825	1.00
155_Q	158_K	0.823	1.00
43_E	357_Q	0.822	1.00
243_S	246_I	0.821	1.00
101_L	170_L	0.821	1.00
330_K	359_D	0.816	1.00
234_K	237_Q	0.815	1.00
327_Y	336_R	0.814	1.00
303_E	306_K	0.814	1.00
93_T	96_N	0.813	1.00
225_L	281_L	0.810	1.00
79_V	195_V	0.810	1.00
84_K	189_E	0.809	1.00
336_R	371_D	0.808	1.00
70_D	99_L	0.807	1.00
342_G	349_T	0.807	1.00
255_V	281_L	0.806	1.00
327_Y	371_D	0.806	1.00
123_K	126_A	0.805	1.00
362_I	369_V	0.801	1.00
144_E	148_E	0.798	1.00
168_T	171_Q	0.796	1.00
44_E	310_N	0.794	1.00
177_N	180_S	0.794	1.00
77_I	92_V	0.792	1.00
59_F	294_P	0.787	1.00
318_K	325_Y	0.784	1.00
75_E	96_N	0.782	1.00
79_V	192_V	0.782	1.00
160_T	164_E	0.782	1.00
188_I	213_I	0.781	1.00
245_V	249_K	0.779	1.00
122_E	125_K	0.778	1.00
327_Y	334_A	0.776	1.00
219_L	294_P	0.775	1.00
97_E	177_N	0.774	1.00
242_T	248_G	0.774	1.00
320_E	325_Y	0.770	1.00
60_S	284_K	0.766	1.00
337_V	356_T	0.762	1.00
128_D	151_R	0.760	1.00
40_G	313_P	0.758	1.00
81_E	195_V	0.758	1.00
129_S	133_E	0.756	1.00
334_A	369_V	0.755	1.00
18_V	23_Y	0.751	1.00
47_I	345_T	0.751	1.00
73_T	202_K	0.750	1.00
225_L	233_V	0.748	1.00
109_T	167_Q	0.745	1.00
170_L	173_Q	0.744	1.00
34_G	374_E	0.744	1.00
53_V	223_G	0.738	1.00
98_Q	102_E	0.736	1.00
67_Y	92_V	0.734	1.00
55_G	298_F	0.733	1.00
68_E	98_Q	0.730	1.00
164_E	168_T	0.730	1.00
127_L	130_K	0.728	1.00
84_K	216_P	0.723	1.00
315_K	364_N	0.722	1.00
171_Q	175_L	0.720	1.00
130_K	133_E	0.719	1.00
223_G	302_I	0.719	1.00
37_V	362_I	0.716	1.00
109_T	164_E	0.716	1.00
61_N	199_A	0.711	1.00
154_L	157_Q	0.711	1.00
326_V	361_V	0.710	1.00
108_L	163_I	0.710	1.00
113_N	116_Q	0.709	1.00
325_Y	338_D	0.709	1.00
175_L	178_R	0.708	1.00
161_A	164_E	0.707	1.00
238_K	303_E	0.703	1.00
144_E	147_I	0.701	1.00
244_D	299_I	0.701	1.00
329_V	362_I	0.701	1.00
40_G	43_E	0.700	1.00
167_Q	171_Q	0.699	1.00
351_I	355_L	0.695	1.00
51_V	229_D	0.691	1.00
370_T	373_M	0.689	1.00
105_Q	174_S	0.688	1.00
65_V	187_E	0.687	1.00
67_Y	204_S	0.685	1.00
58_K	220_V	0.684	1.00
17_F	23_Y	0.684	1.00
49_S	305_D	0.683	1.00
191_T	216_P	0.683	1.00
62_E	214_G	0.683	1.00
106_N	109_T	0.681	1.00
15_A	18_V	0.676	1.00
171_Q	174_S	0.672	1.00
264_Q	275_Q	0.672	1.00
342_G	354_G	0.671	1.00
256_S	282_Q	0.669	1.00
103_K	175_L	0.666	1.00
241_L	300_M	0.665	1.00
42_V	355_L	0.664	1.00
60_S	215_N	0.663	1.00
258_V	281_L	0.663	1.00
106_N	110_S	0.659	1.00
341_I	351_I	0.658	1.00
312_L	316_A	0.650	1.00
71_K	202_K	0.646	1.00
98_Q	178_R	0.645	1.00
156_M	160_T	0.644	1.00
102_E	106_N	0.642	1.00
220_V	256_S	0.640	1.00
74_L	210_V	0.639	1.00
293_K	296_F	0.637	1.00
263_D	280_P	0.636	1.00
116_Q	120_I	0.636	1.00
337_V	354_G	0.636	1.00
348_L	352_K	0.635	1.00
114_R	117_I	0.634	1.00
53_V	225_L	0.630	1.00
168_T	172_R	0.628	1.00
224_K	263_D	0.628	1.00
245_V	251_W	0.627	1.00
327_Y	369_V	0.626	1.00
18_V	21_N	0.625	1.00
119_Q	126_A	0.623	1.00
99_L	175_L	0.621	1.00
123_K	153_E	0.621	1.00
75_E	78_K	0.620	1.00
61_N	198_E	0.619	1.00
224_K	278_Q	0.617	1.00
51_V	304_T	0.617	1.00
53_V	229_D	0.614	1.00
243_S	292_G	0.613	1.00
53_V	302_I	0.613	1.00
235_K	258_V	0.610	1.00
100_S	103_K	0.610	1.00
43_E	348_L	0.608	1.00
85_V	91_L	0.606	1.00
119_Q	157_Q	0.606	1.00
61_N	188_I	0.605	1.00
42_V	359_D	0.605	1.00
107_Q	110_S	0.601	1.00
312_L	317_V	0.600	1.00
25_S	28_P	0.600	1.00
11_A	18_V	0.597	1.00
156_M	159_K	0.597	1.00
241_L	283_V	0.595	1.00
39_T	363_L	0.594	1.00
49_S	304_T	0.591	1.00
262_P	277_V	0.589	1.00
109_T	168_T	0.588	1.00
96_N	179_V	0.588	1.00
313_P	316_A	0.585	1.00
41_S	44_E	0.585	1.00
133_E	144_E	0.583	1.00
103_K	106_N	0.581	1.00
66_F	209_P	0.581	1.00
316_A	363_L	0.581	1.00
111_E	115_L	0.581	1.00
209_P	212_H	0.579	1.00
241_L	298_F	0.578	1.00
217_K	290_P	0.578	1.00
150_E	154_L	0.577	1.00
40_G	312_L	0.573	1.00
58_K	62_E	0.571	1.00
40_G	348_L	0.571	1.00
116_Q	161_A	0.566	1.00
65_V	211_I	0.565	1.00
332_G	360_Q	0.565	1.00
64_Y	201_S	0.564	1.00
277_V	297_K	0.563	1.00
53_V	300_M	0.563	1.00
198_E	201_S	0.563	1.00
147_I	150_E	0.562	1.00
236_G	254_T	0.561	1.00
79_V	83_D	0.561	1.00
47_I	343_E	0.558	1.00
221_V	285_I	0.558	1.00
245_V	248_G	0.557	1.00
49_S	343_E	0.555	1.00
310_N	354_G	0.555	1.00
227_E	245_V	0.555	1.00
99_L	178_R	0.555	1.00
197_Q	201_S	0.554	1.00
63_Q	187_E	0.553	1.00
279_Y	296_F	0.552	1.00
67_Y	210_V	0.552	1.00
14_V	17_F	0.552	1.00
120_I	157_Q	0.551	1.00
9_G	13_I	0.551	1.00
145_K	149_S	0.550	1.00
318_K	327_Y	0.548	1.00
47_I	311_T	0.548	1.00
328_T	361_V	0.547	1.00
67_Y	94_Y	0.545	1.00
59_F	214_G	0.544	1.00
113_N	117_I	0.544	1.00
180_S	185_K	0.544	1.00
239_V	302_I	0.544	1.00
326_V	354_G	0.543	1.00
178_R	181_D	0.543	1.00
311_T	350_E	0.543	1.00
317_V	339_V	0.543	1.00
119_Q	156_M	0.543	1.00
55_G	221_V	0.542	1.00
233_V	255_V	0.542	1.00
316_A	361_V	0.541	1.00
47_I	350_E	0.541	1.00
251_W	292_G	0.540	1.00
59_F	62_E	0.537	1.00
99_L	103_K	0.535	1.00
67_Y	70_D	0.534	1.00
175_L	179_V	0.532	1.00
57_L	243_S	0.529	1.00
217_K	288_N	0.528	1.00
195_V	199_A	0.527	1.00
249_K	289_L	0.527	1.00
44_E	356_T	0.527	1.00
88_G	185_K	0.527	1.00
119_Q	122_E	0.523	1.00
317_V	341_I	0.523	1.00
173_Q	177_N	0.522	1.00
219_L	285_I	0.522	1.00
179_V	182_L	0.520	1.00
216_P	294_P	0.519	1.00
126_A	133_E	0.519	1.00
101_L	104_E	0.516	1.00
56_T	295_G	0.516	1.00
223_G	239_V	0.515	1.00
78_K	89_T	0.515	1.00
162_E	165_L	0.514	1.00
77_I	195_V	0.514	1.00
214_G	294_P	0.514	1.00
104_E	108_L	0.514	1.00
119_Q	153_E	0.513	1.00
40_G	44_E	0.513	1.00
63_Q	213_I	0.512	1.00
124_L	131_E	0.512	1.00
227_E	297_K	0.511	1.00
123_K	154_L	0.511	1.00
239_V	253_G	0.511	1.00
252_K	286_K	0.510	1.00
235_K	256_S	0.509	1.00
106_N	171_Q	0.509	1.00
283_V	300_M	0.508	1.00
326_V	355_L	0.502	1.00
43_E	311_T	0.501	1.00
148_E	155_Q	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	0.8382	100	0.198	Contact Map
3lnnA	6	0.8886	100	0.221	Contact Map
3fppA	3	0.687	100	0.229	Contact Map
1vf7A	5	0.5968	100	0.23	Contact Map
3ne5B	3	0.809	100	0.231	Contact Map
4l8jA	2	0.8223	100	0.257	Contact Map
4kkuA	1	0.6631	100	0.301	Contact Map
2f1mA	2	0.618	100	0.395	Contact Map
4tkoB	1	0.6366	100	0.465	Contact Map
2k32A	1	0.305	99.8	0.714	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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