YYXA - BACSU - GREMLIN Contacts

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YYXA - Uncharacterized serine protease YyxA

UniProt:	P39668	Sequences: MVDYEREEEHTTPEQPKRSKKGYFLSSLIGVIVGAVLMAFIMPYLSNEGLDTGALDQQQNNNGRESIRTVNVSVNNAVTKIVSNMSPAVVGVVNIQKSDIWGESGEAGSGSGVIYKKNDHSAYVVTNHHVIEGASQIEISLKDGSRVSADLVGSDQLMDLAVLRVKSDKIKAVADFGNSDKVKSGEPVIAIGNPLGLEFAGSVTQGVISGTERAIPVDSNGDGQPDWNAEVLQTDAAINPGNSGGALLNMDGKVIGINSMKIAESAVEGIGLSIPSKLVIPVIEDLERYGKVKRPFLGIEMKSLSDIASYHWDETLKLPKNVTNGAVVMGVDAFSPAGKAGLKELDVITEFDGYKVNDIVDLRKRLYQKKVGDRVKVKFYRGGKEKSVDIKLSSADQLGS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	400 (319)
Sequences:	8238 (5554)
Seq/√Len:	311.0

ECOLI - DEGP DEGQ DEGS
BACSU - YYXA HTRB HTRA
HALSA - Q9HSH6
SULSO - Q97VL1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
249_N	253_K	5.333	1.00
83_S	183_K	4.692	1.00
350_E	378_K	4.239	1.00
379_F	388_V	4.065	1.00
178_N	277_K	3.629	1.00
116_K	121_S	3.437	1.00
352_D	369_K	3.343	1.00
128_H	154_S	3.181	1.00
175_D	253_K	3.030	1.00
374_R	389_D	2.997	1.00
378_K	385_E	2.972	1.00
376_K	387_S	2.821	1.00
178_N	181_K	2.793	1.00
174_A	254_V	2.757	1.00
88_A	173_V	2.695	1.00
376_K	389_D	2.551	1.00
150_D	166_K	2.439	1.00
149_A	163_L	2.414	1.00
137_I	151_L	2.407	1.00
180_D	277_K	2.398	1.00
379_F	386_K	2.219	1.00
238_I	271_G	2.191	1.00
162_V	287_E	2.186	1.00
167_S	170_I	2.126	1.00
350_E	353_G	2.078	1.00
136_Q	148_S	2.072	1.00
138_E	146_R	2.015	1.00
113_V	257_I	2.011	1.00
349_T	380_Y	1.988	1.00
297_L	390_I	1.956	1.00
374_R	391_K	1.953	1.00
300_E	330_G	1.921	1.00
378_K	387_S	1.912	1.00
208_I	232_L	1.909	1.00
357_N	361_D	1.907	1.00
350_E	355_K	1.890	1.00
79_T	186_E	1.884	1.00
113_V	246_A	1.882	1.00
95_I	136_Q	1.881	1.00
113_V	174_A	1.858	1.00
147_V	165_V	1.857	1.00
113_V	254_V	1.854	1.00
160_L	257_I	1.853	1.00
342_L	377_V	1.851	1.00
125_V	279_V	1.850	1.00
176_F	280_I	1.822	1.00
176_F	276_S	1.820	1.00
82_V	203_V	1.819	1.00
284_E	288_R	1.818	1.00
334_F	338_G	1.801	1.00
285_D	289_Y	1.781	1.00
370_K	373_D	1.744	1.00
293_K	394_S	1.742	1.00
346_D	381_R	1.698	1.00
301_M	359_I	1.694	1.00
125_V	283_I	1.682	1.00
289_Y	293_K	1.674	1.00
187_P	205_Q	1.637	1.00
303_S	359_I	1.633	1.00
349_T	385_E	1.626	1.00
339_K	393_S	1.625	1.00
141_L	147_V	1.622	1.00
342_L	379_F	1.619	1.00
121_S	164_R	1.618	1.00
138_E	148_S	1.581	1.00
369_K	373_D	1.562	1.00
174_A	248_L	1.559	1.00
369_K	392_L	1.539	1.00
79_T	183_K	1.524	1.00
85_M	174_A	1.523	1.00
78_V	187_P	1.513	1.00
246_A	254_V	1.505	1.00
123_Y	164_R	1.503	1.00
354_Y	365_R	1.499	1.00
358_D	361_D	1.497	1.00
150_D	164_R	1.470	1.00
85_M	248_L	1.453	1.00
123_Y	152_V	1.451	1.00
182_V	255_I	1.424	1.00
296_F	336_P	1.410	1.00
257_I	279_V	1.409	1.00
94_N	137_I	1.404	1.00
351_F	369_K	1.403	1.00
296_F	396_D	1.402	1.00
167_S	171_K	1.397	1.00
349_T	378_K	1.395	1.00
114_I	141_L	1.387	1.00
381_R	386_K	1.381	1.00
291_K	394_S	1.376	1.00
328_V	342_L	1.375	1.00
280_I	284_E	1.374	1.00
123_Y	287_E	1.370	1.00
324_N	355_K	1.367	1.00
93_V	140_S	1.347	1.00
88_A	174_A	1.341	1.00
295_P	371_V	1.338	1.00
380_Y	385_E	1.335	1.00
115_Y	283_I	1.323	1.00
333_A	338_G	1.321	1.00
90_V	124_V	1.307	1.00
77_A	186_E	1.293	1.00
369_K	375_V	1.290	1.00
342_L	388_V	1.284	1.00
179_S	277_K	1.283	1.00
336_P	393_S	1.279	1.00
187_P	250_M	1.269	1.00
212_E	230_E	1.254	1.00
78_V	205_Q	1.254	1.00
116_K	123_Y	1.211	1.00
184_S	211_T	1.209	1.00
147_V	167_S	1.202	1.00
305_S	308_A	1.193	1.00
375_V	392_L	1.192	1.00
128_H	132_E	1.185	1.00
195_L	262_I	1.183	1.00
182_V	232_L	1.180	1.00
182_V	208_I	1.172	1.00
81_I	248_L	1.163	1.00
324_N	357_N	1.154	1.00
124_V	165_V	1.149	1.00
264_E	268_E	1.144	1.00
177_G	276_S	1.142	1.00
96_Q	106_E	1.140	1.00
332_D	335_S	1.132	1.00
352_D	376_K	1.125	1.00
188_V	208_I	1.124	1.00
296_F	332_D	1.123	1.00
84_N	175_D	1.121	1.00
92_V	163_L	1.120	1.00
155_D	158_M	1.117	1.00
302_K	329_M	1.117	1.00
111_S	246_A	1.112	1.00
211_T	232_L	1.108	1.00
168_D	171_K	1.106	1.00
80_K	183_K	1.103	1.00
141_L	145_S	1.093	1.00
81_I	189_I	1.092	1.00
123_Y	162_V	1.084	1.00
134_A	137_I	1.079	1.00
140_S	146_R	1.078	1.00
234_T	247_L	1.078	1.00
189_I	250_M	1.067	1.00
157_L	395_A	1.065	1.00
177_G	182_V	1.055	1.00
330_G	344_E	1.053	1.00
116_K	122_A	1.053	1.00
128_H	156_Q	1.052	1.00
328_V	348_I	1.048	1.00
82_V	189_I	1.046	1.00
352_D	365_R	1.044	1.00
165_V	170_I	1.042	1.00
327_V	345_L	1.034	1.00
190_A	247_L	1.033	1.00
331_V	335_S	1.033	1.00
151_L	154_S	1.032	1.00
279_V	283_I	1.019	1.00
92_V	139_I	1.012	1.00
90_V	112_G	1.010	1.00
112_G	124_V	1.005	1.00
153_G	286_L	1.003	1.00
77_A	80_K	1.001	1.00
132_E	156_Q	0.987	1.00
303_S	358_D	0.986	1.00
78_V	189_I	0.981	1.00
351_F	377_V	0.976	1.00
283_I	287_E	0.971	1.00
284_E	287_E	0.969	1.00
305_S	309_S	0.968	1.00
129_H	159_D	0.966	1.00
122_A	164_R	0.963	1.00
195_L	267_V	0.961	1.00
203_V	207_V	0.961	1.00
117_K	173_V	0.961	1.00
281_P	285_D	0.960	1.00
81_I	85_M	0.959	1.00
380_Y	383_G	0.955	1.00
351_F	375_V	0.946	1.00
85_M	191_I	0.943	1.00
261_K	267_V	0.941	1.00
117_K	170_I	0.940	1.00
351_F	362_L	0.940	1.00
158_M	294_R	0.932	1.00
129_H	243_S	0.914	1.00
141_L	165_V	0.901	1.00
158_M	282_V	0.897	1.00
343_K	381_R	0.896	1.00
190_A	258_N	0.894	1.00
95_I	105_G	0.887	1.00
86_S	201_G	0.880	1.00
188_V	255_I	0.875	1.00
193_N	198_E	0.874	1.00
198_E	201_G	0.872	1.00
356_V	365_R	0.868	1.00
300_E	332_D	0.866	1.00
95_I	107_A	0.865	1.00
82_V	86_S	0.861	1.00
155_D	294_R	0.852	1.00
116_K	287_E	0.851	1.00
89_V	246_A	0.851	1.00
95_I	138_E	0.847	1.00
139_I	149_A	0.847	1.00
340_A	390_I	0.846	1.00
353_G	376_K	0.845	1.00
114_I	171_K	0.845	1.00
295_P	392_L	0.845	1.00
124_V	163_L	0.844	1.00
98_S	102_G	0.840	1.00
377_V	390_I	0.839	1.00
247_L	258_N	0.839	1.00
97_K	103_E	0.834	1.00
94_N	109_S	0.833	1.00
162_V	283_I	0.831	1.00
301_M	326_A	0.830	1.00
183_K	186_E	0.826	1.00
182_V	211_T	0.823	1.00
86_S	142_K	0.822	1.00
127_N	274_I	0.818	1.00
139_I	165_V	0.817	1.00
261_K	268_E	0.816	1.00
351_F	366_L	0.815	1.00
238_I	258_N	0.811	1.00
188_V	250_M	0.809	1.00
176_F	254_V	0.807	1.00
97_K	135_S	0.805	1.00
350_E	385_E	0.802	1.00
319_P	322_V	0.802	1.00
80_K	84_N	0.799	1.00
326_A	356_V	0.799	1.00
236_A	271_G	0.797	1.00
114_I	165_V	0.795	1.00
78_V	82_V	0.794	1.00
152_V	164_R	0.793	1.00
331_V	344_E	0.792	1.00
377_V	388_V	0.791	1.00
195_L	268_E	0.787	1.00
365_R	369_K	0.783	1.00
218_D	226_D	0.777	0.99
153_G	162_V	0.775	0.99
331_V	341_G	0.773	0.99
129_H	241_G	0.771	0.99
300_E	329_M	0.768	0.99
254_V	276_S	0.768	0.99
298_G	336_P	0.766	0.99
343_K	382_G	0.765	0.99
263_A	267_V	0.760	0.99
337_A	340_A	0.758	0.99
285_D	290_G	0.756	0.99
304_L	309_S	0.749	0.99
299_I	326_A	0.742	0.99
182_V	188_V	0.740	0.99
301_M	362_L	0.740	0.99
213_R	233_Q	0.739	0.99
115_Y	287_E	0.738	0.99
91_G	108_G	0.735	0.99
110_G	130_V	0.734	0.99
94_N	135_S	0.733	0.99
374_R	392_L	0.731	0.99
205_Q	235_D	0.731	0.99
325_G	347_V	0.727	0.99
91_G	198_E	0.726	0.99
215_I	231_V	0.725	0.99
365_R	368_Q	0.725	0.99
160_L	283_I	0.721	0.99
304_L	323_T	0.719	0.99
74_V	77_A	0.717	0.99
282_V	286_L	0.715	0.99
240_P	264_E	0.715	0.99
297_L	377_V	0.715	0.99
116_K	173_V	0.712	0.99
94_N	134_A	0.710	0.99
352_D	375_V	0.710	0.99
371_V	393_S	0.709	0.99
217_V	231_V	0.709	0.99
145_S	169_K	0.706	0.99
74_V	187_P	0.702	0.99
332_D	338_G	0.701	0.99
114_I	173_V	0.693	0.99
179_S	182_V	0.693	0.99
239_N	242_N	0.691	0.99
361_D	365_R	0.691	0.99
117_K	121_S	0.691	0.99
93_V	138_E	0.690	0.99
297_L	392_L	0.687	0.99
285_D	292_V	0.684	0.99
230_E	278_L	0.684	0.99
159_D	243_S	0.682	0.99
233_Q	272_L	0.681	0.99
162_V	286_L	0.676	0.99
351_F	365_R	0.675	0.99
373_D	392_L	0.674	0.99
366_L	369_K	0.673	0.99
339_K	391_K	0.673	0.99
277_K	280_I	0.672	0.99
115_Y	162_V	0.672	0.99
91_G	193_N	0.667	0.98
381_R	388_V	0.666	0.98
58_Q	61_N	0.665	0.98
306_D	314_E	0.665	0.98
125_V	160_L	0.663	0.98
218_D	229_A	0.662	0.98
276_S	279_V	0.662	0.98
353_G	378_K	0.662	0.98
94_N	108_G	0.660	0.98
126_T	161_A	0.656	0.98
115_Y	125_V	0.655	0.98
379_F	387_S	0.653	0.98
256_G	273_S	0.652	0.98
331_V	338_G	0.651	0.98
92_V	149_A	0.644	0.98
263_A	266_A	0.644	0.98
296_F	395_A	0.643	0.98
114_I	170_I	0.643	0.98
109_S	197_L	0.642	0.98
302_K	327_V	0.642	0.98
328_V	388_V	0.642	0.98
356_V	377_V	0.641	0.98
142_K	201_G	0.641	0.98
297_L	362_L	0.639	0.98
81_I	84_N	0.639	0.98
96_Q	135_S	0.637	0.98
93_V	146_R	0.636	0.98
93_V	109_S	0.635	0.98
381_R	384_K	0.634	0.98
97_K	105_G	0.633	0.98
121_S	173_V	0.632	0.98
289_Y	292_V	0.632	0.98
229_A	259_S	0.632	0.98
113_V	160_L	0.631	0.98
348_I	356_V	0.630	0.98
335_S	338_G	0.628	0.98
285_D	288_R	0.627	0.98
359_I	363_R	0.627	0.98
213_R	272_L	0.626	0.98
375_V	390_I	0.625	0.98
195_L	261_K	0.620	0.98
209_S	233_Q	0.620	0.98
308_A	316_L	0.620	0.98
91_G	109_S	0.618	0.97
131_I	154_S	0.618	0.97
301_M	363_R	0.617	0.97
351_F	356_V	0.617	0.97
127_N	130_V	0.617	0.97
372_G	391_K	0.614	0.97
77_A	187_P	0.612	0.97
159_D	241_G	0.611	0.97
343_K	386_K	0.610	0.97
386_K	389_D	0.610	0.97
384_K	389_D	0.608	0.97
356_V	362_L	0.608	0.97
247_L	273_S	0.607	0.97
246_A	258_N	0.604	0.97
319_P	380_Y	0.603	0.97
189_I	205_Q	0.602	0.97
330_G	333_A	0.601	0.97
276_S	280_I	0.601	0.97
94_N	106_E	0.599	0.97
127_N	159_D	0.599	0.97
137_I	163_L	0.597	0.97
336_P	340_A	0.594	0.97
193_N	196_G	0.591	0.97
237_A	267_V	0.591	0.97
304_L	318_L	0.589	0.97
117_K	122_A	0.588	0.97
228_N	367_Y	0.585	0.97
130_V	243_S	0.584	0.96
113_V	125_V	0.584	0.96
81_I	191_I	0.582	0.96
148_S	166_K	0.580	0.96
127_N	258_N	0.578	0.96
215_I	227_W	0.578	0.96
188_V	205_Q	0.576	0.96
178_N	280_I	0.576	0.96
363_R	366_L	0.575	0.96
302_K	308_A	0.574	0.96
303_S	326_A	0.572	0.96
131_I	137_I	0.572	0.96
334_F	339_K	0.572	0.96
258_N	273_S	0.570	0.96
362_L	377_V	0.570	0.96
193_N	260_M	0.569	0.96
191_I	248_L	0.569	0.96
262_I	267_V	0.569	0.96
326_A	359_I	0.569	0.96
153_G	282_V	0.568	0.96
176_F	283_I	0.565	0.96
217_V	260_M	0.564	0.96
209_S	239_N	0.564	0.96
179_S	276_S	0.564	0.96
354_Y	368_Q	0.564	0.96
303_S	360_V	0.563	0.96
64_R	67_I	0.562	0.96
299_I	342_L	0.561	0.96
217_V	229_A	0.560	0.96
132_E	154_S	0.559	0.95
209_S	213_R	0.559	0.95
114_I	124_V	0.558	0.95
227_W	363_R	0.557	0.95
231_V	259_S	0.556	0.95
304_L	327_V	0.556	0.95
86_S	184_S	0.555	0.95
115_Y	123_Y	0.554	0.95
343_K	346_D	0.554	0.95
78_V	207_V	0.553	0.95
295_P	373_D	0.553	0.95
60_N	63_G	0.553	0.95
189_I	203_V	0.553	0.95
286_L	292_V	0.552	0.95
249_N	255_I	0.551	0.95
76_N	80_K	0.549	0.95
304_L	347_V	0.546	0.95
363_R	367_Y	0.546	0.95
124_V	171_K	0.545	0.95
260_M	263_A	0.545	0.95
216_P	226_D	0.545	0.95
145_S	167_S	0.544	0.95
124_V	170_I	0.544	0.95
110_G	129_H	0.542	0.95
130_V	241_G	0.540	0.95
348_I	362_L	0.540	0.95
177_G	255_I	0.540	0.95
188_V	247_L	0.539	0.95
282_V	292_V	0.539	0.95
229_A	278_L	0.539	0.95
371_V	392_L	0.536	0.94
174_A	276_S	0.536	0.94
69_T	72_V	0.535	0.94
81_I	174_A	0.535	0.94
261_K	270_I	0.534	0.94
87_P	142_K	0.529	0.94
296_F	301_M	0.528	0.94
338_G	341_G	0.527	0.94
304_L	308_A	0.527	0.94
186_E	249_N	0.526	0.94
58_Q	62_N	0.526	0.94
158_M	278_L	0.525	0.94
96_Q	107_A	0.525	0.94
194_P	197_L	0.525	0.94
80_K	83_S	0.524	0.94
160_L	276_S	0.524	0.94
361_D	364_K	0.523	0.94
281_P	370_K	0.523	0.94
293_K	392_L	0.522	0.94
352_D	373_D	0.521	0.93
96_Q	133_G	0.521	0.93
113_V	248_L	0.520	0.93
326_A	362_L	0.520	0.93
127_N	242_N	0.520	0.93
195_L	202_S	0.519	0.93
78_V	203_V	0.519	0.93
209_S	242_N	0.518	0.93
127_N	246_A	0.517	0.93
129_H	233_Q	0.516	0.93
180_D	211_T	0.516	0.93
122_A	165_V	0.516	0.93
76_N	187_P	0.515	0.93
234_T	273_S	0.515	0.93
96_Q	108_G	0.515	0.93
71_N	75_N	0.514	0.93
204_T	209_S	0.512	0.93
329_M	344_E	0.511	0.93
177_G	181_K	0.511	0.93
278_L	282_V	0.510	0.93
89_V	155_D	0.510	0.93
353_G	387_S	0.510	0.93
337_A	342_L	0.509	0.93
214_A	231_V	0.508	0.93
326_A	363_R	0.508	0.93
71_N	74_V	0.507	0.93
364_K	368_Q	0.506	0.92
240_P	261_K	0.506	0.92
115_Y	173_V	0.505	0.92
74_V	78_V	0.503	0.92
145_S	170_I	0.501	0.92
61_N	65_E	0.501	0.92
232_L	247_L	0.501	0.92
109_S	193_N	0.500	0.92
340_A	388_V	0.500	0.92
166_K	170_I	0.500	0.92

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
1ky9A	5	0.755	100	0.359	Contact Map
3stjA	6	0.745	100	0.376	Contact Map
3pv2A	6	0.73	100	0.38	Contact Map
4a8cA	5	0.76	100	0.383	Contact Map
1lcyA	3	0.73	100	0.411	Contact Map
4ri0A	3	0.7625	100	0.426	Contact Map
3numA	3	0.475	100	0.43	Contact Map
4ic6A	4	0.775	100	0.432	Contact Map
3qo6A	5	0.7825	100	0.433	Contact Map
1te0A	6	0.7825	100	0.438	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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