YHAP - BACSU - GREMLIN Contacts

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YHAP - Uncharacterized protein YhaP

UniProt:	O07523	Sequences: MNKFWIMLSHTYKNKIMAKSFIISTVITVLLVLVVTNLESIISLFQGDDAKEKIAVVDETNELYPVFSKQLKAVDTDGDLDVKLSKQSEDEVTKQVKDESLDGMLIIKRDEKGTISGTYKALTISDESTYQTLQQALTQTKTAVGTAELGVSQETISSLYAPVTVGQKALKEGAKSEEELGQTVGLVYIMLFVIYFSVIMYASMIAMEVATEKSSRVMEILISSMPPIQQMFAKLLGIGLVGITQLAIIIGAGSLSLKLNQKSETASSVGGFLNLTDVSATTVIYAVIFFLLGYFLYATLAAFLGSVVSRIEDVQQTITPMTLLVVAGFMIAMFGLNAPDAGFITVTSFIPFFTPMIMFLRVGMLDIPFWQAAVGIGITLLTIVILAVIGARIYKGGVLIYGNSSAFKAIKQALRLAKN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	419 (355)
Sequences:	9633 (8092)
Seq/√Len:	429.5

ECOLI - YBHR YHHJ YBHS
BACSU - YHAP YFIM NATB YFIN
SULSO - Q97W41 Q7LY08

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
55_A	101_L	5.302	1.00
92_V	104_M	4.759	1.00
289_F	358_M	4.155	1.00
88_S	91_E	3.851	1.00
110_D	114_T	3.785	1.00
95_Q	101_L	3.599	1.00
8_L	240_L	3.215	1.00
7_M	233_A	3.130	1.00
9_S	13_K	3.088	1.00
94_K	98_D	3.087	1.00
115_I	120_K	3.002	1.00
89_E	93_T	2.876	1.00
8_L	236_L	2.752	1.00
96_V	104_M	2.628	1.00
341_A	345_T	2.570	1.00
4_F	8_L	2.563	1.00
226_P	229_Q	2.527	1.00
55_A	86_K	2.425	1.00
95_Q	100_S	2.423	1.00
247_A	287_V	2.316	1.00
93_T	97_K	2.312	1.00
86_K	95_Q	2.267	1.00
373_A	377_G	2.232	1.00
58_D	61_N	2.200	1.00
107_I	111_E	2.137	1.00
251_G	255_L	2.136	1.00
59_E	106_I	2.135	1.00
136_A	140_T	2.110	1.00
11_T	234_K	2.095	1.00
56_V	68_S	2.055	1.00
132_T	136_A	2.039	1.00
377_G	381_L	2.034	1.00
293_G	355_P	2.007	1.00
290_F	355_P	2.007	1.00
60_T	112_K	1.958	1.00
91_E	95_Q	1.938	1.00
303_F	389_I	1.904	1.00
296_L	383_I	1.901	1.00
58_D	64_Y	1.877	1.00
51_K	81_D	1.867	1.00
59_E	89_E	1.841	1.00
53_K	81_D	1.826	1.00
295_F	383_I	1.804	1.00
381_L	385_I	1.770	1.00
89_E	106_I	1.760	1.00
87_Q	91_E	1.759	1.00
53_K	83_K	1.752	1.00
292_L	380_L	1.750	1.00
115_I	122_L	1.744	1.00
347_T	353_F	1.734	1.00
4_F	236_L	1.717	1.00
12_Y	244_T	1.706	1.00
357_I	375_G	1.698	1.00
285_Y	362_V	1.689	1.00
368_P	371_Q	1.625	1.00
120_K	123_T	1.618	1.00
246_L	290_F	1.597	1.00
336_L	347_T	1.596	1.00
13_K	17_M	1.577	1.00
239_G	295_F	1.575	1.00
324_L	329_F	1.573	1.00
299_T	383_I	1.566	1.00
57_V	92_V	1.560	1.00
5_W	9_S	1.533	1.00
361_R	367_I	1.526	1.00
348_S	354_T	1.479	1.00
212_E	234_K	1.476	1.00
120_K	124_I	1.465	1.00
101_L	104_M	1.457	1.00
115_I	121_A	1.450	1.00
289_F	376_I	1.449	1.00
94_K	97_K	1.439	1.00
210_A	213_K	1.438	1.00
141_K	144_V	1.426	1.00
185_G	188_Y	1.420	1.00
239_G	291_L	1.417	1.00
55_A	95_Q	1.413	1.00
341_A	344_I	1.413	1.00
292_L	383_I	1.409	1.00
132_T	140_T	1.408	1.00
284_I	288_I	1.404	1.00
289_F	362_V	1.388	1.00
118_T	121_A	1.386	1.00
348_S	353_F	1.386	1.00
228_I	391_A	1.382	1.00
336_L	339_P	1.368	1.00
184_V	187_V	1.367	1.00
108_K	111_E	1.367	1.00
242_G	294_Y	1.366	1.00
13_K	16_I	1.365	1.00
110_D	113_G	1.359	1.00
141_K	145_G	1.340	1.00
300_L	321_M	1.336	1.00
325_V	329_F	1.333	1.00
378_I	382_T	1.326	1.00
59_E	109_R	1.319	1.00
130_Y	133_L	1.317	1.00
192_F	195_Y	1.306	1.00
243_I	291_L	1.293	1.00
69_K	72_K	1.289	1.00
212_E	217_V	1.282	1.00
90_D	93_T	1.282	1.00
374_V	378_I	1.276	1.00
129_T	132_T	1.270	1.00
187_V	191_L	1.267	1.00
144_V	147_A	1.263	1.00
292_L	376_I	1.261	1.00
344_I	348_S	1.260	1.00
91_E	94_K	1.259	1.00
4_F	229_Q	1.257	1.00
310_R	313_D	1.254	1.00
296_L	386_L	1.254	1.00
196_F	200_M	1.244	1.00
63_L	112_K	1.231	1.00
130_Y	134_Q	1.226	1.00
306_S	393_I	1.216	1.00
185_G	189_I	1.215	1.00
392_R	396_G	1.214	1.00
303_F	390_G	1.212	1.00
4_F	232_F	1.211	1.00
388_V	392_R	1.209	1.00
353_F	357_I	1.200	1.00
121_A	124_I	1.196	1.00
133_L	136_A	1.194	1.00
131_Q	134_Q	1.193	1.00
8_L	237_G	1.193	1.00
282_T	285_Y	1.193	1.00
201_Y	204_M	1.191	1.00
139_Q	143_A	1.185	1.00
361_R	365_L	1.185	1.00
301_A	305_G	1.179	1.00
70_Q	73_A	1.177	1.00
221_L	230_Q	1.175	1.00
140_T	144_V	1.171	1.00
293_G	297_Y	1.165	1.00
66_V	69_K	1.163	1.00
345_T	348_S	1.161	1.00
354_T	378_I	1.159	1.00
345_T	349_F	1.157	1.00
376_I	380_L	1.151	1.00
60_T	110_D	1.151	1.00
326_V	329_F	1.146	1.00
105_L	117_G	1.145	1.00
54_I	105_L	1.141	1.00
303_F	386_L	1.135	1.00
296_L	382_T	1.134	1.00
12_Y	240_L	1.134	1.00
8_L	233_A	1.128	1.00
5_W	8_L	1.127	1.00
324_L	328_G	1.121	1.00
96_V	101_L	1.121	1.00
354_T	375_G	1.119	1.00
250_I	290_F	1.111	1.00
342_G	345_T	1.108	1.00
53_K	102_D	1.104	1.00
106_I	120_K	1.104	1.00
378_I	381_L	1.102	1.00
115_I	119_Y	1.096	1.00
382_T	386_L	1.094	1.00
115_I	123_T	1.089	1.00
251_G	254_S	1.088	1.00
138_T	142_T	1.086	1.00
303_F	393_I	1.084	1.00
140_T	143_A	1.083	1.00
122_L	125_S	1.082	1.00
58_D	68_S	1.071	1.00
34_V	252_A	1.070	1.00
54_I	103_G	1.067	1.00
139_Q	142_T	1.067	1.00
191_L	195_Y	1.062	1.00
186_L	190_M	1.061	1.00
64_Y	112_K	1.060	1.00
57_V	86_K	1.059	1.00
134_Q	138_T	1.057	1.00
350_I	353_F	1.056	1.00
131_Q	135_Q	1.053	1.00
89_E	104_M	1.052	1.00
228_I	232_F	1.050	1.00
182_Q	186_L	1.044	1.00
299_T	386_L	1.042	1.00
210_A	214_S	1.040	1.00
367_I	371_Q	1.035	1.00
339_P	344_I	1.031	1.00
252_A	256_S	1.022	1.00
184_V	192_F	1.021	1.00
370_W	374_V	1.021	1.00
233_A	237_G	1.020	1.00
118_T	124_I	1.019	1.00
240_L	244_T	1.012	1.00
7_M	225_M	1.006	1.00
231_M	391_A	1.006	1.00
131_Q	136_A	1.005	1.00
189_I	192_F	1.002	1.00
286_A	359_F	0.993	1.00
137_L	141_K	0.987	1.00
336_L	344_I	0.981	1.00
126_D	132_T	0.980	1.00
183_T	191_L	0.978	1.00
284_I	287_V	0.971	1.00
57_V	104_M	0.970	1.00
184_V	188_Y	0.961	1.00
55_A	104_M	0.961	1.00
340_D	344_I	0.960	1.00
342_G	346_V	0.959	1.00
61_N	109_R	0.955	1.00
322_T	326_V	0.955	1.00
188_Y	192_F	0.951	1.00
136_A	141_K	0.942	1.00
116_S	119_Y	0.938	1.00
235_L	299_T	0.937	1.00
86_K	101_L	0.937	1.00
18_A	21_F	0.937	1.00
285_Y	288_I	0.936	1.00
87_Q	95_Q	0.924	1.00
118_T	122_L	0.922	1.00
229_Q	233_A	0.913	1.00
130_Y	136_A	0.913	1.00
192_F	197_S	0.912	1.00
385_I	389_I	0.912	1.00
12_Y	237_G	0.908	1.00
316_Q	319_T	0.904	1.00
93_T	120_K	0.902	1.00
60_T	107_I	0.897	1.00
90_D	94_K	0.896	1.00
70_Q	143_A	0.890	1.00
294_Y	298_A	0.890	1.00
187_V	190_M	0.890	1.00
320_P	324_L	0.888	1.00
296_L	379_T	0.886	1.00
190_M	194_I	0.884	1.00
121_A	125_S	0.884	1.00
200_M	203_S	0.881	1.00
194_I	202_A	0.878	1.00
299_T	387_A	0.875	1.00
185_G	192_F	0.875	1.00
375_G	379_T	0.872	1.00
115_I	118_T	0.868	1.00
183_T	186_L	0.867	1.00
143_A	147_A	0.862	1.00
16_I	19_K	0.861	1.00
303_F	307_V	0.859	1.00
66_V	70_Q	0.853	1.00
187_V	192_F	0.852	1.00
10_H	212_E	0.849	1.00
68_S	72_K	0.849	1.00
118_T	123_T	0.849	1.00
129_T	134_Q	0.842	1.00
383_I	387_A	0.839	1.00
145_G	150_G	0.836	1.00
146_T	149_L	0.826	1.00
374_V	377_G	0.826	1.00
198_V	201_Y	0.822	1.00
191_L	194_I	0.822	1.00
42_I	45_F	0.818	1.00
188_Y	191_L	0.817	1.00
58_D	107_I	0.817	1.00
33_L	253_G	0.816	1.00
136_A	139_Q	0.816	1.00
106_I	118_T	0.812	1.00
126_D	130_Y	0.809	1.00
183_T	192_F	0.800	1.00
33_L	37_N	0.800	1.00
195_Y	355_P	0.799	1.00
185_G	191_L	0.798	1.00
217_V	220_I	0.798	1.00
65_P	69_K	0.791	1.00
283_V	287_V	0.790	1.00
195_Y	201_Y	0.788	1.00
56_V	82_V	0.787	1.00
72_K	82_V	0.783	1.00
239_G	298_A	0.783	1.00
128_S	132_T	0.778	1.00
196_F	199_I	0.775	1.00
58_D	65_P	0.773	1.00
93_T	104_M	0.772	1.00
361_R	371_Q	0.772	1.00
300_L	386_L	0.771	1.00
185_G	190_M	0.769	1.00
67_F	107_I	0.767	1.00
54_I	82_V	0.763	1.00
37_N	257_L	0.761	1.00
308_V	313_D	0.761	1.00
235_L	295_F	0.760	1.00
137_L	140_T	0.760	1.00
132_T	135_Q	0.759	1.00
61_N	64_Y	0.756	1.00
235_L	298_A	0.756	1.00
186_L	191_L	0.752	1.00
32_V	36_T	0.751	1.00
116_S	124_I	0.751	1.00
12_Y	16_I	0.749	1.00
10_H	14_N	0.749	1.00
130_Y	141_K	0.749	1.00
369_F	372_A	0.748	1.00
182_Q	190_M	0.748	1.00
328_G	331_I	0.748	1.00
354_T	357_I	0.747	1.00
6_I	9_S	0.746	1.00
340_D	343_F	0.744	1.00
132_T	137_L	0.741	1.00
134_Q	145_G	0.740	1.00
153_Q	159_L	0.740	1.00
183_T	190_M	0.739	1.00
38_L	256_S	0.735	1.00
37_N	40_S	0.734	1.00
371_Q	374_V	0.729	1.00
116_S	123_T	0.729	1.00
289_F	372_A	0.727	1.00
308_V	317_T	0.726	1.00
377_G	380_L	0.725	1.00
304_L	308_V	0.724	1.00
35_V	38_L	0.724	1.00
146_T	151_V	0.721	1.00
321_M	325_V	0.719	1.00
191_L	203_S	0.718	1.00
133_L	137_L	0.714	1.00
71_L	133_L	0.714	1.00
88_S	92_V	0.714	1.00
64_Y	107_I	0.713	1.00
243_I	247_A	0.711	1.00
334_F	338_A	0.709	1.00
7_M	230_Q	0.708	1.00
290_F	359_F	0.708	1.00
58_D	112_K	0.707	1.00
67_F	111_E	0.705	1.00
183_T	188_Y	0.705	1.00
218_M	230_Q	0.705	1.00
389_I	392_R	0.703	1.00
144_V	148_E	0.703	1.00
372_A	376_I	0.703	1.00
132_T	141_K	0.702	1.00
357_I	361_R	0.702	1.00
116_S	120_K	0.698	1.00
362_V	372_A	0.698	1.00
89_E	92_V	0.696	1.00
195_Y	202_A	0.695	1.00
186_L	192_F	0.693	1.00
285_Y	376_I	0.691	1.00
190_M	193_V	0.691	1.00
339_P	342_G	0.690	1.00
186_L	189_I	0.690	1.00
135_Q	138_T	0.689	1.00
386_L	390_G	0.689	1.00
119_Y	124_I	0.688	1.00
202_A	301_A	0.688	1.00
236_L	240_L	0.686	1.00
25_T	28_T	0.682	1.00
182_Q	191_L	0.681	1.00
380_L	384_V	0.680	1.00
346_V	350_I	0.680	1.00
8_L	12_Y	0.677	1.00
323_L	326_V	0.676	1.00
92_V	95_Q	0.673	1.00
130_Y	138_T	0.673	1.00
142_T	145_G	0.672	1.00
261_Q	286_A	0.670	1.00
11_T	237_G	0.669	1.00
24_S	28_T	0.669	1.00
188_Y	195_Y	0.669	1.00
126_D	133_L	0.664	1.00
212_E	216_R	0.664	1.00
331_I	335_G	0.661	1.00
116_S	122_L	0.661	1.00
358_M	375_G	0.659	0.99
123_T	126_D	0.655	0.99
191_L	197_S	0.653	0.99
261_Q	283_V	0.652	0.99
358_M	361_R	0.650	0.99
245_Q	249_I	0.649	0.99
193_V	196_F	0.648	0.99
129_T	137_L	0.646	0.99
23_I	27_I	0.645	0.99
86_K	89_E	0.645	0.99
87_Q	101_L	0.644	0.99
116_S	121_A	0.644	0.99
118_T	125_S	0.641	0.99
292_L	379_T	0.639	0.99
358_M	372_A	0.638	0.99
4_F	233_A	0.638	0.99
32_V	40_S	0.634	0.99
285_Y	372_A	0.634	0.99
147_A	150_G	0.633	0.99
87_Q	92_V	0.633	0.99
250_I	286_A	0.630	0.99
186_L	193_V	0.629	0.99
71_L	105_L	0.629	0.99
383_I	386_L	0.626	0.99
188_Y	196_F	0.625	0.99
347_T	350_I	0.624	0.99
33_L	36_T	0.624	0.99
361_R	375_G	0.622	0.99
188_Y	199_I	0.620	0.99
130_Y	140_T	0.620	0.99
385_I	388_V	0.619	0.99
145_G	148_E	0.619	0.99
369_F	373_A	0.617	0.99
336_L	353_F	0.616	0.99
372_A	375_G	0.616	0.99
355_P	358_M	0.614	0.99
80_L	103_G	0.613	0.99
67_F	71_L	0.613	0.99
6_I	10_H	0.612	0.99
39_E	42_I	0.611	0.99
186_L	201_Y	0.610	0.99
211_T	214_S	0.608	0.99
206_A	314_V	0.605	0.99
358_M	362_V	0.603	0.99
148_E	151_V	0.600	0.99
297_Y	301_A	0.600	0.99
210_A	216_R	0.598	0.99
184_V	195_Y	0.598	0.99
133_L	140_T	0.597	0.99
62_E	65_P	0.597	0.99
370_W	373_A	0.597	0.99
27_I	31_L	0.597	0.99
92_V	103_G	0.597	0.99
145_G	149_L	0.597	0.99
303_F	306_S	0.597	0.99
83_K	101_L	0.596	0.99
319_T	323_L	0.595	0.99
106_I	116_S	0.594	0.99
379_T	382_T	0.593	0.99
319_T	322_T	0.592	0.99
133_L	145_G	0.592	0.99
136_A	142_T	0.592	0.99
192_F	201_Y	0.592	0.99
380_L	383_I	0.591	0.99
332_A	356_M	0.590	0.99
115_I	124_I	0.588	0.99
358_M	376_I	0.587	0.99
138_T	141_K	0.587	0.99
354_T	382_T	0.586	0.99
239_G	243_I	0.585	0.99
194_I	201_Y	0.584	0.99
187_V	194_I	0.582	0.99
19_K	22_I	0.580	0.99
187_V	200_M	0.580	0.99
191_L	196_F	0.579	0.99
185_G	200_M	0.578	0.99
104_M	120_K	0.576	0.99
367_I	372_A	0.576	0.99
349_F	382_T	0.575	0.99
183_T	189_I	0.569	0.99
260_N	280_A	0.569	0.99
358_M	379_T	0.568	0.99
86_K	92_V	0.567	0.98
166_G	169_A	0.567	0.98
207_M	311_I	0.567	0.98
34_V	38_L	0.566	0.98
15_K	241_V	0.565	0.98
130_Y	137_L	0.562	0.98
189_I	193_V	0.561	0.98
136_A	144_V	0.559	0.98
127_E	140_T	0.559	0.98
65_P	68_S	0.558	0.98
134_Q	144_V	0.558	0.98
208_E	211_T	0.557	0.98
188_Y	360_L	0.556	0.98
95_Q	98_D	0.556	0.98
92_V	96_V	0.556	0.98
232_F	236_L	0.555	0.98
182_Q	185_G	0.555	0.98
183_T	187_V	0.555	0.98
197_S	200_M	0.553	0.98
325_V	352_F	0.549	0.98
36_T	39_E	0.548	0.98
146_T	150_G	0.547	0.98
129_T	133_L	0.547	0.98
29_V	32_V	0.547	0.98
188_Y	198_V	0.545	0.98
331_I	347_T	0.543	0.98
225_M	229_Q	0.540	0.98
183_T	194_I	0.539	0.98
130_Y	145_G	0.538	0.98
99_E	122_L	0.538	0.98
60_T	111_E	0.538	0.98
325_V	328_G	0.537	0.98
29_V	39_E	0.537	0.98
163_V	167_Q	0.535	0.98
258_K	261_Q	0.535	0.98
182_Q	194_I	0.534	0.98
60_T	108_K	0.534	0.98
119_Y	125_S	0.533	0.98
10_H	13_K	0.533	0.98
36_T	40_S	0.533	0.98
187_V	193_V	0.533	0.98
312_E	315_Q	0.529	0.98
29_V	314_V	0.529	0.98
188_Y	201_Y	0.528	0.98
225_M	230_Q	0.527	0.98
316_Q	324_L	0.526	0.98
325_V	350_I	0.525	0.98
368_P	373_A	0.525	0.98
126_D	144_V	0.525	0.98
185_G	194_I	0.523	0.97
387_A	391_A	0.522	0.97
67_F	70_Q	0.522	0.97
128_S	140_T	0.521	0.97
184_V	191_L	0.521	0.97
129_T	138_T	0.518	0.97
134_Q	142_T	0.518	0.97
195_Y	199_I	0.517	0.97
58_D	110_D	0.516	0.97
127_E	133_L	0.516	0.97
247_A	283_V	0.515	0.97
189_I	194_I	0.515	0.97
213_K	216_R	0.515	0.97
117_G	122_L	0.514	0.97
285_Y	289_F	0.513	0.97
287_V	290_F	0.511	0.97
188_Y	202_A	0.510	0.97
61_N	85_S	0.510	0.97
94_K	100_S	0.510	0.97
254_S	258_K	0.510	0.97
39_E	45_F	0.509	0.97
206_A	210_A	0.508	0.97
302_A	390_G	0.507	0.97
57_V	88_S	0.507	0.97
117_G	123_T	0.507	0.97
324_L	327_A	0.507	0.97
133_L	141_K	0.507	0.97
61_N	65_P	0.506	0.97
125_S	128_S	0.506	0.97
291_L	295_F	0.504	0.97
189_I	195_Y	0.504	0.97
331_I	334_F	0.503	0.97
102_D	122_L	0.503	0.97
305_G	314_V	0.501	0.97
135_Q	139_Q	0.501	0.97
247_A	250_I	0.501	0.97
222_I	230_Q	0.501	0.97
86_K	91_E	0.500	0.97

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
3cniA	2	0.3126	99.3	0.794	Contact Map
2p0sA	2	0.3007	99.1	0.81	Contact Map
1dz3A	2	0.2745	44.4	0.946	Contact Map
2plnA	2	0.2673	43.8	0.946	Contact Map
3hv2A	2	0.2888	39.9	0.948	Contact Map
4nicA	2	0.2745	39.3	0.948	Contact Map
4d6yA	2	0.2482	37	0.949	Contact Map
2zayA	1	0.253	36.1	0.949	Contact Map
3n53A	2	0.2434	35.9	0.949	Contact Map
3cg4A	1	0.2625	34.8	0.949	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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