YRVN - BACSU - GREMLIN Contacts

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YRVN - Uncharacterized AAA domain-containing protein YrvN

UniProt:	O34528	Sequences: MKPLAYRMRPTKIEDIIGQQHLVAEDKIIGRMVQAKHLSSMILYGPPGIGKTSIATAIAGSTSIAFRKLNAVINNKKDMEIVAQEAKMSGQVILILDEVHRLDKGKQDFLLPYLENGMIILIGATTANPYHAINPAIRSRTQIFELEPLTPELIKQALERALHDEHRGLGTYSVSIDDQAMEHFAHGCGGDVRSALNALELAVLSTKESADGEIHITLETAEECLQKKSFSHDKDGDAHYDVLSAFQKSIRGSDANAALHYLARLIEAGDLESIARRLLVIAYEDIGLASPQAGPRVLNAIQTAERVGFPEARIPLANAVIELCLSPKSNSAILAIDEALADIRAGKIGDVPKHLKDAHYKGAQELGRGIDYKYPHNYDNGWVEQQYLPDPLKNKQYYKPKQTGKFESALKQVYDKLMKRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	421 (356)
Sequences:	9235 (6195)
Seq/√Len:	328.3

ECOLI - RARA DPO3X RUVB
BACSU - YRVN DPO3X RUVB
HALSA - RFCL RFCS
SULSO - RFCL RFCS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
20_Q	153_L	4.913	1.00
159_E	178_D	3.696	1.00
155_K	182_E	3.524	1.00
160_R	164_D	3.296	1.00
150_T	153_L	3.128	1.00
159_E	181_M	3.001	1.00
155_K	159_E	2.936	1.00
30_G	34_Q	2.929	1.00
20_Q	156_Q	2.719	1.00
218_L	222_E	2.714	1.00
250_I	281_I	2.713	1.00
149_L	192_V	2.683	1.00
16_I	57_A	2.597	1.00
16_I	54_I	2.502	1.00
217_T	220_T	2.488	1.00
12_K	15_D	2.455	1.00
177_D	215_H	2.376	1.00
159_E	163_H	2.337	1.00
175_S	215_H	2.293	1.00
158_L	195_A	2.269	1.00
74_N	103_D	2.235	1.00
77_K	81_I	2.198	1.00
157_A	192_V	2.197	1.00
292_Q	295_P	2.161	1.00
176_I	181_M	2.158	1.00
16_I	23_V	2.120	1.00
154_I	195_A	2.110	1.00
155_K	181_M	2.092	1.00
302_Q	306_R	2.084	1.00
74_N	105_G	2.077	1.00
232_H	235_D	2.076	1.00
259_L	262_L	2.039	1.00
247_Q	250_I	2.013	1.00
56_T	68_K	1.895	1.00
260_H	264_R	1.887	1.00
335_A	340_L	1.876	1.00
247_Q	253_S	1.863	1.00
257_A	262_L	1.844	1.00
157_A	160_R	1.811	1.00
257_A	264_R	1.778	1.00
158_L	181_M	1.767	1.00
219_E	222_E	1.765	1.00
335_A	339_A	1.753	1.00
14_E	30_G	1.742	1.00
232_H	237_D	1.689	1.00
188_C	195_A	1.680	1.00
174_V	203_V	1.672	1.00
84_Q	87_K	1.671	1.00
81_I	85_E	1.669	1.00
22_L	144_F	1.662	1.00
185_A	195_A	1.659	1.00
249_S	253_S	1.642	1.00
332_A	339_A	1.634	1.00
177_D	180_A	1.615	1.00
250_I	253_S	1.610	1.00
244_S	247_Q	1.594	1.00
267_E	344_R	1.594	1.00
264_R	268_A	1.589	1.00
43_L	146_L	1.584	1.00
295_P	299_N	1.580	1.00
298_L	301_I	1.567	1.00
305_E	308_G	1.562	1.00
154_I	192_V	1.550	1.00
151_P	182_E	1.550	1.00
247_Q	252_G	1.537	1.00
257_A	263_A	1.503	1.00
155_K	185_A	1.502	1.00
42_I	141_T	1.495	1.00
11_T	15_D	1.491	1.00
91_Q	120_I	1.486	1.00
249_S	254_D	1.474	1.00
341_A	345_A	1.468	1.00
65_A	85_E	1.461	1.00
336_I	340_L	1.458	1.00
99_V	121_L	1.447	1.00
235_D	238_A	1.438	1.00
283_Y	287_G	1.433	1.00
7_R	165_E	1.432	1.00
290_S	326_S	1.432	1.00
259_L	263_A	1.430	1.00
292_Q	296_R	1.429	1.00
301_I	306_R	1.428	1.00
44_Y	145_E	1.422	1.00
287_G	291_P	1.421	1.00
65_A	90_G	1.406	1.00
339_A	342_D	1.404	1.00
360_Y	363_A	1.401	1.00
260_H	263_A	1.396	1.00
127_A	131_H	1.392	1.00
62_T	120_I	1.391	1.00
238_A	241_D	1.370	1.00
179_Q	218_L	1.366	1.00
262_L	265_L	1.366	1.00
300_A	319_A	1.351	1.00
162_L	199_L	1.344	1.00
346_G	349_G	1.336	1.00
161_A	196_L	1.326	1.00
241_D	245_A	1.325	1.00
279_L	282_A	1.318	1.00
75_N	78_D	1.315	1.00
76_K	105_G	1.315	1.00
353_K	356_K	1.313	1.00
67_R	85_E	1.306	1.00
76_K	80_E	1.306	1.00
219_E	223_E	1.301	1.00
15_D	160_R	1.296	1.00
233_D	236_G	1.294	1.00
79_M	83_A	1.291	1.00
282_A	285_D	1.285	1.00
298_L	302_Q	1.282	1.00
302_Q	305_E	1.278	1.00
312_A	315_P	1.276	1.00
151_P	185_A	1.273	1.00
251_R	254_D	1.270	1.00
243_L	247_Q	1.246	1.00
83_A	113_Y	1.242	1.00
333_I	337_D	1.241	1.00
357_D	363_A	1.240	1.00
183_H	218_L	1.235	1.00
54_I	146_L	1.234	1.00
295_P	298_L	1.229	1.00
261_Y	265_L	1.228	1.00
261_Y	264_R	1.218	1.00
152_E	156_Q	1.215	1.00
220_T	223_E	1.214	1.00
357_D	360_Y	1.214	1.00
240_Y	250_I	1.210	1.00
336_I	339_A	1.208	1.00
262_L	268_A	1.204	1.00
263_A	267_E	1.200	1.00
256_N	260_H	1.184	1.00
17_I	157_A	1.182	1.00
339_A	343_I	1.180	1.00
8_M	165_E	1.179	1.00
359_H	362_G	1.179	1.00
162_L	176_I	1.176	1.00
74_N	78_D	1.176	1.00
270_D	275_A	1.175	1.00
240_Y	251_R	1.174	1.00
244_S	250_I	1.173	1.00
337_D	340_L	1.170	1.00
259_L	264_R	1.169	1.00
247_Q	254_D	1.163	1.00
154_I	185_A	1.158	1.00
342_D	346_G	1.153	1.00
297_V	300_A	1.152	1.00
359_H	363_A	1.148	1.00
225_L	229_S	1.147	1.00
278_L	281_I	1.140	1.00
257_A	261_Y	1.134	1.00
262_L	269_G	1.133	1.00
286_I	289_A	1.131	1.00
293_A	297_V	1.130	1.00
66_F	95_I	1.130	1.00
294_G	297_V	1.129	1.00
242_V	245_A	1.127	1.00
226_Q	229_S	1.121	1.00
286_I	290_S	1.116	1.00
151_P	186_H	1.114	1.00
246_F	254_D	1.111	1.00
343_I	346_G	1.103	1.00
248_K	251_R	1.103	1.00
334_L	337_D	1.101	1.00
21_H	147_E	1.098	1.00
248_K	252_G	1.092	1.00
254_D	257_A	1.091	1.00
11_T	60_G	1.089	1.00
163_H	176_I	1.083	1.00
8_M	164_D	1.064	1.00
255_A	262_L	1.064	1.00
181_M	185_A	1.064	1.00
182_E	186_H	1.063	1.00
246_F	253_S	1.061	1.00
95_I	124_A	1.055	1.00
244_S	252_G	1.051	1.00
221_A	226_Q	1.051	1.00
175_S	178_D	1.050	1.00
249_S	252_G	1.049	1.00
296_R	300_A	1.048	1.00
271_L	275_A	1.048	1.00
261_Y	268_A	1.047	1.00
363_A	368_R	1.031	1.00
24_A	30_G	1.028	1.00
76_K	109_F	1.025	1.00
239_H	253_S	1.021	1.00
81_I	84_Q	1.021	1.00
245_A	249_S	1.019	1.00
278_L	320_V	1.018	1.00
36_K	62_T	1.017	1.00
154_I	158_L	1.013	1.00
44_Y	143_I	1.012	1.00
132_A	234_K	1.010	1.00
247_Q	251_R	1.009	1.00
218_L	221_A	0.989	1.00
78_D	81_I	0.988	1.00
52_T	97_D	0.982	1.00
237_D	247_Q	0.975	1.00
178_D	182_E	0.975	1.00
151_P	155_K	0.973	1.00
338_E	342_D	0.972	1.00
317_A	321_I	0.972	1.00
257_A	260_H	0.970	1.00
214_I	220_T	0.968	1.00
158_L	199_L	0.963	1.00
76_K	103_D	0.952	1.00
304_A	312_A	0.952	1.00
260_H	265_L	0.947	1.00
300_A	303_T	0.947	1.00
294_G	300_A	0.940	1.00
285_D	289_A	0.936	1.00
256_N	262_L	0.936	1.00
148_P	189_G	0.936	1.00
266_I	309_F	0.934	1.00
313_R	337_D	0.932	1.00
246_F	251_R	0.926	1.00
290_S	293_A	0.924	1.00
263_A	268_A	0.921	1.00
265_L	269_G	0.921	1.00
313_R	317_A	0.920	1.00
240_Y	247_Q	0.917	1.00
240_Y	246_F	0.915	1.00
263_A	269_G	0.911	1.00
234_K	237_D	0.910	1.00
156_Q	159_E	0.910	1.00
285_D	288_L	0.907	1.00
318_N	322_E	0.906	1.00
360_Y	366_L	0.906	1.00
275_A	278_L	0.903	1.00
259_L	266_I	0.899	1.00
192_V	195_A	0.899	1.00
337_D	341_A	0.899	1.00
362_G	366_L	0.895	1.00
355_L	362_G	0.893	1.00
338_E	341_A	0.889	1.00
221_A	224_C	0.888	1.00
239_H	251_R	0.887	1.00
258_A	263_A	0.886	1.00
300_A	308_G	0.884	1.00
283_Y	318_N	0.881	1.00
299_N	303_T	0.879	1.00
220_T	224_C	0.878	1.00
184_F	195_A	0.876	1.00
250_I	323_L	0.875	1.00
340_L	344_R	0.873	1.00
244_S	248_K	0.872	1.00
356_K	362_G	0.871	1.00
259_L	269_G	0.870	1.00
258_A	262_L	0.868	1.00
262_L	266_I	0.865	1.00
357_D	362_G	0.864	1.00
214_I	226_Q	0.864	1.00
287_G	290_S	0.863	1.00
340_L	343_I	0.860	1.00
28_I	144_F	0.853	1.00
283_Y	286_I	0.852	1.00
206_T	220_T	0.852	1.00
293_A	296_R	0.850	1.00
360_Y	364_Q	0.850	1.00
239_H	242_V	0.844	1.00
215_H	224_C	0.838	1.00
57_A	61_S	0.836	1.00
272_E	275_A	0.836	1.00
235_D	239_H	0.834	1.00
358_A	369_G	0.833	1.00
257_A	268_A	0.832	1.00
87_K	116_N	0.831	1.00
297_V	305_E	0.831	1.00
367_G	370_I	0.828	1.00
242_V	246_F	0.827	1.00
183_H	186_H	0.826	1.00
152_E	155_K	0.824	1.00
232_H	236_G	0.822	1.00
263_A	266_I	0.821	1.00
335_A	343_I	0.818	1.00
316_L	323_L	0.813	1.00
297_V	308_G	0.808	1.00
267_E	340_L	0.807	1.00
353_K	371_D	0.806	1.00
239_H	243_L	0.804	1.00
246_F	252_G	0.804	1.00
264_R	269_G	0.804	1.00
248_K	253_S	0.801	1.00
237_D	250_I	0.800	1.00
69_L	83_A	0.800	1.00
282_A	289_A	0.800	1.00
288_L	318_N	0.800	1.00
184_F	198_A	0.800	1.00
148_P	191_D	0.796	1.00
342_D	345_A	0.795	1.00
217_T	222_E	0.795	1.00
245_A	253_S	0.793	1.00
20_Q	24_A	0.792	1.00
243_L	248_K	0.790	1.00
298_L	303_T	0.787	1.00
275_A	279_L	0.786	1.00
96_L	110_L	0.783	1.00
58_I	122_I	0.781	1.00
239_H	250_I	0.778	1.00
239_H	244_S	0.777	1.00
233_D	237_D	0.774	1.00
248_K	254_D	0.770	1.00
332_A	335_A	0.770	1.00
177_D	217_T	0.768	1.00
217_T	229_S	0.768	1.00
153_L	156_Q	0.766	1.00
41_M	144_F	0.765	1.00
57_A	60_G	0.763	1.00
301_I	305_E	0.759	1.00
301_I	304_A	0.758	1.00
255_A	259_L	0.757	1.00
224_C	227_K	0.754	0.99
112_P	116_N	0.753	0.99
67_R	82_V	0.752	0.99
241_D	247_Q	0.752	0.99
67_R	92_V	0.752	0.99
334_L	338_E	0.751	0.99
333_I	339_A	0.750	0.99
312_A	316_L	0.749	0.99
351_V	357_D	0.749	0.99
39_S	120_I	0.747	0.99
244_S	251_R	0.746	0.99
360_Y	368_R	0.737	0.99
79_M	102_L	0.734	0.99
282_A	286_I	0.734	0.99
56_T	116_N	0.733	0.99
216_I	228_K	0.733	0.99
321_I	325_L	0.732	0.99
352_P	358_A	0.730	0.99
246_F	250_I	0.729	0.99
240_Y	249_S	0.729	0.99
214_I	217_T	0.727	0.99
239_H	254_D	0.725	0.99
293_A	308_G	0.723	0.99
244_S	253_S	0.723	0.99
329_S	332_A	0.722	0.99
69_L	78_D	0.722	0.99
352_P	356_K	0.717	0.99
280_V	283_Y	0.716	0.99
8_M	161_A	0.716	0.99
259_L	268_A	0.716	0.99
215_H	218_L	0.713	0.99
326_S	329_S	0.712	0.99
293_A	307_V	0.710	0.99
49_I	146_L	0.710	0.99
222_E	229_S	0.708	0.99
297_V	304_A	0.708	0.99
240_Y	254_D	0.705	0.99
187_G	225_L	0.705	0.99
336_I	346_G	0.702	0.99
318_N	321_I	0.700	0.99
346_G	350_D	0.700	0.99
298_L	306_R	0.698	0.99
215_H	226_Q	0.697	0.99
222_E	226_Q	0.697	0.99
75_N	79_M	0.696	0.99
224_C	228_K	0.695	0.99
250_I	254_D	0.693	0.99
238_A	242_V	0.692	0.99
149_L	153_L	0.691	0.99
115_E	136_A	0.687	0.99
264_R	267_E	0.687	0.99
243_L	273_S	0.686	0.99
369_G	372_Y	0.685	0.99
242_V	247_Q	0.684	0.99
240_Y	248_K	0.683	0.99
335_A	342_D	0.683	0.99
250_I	278_L	0.682	0.99
281_I	286_I	0.682	0.99
284_E	287_G	0.681	0.99
292_Q	297_V	0.681	0.99
279_L	283_Y	0.679	0.99
73_I	113_Y	0.678	0.99
93_I	122_I	0.678	0.99
245_A	251_R	0.676	0.99
83_A	119_I	0.673	0.99
281_I	284_E	0.670	0.99
216_I	222_E	0.670	0.99
272_E	301_I	0.669	0.99
294_G	303_T	0.668	0.99
310_P	314_I	0.667	0.99
256_N	264_R	0.666	0.99
280_V	284_E	0.662	0.99
245_A	250_I	0.661	0.99
361_K	365_E	0.661	0.99
222_E	225_L	0.659	0.99
239_H	249_S	0.657	0.99
23_V	30_G	0.655	0.99
363_A	366_L	0.654	0.99
273_S	277_R	0.654	0.99
247_Q	280_V	0.654	0.99
44_Y	130_Y	0.653	0.99
181_M	195_A	0.652	0.99
281_I	285_D	0.651	0.98
259_L	335_A	0.649	0.98
255_A	263_A	0.647	0.98
315_P	318_N	0.646	0.98
243_L	253_S	0.646	0.98
217_T	226_Q	0.645	0.98
270_D	273_S	0.638	0.98
259_L	265_L	0.638	0.98
188_C	191_D	0.637	0.98
46_P	49_I	0.636	0.98
293_A	301_I	0.633	0.98
271_L	274_I	0.633	0.98
296_R	307_V	0.630	0.98
284_E	288_L	0.630	0.98
275_A	282_A	0.627	0.98
101_R	108_D	0.625	0.98
279_L	286_I	0.624	0.98
130_Y	145_E	0.624	0.98
102_L	106_K	0.624	0.98
277_R	282_A	0.624	0.98
33_V	58_I	0.623	0.98
242_V	252_G	0.622	0.98
221_A	229_S	0.619	0.98
342_D	347_K	0.618	0.98
303_T	306_R	0.617	0.98
311_E	316_L	0.616	0.98
158_L	185_A	0.616	0.98
352_P	366_L	0.615	0.98
367_G	373_K	0.613	0.98
162_L	181_M	0.613	0.98
279_L	306_R	0.611	0.98
222_E	227_K	0.608	0.98
103_D	106_K	0.608	0.98
297_V	301_I	0.607	0.98
330_N	334_L	0.607	0.98
31_R	34_Q	0.606	0.98
20_Q	23_V	0.604	0.98
75_N	86_A	0.602	0.98
280_V	314_I	0.599	0.97
356_K	364_Q	0.598	0.97
258_A	267_E	0.597	0.97
31_R	35_A	0.590	0.97
357_D	365_E	0.590	0.97
361_K	364_Q	0.588	0.97
198_A	225_L	0.588	0.97
278_L	284_E	0.587	0.97
216_I	220_T	0.586	0.97
363_A	367_G	0.584	0.97
243_L	246_F	0.583	0.97
255_A	269_G	0.582	0.97
367_G	371_D	0.581	0.97
265_L	268_A	0.581	0.97
20_Q	152_E	0.579	0.97
368_R	372_Y	0.574	0.97
340_L	346_G	0.573	0.97
237_D	244_S	0.572	0.97
246_F	249_S	0.572	0.97
339_A	346_G	0.570	0.97
241_D	244_S	0.569	0.97
273_S	276_R	0.569	0.97
138_R	143_I	0.568	0.96
17_I	160_R	0.566	0.96
74_N	102_L	0.564	0.96
354_H	359_H	0.562	0.96
218_L	224_C	0.561	0.96
297_V	303_T	0.561	0.96
300_A	304_A	0.561	0.96
262_L	320_V	0.560	0.96
358_A	361_K	0.559	0.96
347_K	358_A	0.559	0.96
345_A	351_V	0.558	0.96
294_G	308_G	0.558	0.96
41_M	146_L	0.556	0.96
224_C	229_S	0.555	0.96
313_R	340_L	0.555	0.96
256_N	268_A	0.555	0.96
203_V	206_T	0.555	0.96
59_A	93_I	0.553	0.96
136_A	140_R	0.553	0.96
368_R	371_D	0.552	0.96
115_E	140_R	0.552	0.96
294_G	298_L	0.550	0.96
258_A	261_Y	0.550	0.96
296_R	308_G	0.548	0.96
114_L	141_T	0.547	0.96
180_A	202_A	0.547	0.96
53_S	57_A	0.544	0.96
215_H	222_E	0.543	0.95
355_L	361_K	0.542	0.95
274_I	277_R	0.542	0.95
370_I	373_K	0.542	0.95
288_L	321_I	0.541	0.95
161_A	165_E	0.541	0.95
309_F	313_R	0.541	0.95
39_S	144_F	0.541	0.95
130_Y	143_I	0.540	0.95
275_A	286_I	0.539	0.95
260_H	269_G	0.537	0.95
321_I	332_A	0.537	0.95
258_A	264_R	0.536	0.95
226_Q	230_F	0.536	0.95
72_V	112_P	0.536	0.95
309_F	315_P	0.534	0.95
237_D	241_D	0.532	0.95
256_N	265_L	0.530	0.95
328_K	331_S	0.529	0.95
361_K	366_L	0.529	0.95
312_A	322_E	0.528	0.95
366_L	370_I	0.528	0.95
83_A	87_K	0.528	0.95
315_P	319_A	0.527	0.95
51_K	97_D	0.526	0.95
365_E	372_Y	0.525	0.95
175_S	213_E	0.524	0.95
237_D	249_S	0.524	0.95
354_H	357_D	0.522	0.94
279_L	303_T	0.521	0.94
347_K	351_V	0.519	0.94
156_Q	160_R	0.518	0.94
336_I	342_D	0.518	0.94
242_V	253_S	0.518	0.94
257_A	269_G	0.516	0.94
46_P	191_D	0.515	0.94
214_I	224_C	0.515	0.94
17_I	153_L	0.515	0.94
355_L	360_Y	0.515	0.94
349_G	353_K	0.515	0.94
326_S	330_N	0.514	0.94
366_L	369_G	0.513	0.94
239_H	252_G	0.512	0.94
240_Y	252_G	0.511	0.94
157_A	161_A	0.510	0.94
255_A	264_R	0.509	0.94
162_L	203_V	0.508	0.94
221_A	231_S	0.507	0.94
352_P	359_H	0.507	0.94
239_H	247_Q	0.503	0.93
363_A	369_G	0.503	0.93
179_Q	182_E	0.502	0.93
239_H	248_K	0.501	0.93
352_P	360_Y	0.501	0.93
221_A	225_L	0.500	0.93

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
3pvsA	4	0.9952	100	0.369	Contact Map
3vkgA	2	0.9002	100	0.49	Contact Map
4rh7A	1	0.8907	100	0.522	Contact Map
1sxjD	1	0.7102	100	0.532	Contact Map
2chqA	3	0.7007	100	0.546	Contact Map
1sxjC	1	0.7197	100	0.56	Contact Map
1iqpA	5	0.7055	100	0.561	Contact Map
1sxjE	1	0.6912	100	0.564	Contact Map
4akgA	2	0.6081	100	0.581	Contact Map
4cr2H	1	0.5202	100	0.583	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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