YFHA - BACSU - GREMLIN Contacts

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YFHA - Probable siderophore transport system permease protein YfhA

UniProt:	O31569	Sequences: MKLRFGVTAAEKKAWIVFLVLLGLTAAVLIISAGLGQRFIPPWDVAKTFFGAGSKLDELMIMSFRMPRILTALCAGVCLAAAGAILQGLVRNPLASPDIIGITGGAAVAVVLLMMFFSDRSSSLTISLSWLPAAAFIGASAVGLIVYLLAYKNGASTFRLVLIGIGFSMSAQAMTTLLMIKGPIYRASQANVYITGSVYGSNWQHVKIAIILSVILLFICFVALKNMNIQVLGEDIAAGAGSAVQRNRFFLLLLSTALTGCAVSVAGTIGFVGLMAPHIARRLVGSSYGALLPASALIGALLVLTADIVGRTLFAPVEVPAGVFTAAIGAPYFIYLLYKTRNS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	343 (320)
Sequences:	13902 (9998)
Seq/√Len:	558.9

ECOLI - FEPG FEPD BTUC FECC FECD FHUB
BACSU - YFHA FHUB FHUG YVRB YFME YFMD YFIZ FEUB FEUC YCLN YCLO
HALSA - Q9HMG0 Q9HMG7 BTUCA
SULSO - Q97ZU1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
228_N	287_S	4.579	1.00
77_V	296_A	3.794	1.00
113_L	134_A	3.648	1.00
28_V	305_T	3.576	1.00
85_I	220_C	3.520	1.00
29_L	69_I	3.419	1.00
243_A	246_R	3.276	1.00
78_C	213_S	3.125	1.00
85_I	251_L	3.067	1.00
73_L	300_A	3.036	1.00
72_A	198_V	2.911	1.00
280_A	298_I	2.840	1.00
44_D	57_D	2.757	1.00
71_T	201_S	2.639	1.00
78_C	262_A	2.539	1.00
78_C	258_L	2.526	1.00
81_A	296_A	2.487	1.00
29_L	73_L	2.483	1.00
44_D	47_K	2.438	1.00
108_V	174_M	2.402	1.00
234_E	248_R	2.385	1.00
25_T	301_L	2.361	1.00
75_A	262_A	2.266	1.00
24_L	301_L	2.247	1.00
81_A	217_L	2.210	1.00
84_A	295_S	2.206	1.00
284_V	294_A	2.108	1.00
34_G	42_P	2.067	1.00
73_L	304_L	2.065	1.00
75_A	266_A	2.063	1.00
108_V	171_A	2.052	1.00
54_S	57_D	2.032	1.00
25_T	73_L	2.021	1.00
226_N	247_N	1.998	1.00
74_C	210_I	1.965	1.00
68_R	307_D	1.960	1.00
32_S	69_I	1.954	1.00
41_P	44_D	1.947	1.00
212_L	261_C	1.933	1.00
228_N	288_Y	1.929	1.00
112_L	116_F	1.918	1.00
88_G	288_Y	1.866	1.00
86_L	255_S	1.853	1.00
229_I	242_S	1.814	1.00
223_A	226_N	1.807	1.00
18_F	294_A	1.792	1.00
111_V	175_T	1.791	1.00
28_V	301_L	1.782	1.00
43_W	47_K	1.778	1.00
219_I	254_L	1.744	1.00
201_S	205_H	1.715	1.00
216_L	258_L	1.685	1.00
223_A	250_F	1.636	1.00
58_E	62_M	1.609	1.00
55_K	58_E	1.604	1.00
309_V	313_L	1.582	1.00
246_R	250_F	1.577	1.00
70_L	206_V	1.562	1.00
31_I	34_G	1.557	1.00
139_A	260_G	1.552	1.00
110_V	135_A	1.538	1.00
272_V	303_V	1.528	1.00
207_K	211_I	1.519	1.00
84_A	291_L	1.517	1.00
216_L	257_A	1.507	1.00
223_A	247_N	1.496	1.00
202_N	205_H	1.492	1.00
25_T	297_L	1.485	1.00
310_G	321_A	1.485	1.00
21_L	297_L	1.479	1.00
48_T	62_M	1.472	1.00
109_A	134_A	1.449	1.00
28_V	304_L	1.448	1.00
143_G	256_T	1.440	1.00
31_I	35_L	1.436	1.00
198_V	303_V	1.412	1.00
17_V	294_A	1.406	1.00
309_V	324_F	1.395	1.00
46_A	50_F	1.391	1.00
216_L	254_L	1.379	1.00
82_A	258_L	1.364	1.00
32_S	308_I	1.353	1.00
211_I	215_I	1.337	1.00
290_A	293_P	1.335	1.00
21_L	294_A	1.327	1.00
280_A	291_L	1.323	1.00
142_V	171_A	1.316	1.00
280_A	294_A	1.307	1.00
71_T	265_V	1.304	1.00
107_A	175_T	1.295	1.00
207_K	210_I	1.291	1.00
219_I	223_A	1.279	1.00
170_S	330_A	1.275	1.00
21_L	298_I	1.259	1.00
103_T	259_T	1.254	1.00
276_A	302_L	1.246	1.00
223_A	251_L	1.245	1.00
80_A	276_A	1.230	1.00
74_C	206_V	1.225	1.00
59_L	63_S	1.196	1.00
48_T	58_E	1.196	1.00
18_F	290_A	1.194	1.00
276_A	298_I	1.189	1.00
25_T	300_A	1.186	1.00
238_A	245_Q	1.186	1.00
89_L	251_L	1.170	1.00
246_R	249_F	1.166	1.00
109_A	138_G	1.165	1.00
107_A	194_I	1.164	1.00
236_I	239_G	1.163	1.00
247_N	250_F	1.159	1.00
21_L	301_L	1.154	1.00
288_Y	291_L	1.153	1.00
266_A	269_I	1.148	1.00
39_F	42_P	1.147	1.00
209_A	265_V	1.136	1.00
111_V	190_A	1.129	1.00
229_I	240_A	1.123	1.00
311_R	318_E	1.119	1.00
245_Q	248_R	1.115	1.00
56_L	59_L	1.112	1.00
133_A	137_I	1.104	1.00
144_L	148_L	1.101	1.00
134_A	138_G	1.100	1.00
84_A	292_L	1.097	1.00
38_R	60_M	1.094	1.00
108_V	112_L	1.090	1.00
72_A	304_L	1.088	1.00
136_F	257_A	1.087	1.00
72_A	303_V	1.087	1.00
71_T	206_V	1.085	1.00
84_A	288_Y	1.082	1.00
233_G	237_A	1.080	1.00
105_G	138_G	1.078	1.00
219_I	250_F	1.077	1.00
74_C	209_A	1.076	1.00
77_V	300_A	1.072	1.00
220_C	254_L	1.070	1.00
115_M	178_L	1.069	1.00
16_I	19_L	1.066	1.00
53_G	58_E	1.064	1.00
105_G	142_V	1.051	1.00
146_V	167_F	1.049	1.00
151_Y	245_Q	1.049	1.00
218_F	222_V	1.047	1.00
77_V	80_A	1.047	1.00
209_A	213_S	1.034	1.00
293_P	296_A	1.032	1.00
70_L	203_W	1.031	1.00
245_Q	249_F	1.029	1.00
307_D	311_R	1.027	1.00
168_S	172_Q	1.020	1.00
216_L	261_C	1.014	1.00
104_G	171_A	1.007	1.00
35_L	312_T	1.004	1.00
29_L	304_L	1.003	1.00
309_V	312_T	1.000	1.00
177_L	181_K	0.998	1.00
48_T	61_I	0.997	1.00
127_S	130_W	0.996	1.00
301_L	305_T	0.994	1.00
62_M	66_M	0.990	1.00
269_I	303_V	0.986	1.00
152_K	155_A	0.983	1.00
141_A	145_I	0.978	1.00
284_V	290_A	0.978	1.00
15_W	18_F	0.978	1.00
112_L	178_L	0.975	1.00
23_G	27_A	0.974	1.00
30_I	34_G	0.972	1.00
22_L	26_A	0.971	1.00
34_G	45_V	0.971	1.00
15_W	19_L	0.967	1.00
310_G	324_F	0.964	1.00
326_A	331_P	0.963	1.00
33_A	69_I	0.961	1.00
103_T	268_T	0.946	1.00
208_I	211_I	0.944	1.00
227_M	251_L	0.943	1.00
215_I	218_F	0.939	1.00
291_L	295_S	0.935	1.00
48_T	57_D	0.935	1.00
276_A	280_A	0.933	1.00
314_F	317_V	0.932	1.00
247_N	251_L	0.930	1.00
69_I	308_I	0.930	1.00
48_T	53_G	0.921	1.00
115_M	182_G	0.921	1.00
28_V	308_I	0.918	1.00
211_I	214_V	0.918	1.00
142_V	146_V	0.917	1.00
47_K	51_G	0.913	1.00
108_V	175_T	0.910	1.00
262_A	266_A	0.908	1.00
290_A	294_A	0.906	1.00
203_W	206_V	0.906	1.00
148_L	151_Y	0.903	1.00
52_A	58_E	0.903	1.00
331_P	335_Y	0.898	1.00
45_V	61_I	0.884	1.00
58_E	63_S	0.881	1.00
242_S	247_N	0.881	1.00
235_D	238_A	0.879	1.00
36_G	65_R	0.879	1.00
332_Y	335_Y	0.875	1.00
182_G	186_R	0.874	1.00
287_S	290_A	0.870	1.00
83_G	277_P	0.865	1.00
17_V	20_V	0.865	1.00
108_V	178_L	0.863	1.00
16_I	20_V	0.860	1.00
40_I	61_I	0.859	1.00
30_I	42_P	0.859	1.00
126_I	130_W	0.859	1.00
283_L	298_I	0.854	1.00
47_K	50_F	0.853	1.00
305_T	309_V	0.851	1.00
22_L	297_L	0.849	1.00
102_I	139_A	0.849	1.00
82_A	255_S	0.847	1.00
228_N	289_G	0.843	1.00
77_V	217_L	0.843	1.00
74_C	213_S	0.842	1.00
17_V	21_L	0.842	1.00
110_V	131_L	0.841	1.00
190_A	194_I	0.838	1.00
310_G	320_P	0.837	1.00
114_M	131_L	0.834	1.00
234_E	238_A	0.833	1.00
78_C	82_A	0.823	1.00
249_F	253_L	0.817	1.00
69_I	304_L	0.808	1.00
212_L	216_L	0.808	1.00
98_D	103_T	0.808	1.00
312_T	315_A	0.808	1.00
224_L	289_G	0.807	1.00
281_R	291_L	0.804	1.00
223_A	254_L	0.800	1.00
288_Y	293_P	0.800	1.00
219_I	222_V	0.799	1.00
136_F	140_S	0.798	1.00
214_V	218_F	0.798	1.00
313_L	316_P	0.796	1.00
68_R	311_R	0.794	1.00
188_S	191_N	0.794	1.00
244_V	248_R	0.791	1.00
77_V	213_S	0.786	1.00
113_L	131_L	0.785	1.00
25_T	29_L	0.783	1.00
220_C	251_L	0.781	1.00
131_L	134_A	0.781	1.00
104_G	107_A	0.780	1.00
185_Y	189_Q	0.779	1.00
252_L	256_T	0.779	1.00
80_A	84_A	0.777	1.00
234_E	244_V	0.771	1.00
66_M	203_W	0.769	1.00
137_I	141_A	0.766	1.00
86_L	100_I	0.766	1.00
303_V	325_T	0.761	1.00
106_A	139_A	0.761	1.00
26_A	30_I	0.761	1.00
204_Q	207_K	0.760	1.00
32_S	311_R	0.758	1.00
47_K	52_A	0.757	1.00
327_A	331_P	0.757	1.00
151_Y	154_G	0.756	1.00
45_V	48_T	0.755	1.00
205_H	265_V	0.755	1.00
68_R	318_E	0.754	1.00
130_W	133_A	0.751	1.00
26_A	29_L	0.750	1.00
147_Y	249_F	0.748	1.00
280_A	283_L	0.747	1.00
147_Y	245_Q	0.747	1.00
280_A	284_V	0.746	1.00
314_F	319_V	0.745	1.00
237_A	244_V	0.744	1.00
34_G	39_F	0.741	1.00
105_G	171_A	0.738	1.00
35_L	39_F	0.735	1.00
272_V	325_T	0.734	1.00
138_G	142_V	0.732	1.00
297_L	301_L	0.729	1.00
40_I	57_D	0.729	1.00
27_A	30_I	0.728	1.00
111_V	179_M	0.728	1.00
221_F	224_L	0.727	1.00
112_L	117_F	0.725	1.00
80_A	296_A	0.724	1.00
51_G	58_E	0.722	1.00
140_S	260_G	0.721	1.00
151_Y	155_A	0.721	1.00
47_K	53_G	0.721	1.00
96_S	99_I	0.721	1.00
139_A	256_T	0.718	1.00
90_V	161_V	0.716	1.00
79_L	272_V	0.715	1.00
209_A	261_C	0.710	1.00
222_V	226_N	0.707	1.00
213_S	262_A	0.705	1.00
81_A	292_L	0.701	1.00
70_L	74_C	0.699	1.00
55_K	59_L	0.699	1.00
38_R	42_P	0.696	1.00
112_L	174_M	0.695	1.00
226_N	242_S	0.691	1.00
81_A	220_C	0.690	1.00
38_R	41_P	0.686	1.00
59_L	62_M	0.686	1.00
228_N	293_P	0.686	1.00
25_T	304_L	0.681	1.00
114_M	189_Q	0.678	1.00
107_A	268_T	0.677	1.00
182_G	187_A	0.676	1.00
335_Y	339_K	0.676	1.00
143_G	252_L	0.676	1.00
102_I	143_G	0.675	1.00
54_S	58_E	0.675	1.00
146_V	150_A	0.673	1.00
82_A	259_T	0.673	1.00
238_A	244_V	0.668	1.00
302_L	306_A	0.667	1.00
33_A	61_I	0.665	1.00
210_I	214_V	0.664	1.00
279_I	298_I	0.663	1.00
71_T	209_A	0.663	1.00
88_G	231_V	0.661	1.00
17_V	283_L	0.661	1.00
33_A	66_M	0.660	1.00
269_I	321_A	0.658	1.00
230_Q	244_V	0.658	1.00
59_L	64_F	0.658	1.00
261_C	265_V	0.656	1.00
261_C	264_S	0.656	1.00
282_R	336_L	0.655	1.00
191_N	194_I	0.654	1.00
300_A	304_L	0.649	1.00
296_A	300_A	0.649	1.00
143_G	147_Y	0.647	1.00
21_L	25_T	0.646	1.00
217_L	221_F	0.644	1.00
209_A	212_L	0.644	1.00
42_P	45_V	0.644	1.00
179_M	191_N	0.643	1.00
277_P	295_S	0.643	1.00
140_S	256_T	0.639	1.00
279_I	282_R	0.639	1.00
75_A	198_V	0.637	1.00
216_L	220_C	0.636	1.00
275_M	333_F	0.630	1.00
303_V	321_A	0.628	1.00
131_L	135_A	0.625	1.00
96_S	273_G	0.623	1.00
198_V	321_A	0.622	1.00
29_L	33_A	0.622	1.00
103_T	106_A	0.620	1.00
183_P	186_R	0.619	1.00
176_T	180_I	0.619	1.00
203_W	207_K	0.618	1.00
66_M	70_L	0.617	1.00
20_V	24_L	0.617	1.00
129_S	133_A	0.615	1.00
307_D	318_E	0.615	1.00
85_I	254_L	0.614	1.00
272_V	302_L	0.614	1.00
156_S	159_R	0.613	1.00
158_F	161_V	0.612	1.00
212_L	257_A	0.612	1.00
259_T	263_V	0.611	1.00
40_I	48_T	0.611	1.00
77_V	81_A	0.610	1.00
114_M	190_A	0.609	1.00
109_A	113_L	0.609	1.00
279_I	302_L	0.609	1.00
306_A	324_F	0.606	1.00
176_T	193_Y	0.605	1.00
43_W	46_A	0.604	1.00
90_V	93_P	0.604	1.00
305_T	308_I	0.603	1.00
104_G	168_S	0.600	1.00
302_L	328_I	0.599	1.00
163_I	166_G	0.595	1.00
226_N	229_I	0.593	1.00
61_I	66_M	0.593	1.00
113_L	130_W	0.592	1.00
150_A	163_I	0.591	1.00
72_A	321_A	0.589	1.00
41_P	57_D	0.587	1.00
289_G	293_P	0.587	1.00
172_Q	194_I	0.584	1.00
42_P	46_A	0.584	1.00
149_L	163_I	0.584	1.00
186_R	189_Q	0.582	1.00
27_A	31_I	0.582	1.00
310_G	318_E	0.579	1.00
228_N	231_V	0.574	0.99
119_D	126_I	0.573	0.99
35_L	308_I	0.572	0.99
222_V	225_K	0.571	0.99
260_G	264_S	0.571	0.99
275_M	279_I	0.569	0.99
17_V	284_V	0.567	0.99
137_I	140_S	0.567	0.99
145_I	148_L	0.566	0.99
250_F	254_L	0.564	0.99
30_I	46_A	0.563	0.99
274_L	336_L	0.563	0.99
86_L	102_I	0.563	0.99
32_S	304_L	0.561	0.99
275_M	332_Y	0.561	0.99
148_L	152_K	0.559	0.99
213_S	217_L	0.559	0.99
308_I	312_T	0.558	0.99
86_L	95_A	0.558	0.99
113_L	117_F	0.556	0.99
172_Q	176_T	0.555	0.99
116_F	119_D	0.555	0.99
28_V	31_I	0.551	0.99
215_I	219_I	0.551	0.99
338_Y	341_R	0.550	0.99
293_P	297_L	0.550	0.99
44_D	51_G	0.550	0.99
208_I	212_L	0.548	0.99
279_I	332_Y	0.548	0.99
213_S	218_F	0.547	0.99
228_N	291_L	0.546	0.99
198_V	266_A	0.546	0.99
104_G	172_Q	0.541	0.99
310_G	313_L	0.541	0.99
304_L	308_I	0.540	0.99
147_Y	151_Y	0.540	0.99
44_D	53_G	0.539	0.99
251_L	255_S	0.538	0.99
243_A	250_F	0.534	0.99
20_V	23_G	0.531	0.99
71_T	75_A	0.531	0.99
52_A	55_K	0.530	0.99
80_A	299_G	0.528	0.99
256_T	260_G	0.528	0.99
187_A	190_A	0.525	0.99
141_A	144_L	0.525	0.99
206_V	209_A	0.525	0.99
18_F	22_L	0.524	0.99
110_V	134_A	0.523	0.99
163_I	167_F	0.523	0.99
45_V	49_F	0.523	0.99
34_G	46_A	0.521	0.99
285_G	293_P	0.521	0.99
179_M	187_A	0.520	0.99
255_S	260_G	0.520	0.99
49_F	61_I	0.519	0.99
31_I	308_I	0.519	0.99
179_M	194_I	0.518	0.99
45_V	50_F	0.518	0.99
250_F	253_L	0.517	0.99
204_Q	208_I	0.515	0.99
230_Q	247_N	0.515	0.99
280_A	295_S	0.513	0.99
84_A	280_A	0.512	0.99
225_K	228_N	0.511	0.99
96_S	268_T	0.510	0.99
29_L	70_L	0.510	0.99
227_M	288_Y	0.510	0.99
270_G	275_M	0.510	0.99
208_I	261_C	0.509	0.99
85_I	255_S	0.509	0.99
102_I	197_S	0.509	0.99
102_I	146_V	0.509	0.99
276_A	306_A	0.505	0.99
18_F	297_L	0.504	0.99
106_A	135_A	0.503	0.99
206_V	210_I	0.503	0.99
105_G	167_F	0.503	0.99
269_I	325_T	0.503	0.99
145_I	167_F	0.503	0.99
278_H	281_R	0.503	0.99
70_L	210_I	0.502	0.99
150_A	160_L	0.500	0.99
25_T	69_I	0.500	0.99

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
4g1uA	2	0.8659	100	0.2	Contact Map
2qi9A	2	0.9417	100	0.2	Contact Map
2nq2A	2	0.898	100	0.203	Contact Map
2m8rA	1	0.1108	38.2	0.958	Contact Map
4huqS	1	0.4606	29.1	0.961	Contact Map
4z7fA	2	0.4781	12.8	0.967	Contact Map
4xtrG	1	0.0641	8.6	0.969	Contact Map
2kogA	1	0.1166	7.6	0.97	Contact Map
3rlbA	1	0.4927	7.2	0.97	Contact Map
4lz6A	1	0.4169	7.1	0.97	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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