YFKT - BACSU - GREMLIN Contacts

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YFKT - Putative spore germination protein YfkT

UniProt:	O34573	Sequences: MDKTSAYQGLFFGALYTLAVGLKHAPILMIESAKQNAWHSYILGVVIVIPALWLMHRLMKKHQDKNIYELLSDSSPIAGRIIILLFSLYFLLINAHDIRFFINLINILFLPRTPMAVLGGVIIFVAICIAREGKETLTRMAQIFLFPFGILVLFLPFTLATQIELQNLTPVFEGLIPYLQSGYYAFGTMGELIILPLLFSNRSVPLKYTIFAILLGALLLAVMLFSSISVFGPNLTSTFFDPAYMVIRQIRITDFLDRSDLIIAAFWIPVIMVKIAGSLYIVVYGLSFLHSKIDPKAMYTPTGMFSVVCGFWFFLNTNQLIDFNRIKPIINVVISLLLPLLIYLIIKSKALFGAKAKH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	358 (341)
Sequences:	22609 (14693)
Seq/√Len:	795.7

ECOLI - YIFK AROP CADB POTE PHEP GABP FRLA YBAT ANSP PUUP MMUP LYSP PLAP ADIC PROY YJEH CYCA GADC YCAM ARCD YJEM YGJI TNAB TYRP MTR
BACSU - YFKT YNDE GERKB GERBB YTNA GERAB YHDG YBEC HUTM ASPP YBGF STET ROCC GABP YBXG AAPA YECA YDGF YVBW ARCD YCGH YFNA ROCE YDAO
HALSA - Q9HHU7 Q9HQB3 Q9HSL5
SULSO - Q97U05 Q97XM0 Q7LXI7 Q97Y76 Q97ZB5 Q97WS3 Q97X49 Q97U33 Q97VA6 Q97Z63 Q97VR4 Q97YN3 Q97WD4 Q97VA8 Q97YX9 Q97U39

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
45_V	217_A	4.067	1.00
294_D	297_A	3.653	1.00
297_A	300_T	3.330	1.00
5_S	203_S	2.675	1.00
300_T	303_G	2.620	1.00
10_L	211_F	2.556	1.00
159_L	226_S	2.496	1.00
287_S	291_S	2.439	1.00
83_I	289_L	2.375	1.00
245_M	248_R	2.358	1.00
6_A	211_F	2.352	1.00
295_P	300_T	2.339	1.00
201_N	284_Y	2.334	1.00
207_K	211_F	2.299	1.00
9_G	202_R	2.273	1.00
127_I	308_V	2.250	1.00
5_S	8_Q	2.210	1.00
235_L	249_Q	2.189	1.00
292_K	295_P	2.183	1.00
6_A	10_L	2.169	1.00
72_S	76_P	2.163	1.00
135_E	139_R	2.159	1.00
128_C	132_E	2.144	1.00
293_I	297_A	2.080	1.00
295_P	298_M	2.079	1.00
296_K	300_T	2.074	1.00
232_G	235_L	2.065	1.00
258_R	262_I	2.056	1.00
164_E	167_N	1.994	1.00
344_L	348_S	1.963	1.00
200_S	291_S	1.946	1.00
120_G	312_W	1.913	1.00
71_L	82_I	1.886	1.00
8_Q	142_Q	1.880	1.00
163_I	229_S	1.856	1.00
13_G	212_A	1.854	1.00
10_L	215_L	1.851	1.00
72_S	79_G	1.843	1.00
146_F	150_I	1.827	1.00
29_M	37_A	1.805	1.00
46_V	50_P	1.794	1.00
245_M	249_Q	1.776	1.00
295_P	299_Y	1.770	1.00
40_S	181_S	1.762	1.00
293_I	300_T	1.749	1.00
4_T	8_Q	1.723	1.00
297_A	301_P	1.717	1.00
294_D	298_M	1.711	1.00
292_K	302_T	1.709	1.00
294_D	299_Y	1.702	1.00
52_L	209_T	1.697	1.00
293_I	298_M	1.697	1.00
335_S	338_L	1.693	1.00
62_H	73_D	1.667	1.00
105_I	118_L	1.656	1.00
161_T	164_E	1.654	1.00
44_G	185_A	1.645	1.00
300_T	304_M	1.641	1.00
299_Y	302_T	1.640	1.00
8_Q	138_T	1.629	1.00
294_D	301_P	1.625	1.00
300_T	306_S	1.623	1.00
57_R	60_K	1.607	1.00
316_N	319_Q	1.605	1.00
320_L	323_F	1.598	1.00
299_Y	303_G	1.582	1.00
131_R	301_P	1.580	1.00
248_R	260_D	1.572	1.00
165_L	169_T	1.552	1.00
198_L	280_Y	1.549	1.00
36_N	178_Y	1.549	1.00
150_I	154_F	1.538	1.00
98_I	275_I	1.538	1.00
130_A	276_A	1.524	1.00
162_Q	165_L	1.509	1.00
101_F	122_I	1.501	1.00
293_I	296_K	1.493	1.00
52_L	213_I	1.476	1.00
210_I	214_L	1.464	1.00
14_A	215_L	1.461	1.00
113_T	117_V	1.457	1.00
75_S	78_A	1.457	1.00
214_L	218_L	1.457	1.00
163_I	168_L	1.455	1.00
151_L	266_F	1.453	1.00
98_I	123_I	1.449	1.00
302_T	306_S	1.446	1.00
319_Q	322_D	1.445	1.00
53_W	210_I	1.433	1.00
114_P	117_V	1.430	1.00
165_L	168_L	1.412	1.00
239_F	245_M	1.409	1.00
294_D	300_T	1.401	1.00
174_G	177_P	1.390	1.00
161_T	166_Q	1.388	1.00
6_A	207_K	1.385	1.00
293_I	299_Y	1.342	1.00
126_A	275_I	1.341	1.00
312_W	315_L	1.336	1.00
164_E	168_L	1.336	1.00
59_M	70_L	1.335	1.00
74_S	78_A	1.334	1.00
248_R	252_I	1.322	1.00
80_R	84_L	1.314	1.00
120_G	124_F	1.310	1.00
162_Q	168_L	1.305	1.00
156_P	222_V	1.297	1.00
342_I	346_I	1.288	1.00
261_L	265_A	1.288	1.00
241_D	245_M	1.283	1.00
38_W	225_F	1.282	1.00
315_L	318_N	1.279	1.00
17_T	216_G	1.274	1.00
164_E	170_P	1.266	1.00
299_Y	304_M	1.264	1.00
163_I	167_N	1.263	1.00
167_N	170_P	1.250	1.00
42_I	221_A	1.233	1.00
313_F	316_N	1.232	1.00
163_I	166_Q	1.230	1.00
302_T	305_F	1.227	1.00
166_Q	169_T	1.223	1.00
161_T	165_L	1.210	1.00
111_P	114_P	1.201	1.00
140_M	144_F	1.198	1.00
312_W	316_N	1.198	1.00
144_F	273_V	1.187	1.00
64_D	69_E	1.186	1.00
57_R	346_I	1.183	1.00
69_E	73_D	1.183	1.00
101_F	268_I	1.181	1.00
160_A	226_S	1.177	1.00
292_K	297_A	1.167	1.00
4_T	9_G	1.157	1.00
7_Y	11_F	1.154	1.00
346_I	349_K	1.153	1.00
298_M	303_G	1.153	1.00
65_K	200_S	1.153	1.00
338_L	346_I	1.138	1.00
326_I	330_I	1.137	1.00
9_G	208_Y	1.133	1.00
307_V	310_G	1.129	1.00
164_E	169_T	1.115	1.00
204_V	207_K	1.114	1.00
225_F	229_S	1.114	1.00
87_S	286_L	1.114	1.00
305_F	309_C	1.113	1.00
345_I	349_K	1.109	1.00
294_D	302_T	1.109	1.00
14_A	216_G	1.108	1.00
298_M	301_P	1.104	1.00
113_T	116_A	1.103	1.00
77_I	81_I	1.103	1.00
54_L	342_I	1.086	1.00
12_F	198_L	1.085	1.00
132_E	297_A	1.083	1.00
338_L	344_L	1.080	1.00
343_Y	347_K	1.078	1.00
97_D	274_K	1.072	1.00
337_L	341_L	1.070	1.00
96_H	187_G	1.067	1.00
127_I	131_R	1.064	1.00
102_I	118_L	1.064	1.00
248_R	257_D	1.061	1.00
13_G	195_L	1.059	1.00
112_R	115_M	1.054	1.00
325_R	328_P	1.054	1.00
180_Q	184_Y	1.047	1.00
296_K	299_Y	1.046	1.00
125_V	272_M	1.045	1.00
315_L	319_Q	1.045	1.00
55_M	67_I	1.044	1.00
149_G	153_L	1.043	1.00
338_L	341_L	1.040	1.00
24_H	100_F	1.037	1.00
295_P	302_T	1.031	1.00
159_L	230_V	1.030	1.00
139_R	143_I	1.028	1.00
331_N	335_S	1.022	1.00
314_F	317_T	1.020	1.00
112_R	116_A	1.018	1.00
313_F	318_N	1.012	1.00
68_Y	288_F	1.006	1.00
139_R	142_Q	1.005	1.00
11_F	142_Q	1.005	1.00
324_N	327_K	1.003	1.00
303_G	306_S	1.002	1.00
129_I	140_M	1.000	1.00
141_A	276_A	0.995	1.00
64_D	73_D	0.994	1.00
154_F	158_T	0.989	1.00
341_L	346_I	0.987	1.00
301_P	305_F	0.983	1.00
331_N	338_L	0.983	1.00
155_L	159_L	0.982	1.00
331_N	334_I	0.981	1.00
298_M	302_T	0.980	1.00
334_I	338_L	0.979	1.00
121_V	125_V	0.978	1.00
297_A	303_G	0.977	1.00
37_A	224_L	0.971	1.00
36_N	172_F	0.970	1.00
66_N	69_E	0.966	1.00
295_P	301_P	0.959	1.00
126_A	276_A	0.956	1.00
124_F	128_C	0.951	1.00
341_L	344_L	0.951	1.00
86_F	90_F	0.945	1.00
49_I	210_I	0.942	1.00
162_Q	167_N	0.942	1.00
218_L	222_V	0.934	1.00
134_K	280_Y	0.925	1.00
7_Y	139_R	0.924	1.00
162_Q	166_Q	0.920	1.00
247_I	252_I	0.914	1.00
102_I	119_G	0.911	1.00
161_T	167_N	0.910	1.00
297_A	304_M	0.908	1.00
118_L	121_V	0.908	1.00
239_F	242_P	0.907	1.00
71_L	74_S	0.902	1.00
74_S	344_L	0.902	1.00
57_R	61_K	0.902	1.00
156_P	160_A	0.901	1.00
301_P	304_M	0.899	1.00
131_R	305_F	0.896	1.00
217_A	221_A	0.894	1.00
116_A	120_G	0.888	1.00
190_G	334_I	0.887	1.00
229_S	232_G	0.887	1.00
74_S	343_Y	0.886	1.00
126_A	279_L	0.885	1.00
292_K	296_K	0.879	1.00
194_I	281_I	0.878	1.00
329_I	333_V	0.876	1.00
193_I	197_L	0.873	1.00
6_A	208_Y	0.872	1.00
330_I	334_I	0.870	1.00
132_E	136_T	0.868	1.00
197_L	281_I	0.866	1.00
4_T	138_T	0.863	1.00
175_L	179_L	0.862	1.00
38_W	228_I	0.862	1.00
8_Q	139_R	0.861	1.00
16_Y	277_G	0.861	1.00
15_L	145_L	0.861	1.00
58_L	70_L	0.859	1.00
247_I	250_I	0.858	1.00
297_A	302_T	0.857	1.00
71_L	78_A	0.856	1.00
110_L	113_T	0.852	1.00
156_P	226_S	0.851	1.00
153_L	157_F	0.849	1.00
257_D	261_L	0.848	1.00
258_R	261_L	0.846	1.00
49_I	53_W	0.845	1.00
300_T	305_F	0.841	1.00
128_C	131_R	0.839	1.00
345_I	348_S	0.838	1.00
101_F	272_M	0.836	1.00
279_L	283_V	0.835	1.00
246_V	252_I	0.835	1.00
313_F	317_T	0.831	1.00
78_A	81_I	0.829	1.00
293_I	302_T	0.827	1.00
48_V	192_L	0.826	1.00
342_I	345_I	0.823	1.00
286_L	303_G	0.823	1.00
206_L	209_T	0.819	1.00
50_P	54_L	0.819	1.00
29_M	33_A	0.819	1.00
251_R	259_S	0.818	1.00
127_I	304_M	0.814	1.00
33_A	40_S	0.814	1.00
294_D	304_M	0.814	1.00
339_P	342_I	0.813	1.00
162_Q	169_T	0.811	1.00
7_Y	142_Q	0.809	1.00
295_P	304_M	0.809	1.00
161_T	168_L	0.808	1.00
314_F	318_N	0.807	1.00
45_V	189_M	0.804	1.00
226_S	229_S	0.803	1.00
211_F	214_L	0.802	1.00
166_Q	170_P	0.800	1.00
43_L	182_G	0.800	1.00
304_M	307_V	0.797	1.00
30_I	37_A	0.793	1.00
229_S	233_P	0.790	1.00
230_V	246_V	0.789	1.00
29_M	185_A	0.786	1.00
16_Y	278_S	0.786	1.00
343_Y	346_I	0.785	1.00
283_V	304_M	0.781	1.00
179_L	183_Y	0.779	1.00
340_L	344_L	0.778	1.00
320_L	324_N	0.773	1.00
339_P	343_Y	0.772	1.00
215_L	219_L	0.769	1.00
325_R	333_V	0.767	1.00
228_I	232_G	0.767	1.00
318_N	321_I	0.766	1.00
148_F	270_V	0.766	1.00
312_W	318_N	0.764	1.00
237_S	240_F	0.764	1.00
211_F	215_L	0.762	1.00
284_Y	287_S	0.758	1.00
200_S	287_S	0.756	1.00
327_K	335_S	0.754	1.00
39_H	178_Y	0.749	1.00
317_T	320_L	0.748	1.00
292_K	299_Y	0.740	1.00
122_I	275_I	0.740	1.00
292_K	300_T	0.739	1.00
177_P	180_Q	0.739	1.00
223_M	227_S	0.737	1.00
117_V	121_V	0.736	1.00
74_S	347_K	0.734	1.00
127_I	279_L	0.731	1.00
75_S	79_G	0.730	1.00
168_L	229_S	0.730	1.00
334_I	341_L	0.730	1.00
334_I	337_L	0.730	1.00
165_L	170_P	0.729	1.00
106_N	115_M	0.729	1.00
172_F	178_Y	0.727	1.00
68_Y	72_S	0.726	1.00
336_L	340_L	0.726	1.00
68_Y	83_I	0.721	1.00
308_V	311_F	0.721	1.00
328_P	335_S	0.721	1.00
328_P	331_N	0.720	1.00
136_T	139_R	0.720	1.00
332_V	335_S	0.718	1.00
149_G	219_L	0.715	1.00
214_L	217_A	0.714	1.00
126_A	272_M	0.712	1.00
312_W	317_T	0.711	1.00
190_G	193_I	0.710	1.00
333_V	338_L	0.709	1.00
42_I	46_V	0.707	1.00
10_L	208_Y	0.707	1.00
133_G	136_T	0.700	1.00
107_I	264_A	0.697	1.00
52_L	56_H	0.695	1.00
99_R	103_N	0.688	1.00
156_P	223_M	0.685	1.00
28_L	32_S	0.684	1.00
341_L	345_I	0.684	1.00
303_G	307_V	0.683	1.00
26_P	29_M	0.683	1.00
38_W	221_A	0.683	1.00
127_I	305_F	0.682	1.00
26_P	224_L	0.680	1.00
335_S	341_L	0.679	1.00
330_I	338_L	0.677	1.00
293_I	303_G	0.675	1.00
165_L	171_V	0.674	1.00
300_T	308_V	0.672	1.00
316_N	320_L	0.670	1.00
7_Y	10_L	0.669	1.00
65_K	287_S	0.666	1.00
292_K	298_M	0.664	1.00
32_S	180_Q	0.664	1.00
41_Y	224_L	0.664	1.00
136_T	140_M	0.664	1.00
232_G	249_Q	0.662	1.00
130_A	280_Y	0.661	1.00
53_W	57_R	0.658	1.00
98_I	102_I	0.657	1.00
79_G	83_I	0.655	1.00
299_Y	306_S	0.655	1.00
28_L	31_E	0.655	1.00
97_D	275_I	0.654	1.00
40_S	178_Y	0.652	1.00
300_T	310_G	0.649	1.00
138_T	142_Q	0.649	1.00
13_G	17_T	0.648	1.00
54_L	339_P	0.647	1.00
252_I	257_D	0.645	1.00
162_Q	170_P	0.644	1.00
335_S	339_P	0.642	1.00
66_N	288_F	0.640	1.00
344_L	347_K	0.638	1.00
19_A	220_L	0.633	1.00
324_N	338_L	0.631	1.00
296_K	304_M	0.630	1.00
142_Q	146_F	0.629	1.00
40_S	182_G	0.629	1.00
94_N	311_F	0.628	1.00
39_H	43_L	0.626	1.00
77_I	80_R	0.626	1.00
101_F	271_I	0.626	1.00
22_L	223_M	0.623	1.00
300_T	307_V	0.622	1.00
131_R	299_Y	0.619	1.00
22_L	26_P	0.619	1.00
311_F	315_L	0.618	1.00
141_A	277_G	0.616	1.00
112_R	117_V	0.616	1.00
304_M	308_V	0.615	1.00
325_R	329_I	0.612	1.00
35_Q	233_P	0.610	1.00
338_L	342_I	0.607	1.00
176_I	180_Q	0.607	1.00
245_M	252_I	0.604	1.00
39_H	42_I	0.604	1.00
105_I	268_I	0.604	1.00
41_Y	188_T	0.603	1.00
145_L	148_F	0.603	1.00
333_V	337_L	0.600	1.00
87_S	91_L	0.599	1.00
32_S	184_Y	0.599	1.00
318_N	322_D	0.599	1.00
310_G	314_F	0.599	1.00
163_I	169_T	0.598	1.00
330_I	335_S	0.597	1.00
90_F	278_S	0.593	1.00
10_L	13_G	0.592	1.00
326_I	331_N	0.592	1.00
223_M	243_A	0.589	1.00
331_N	341_L	0.589	1.00
326_I	329_I	0.585	1.00
242_P	245_M	0.585	1.00
329_I	332_V	0.582	1.00
104_L	267_W	0.581	1.00
93_I	96_H	0.580	1.00
294_D	303_G	0.579	1.00
20_V	187_G	0.576	1.00
122_I	126_A	0.576	1.00
319_Q	323_F	0.575	1.00
15_L	19_A	0.574	1.00
247_I	251_R	0.570	1.00
20_V	24_H	0.569	1.00
327_K	330_I	0.568	1.00
36_N	171_V	0.568	1.00
56_H	206_L	0.567	1.00
161_T	170_P	0.566	1.00
173_E	176_I	0.564	1.00
70_L	196_P	0.563	1.00
11_F	145_L	0.563	1.00
72_S	75_S	0.562	1.00
68_Y	79_G	0.559	1.00
81_I	85_L	0.558	1.00
320_L	338_L	0.557	1.00
81_I	84_L	0.557	1.00
296_K	301_P	0.554	1.00
49_I	214_L	0.554	1.00
164_E	171_V	0.553	1.00
143_I	146_F	0.553	1.00
14_A	18_L	0.553	1.00
124_F	308_V	0.553	1.00
38_W	42_I	0.553	1.00
338_L	348_S	0.551	1.00
335_S	348_S	0.550	1.00
94_N	275_I	0.550	1.00
56_H	60_K	0.549	1.00
317_T	323_F	0.549	1.00
335_S	344_L	0.546	1.00
71_L	75_S	0.546	1.00
282_V	286_L	0.544	1.00
172_F	175_L	0.544	1.00
33_A	181_S	0.544	1.00
321_I	325_R	0.544	1.00
335_S	342_I	0.542	1.00
16_Y	194_I	0.541	1.00
49_I	213_I	0.541	1.00
41_Y	187_G	0.540	1.00
165_L	229_S	0.538	1.00
82_I	340_L	0.537	1.00
19_A	23_K	0.537	1.00
300_T	311_F	0.537	1.00
241_D	244_Y	0.536	1.00
105_I	122_I	0.534	1.00
337_L	340_L	0.534	1.00
137_L	280_Y	0.532	1.00
13_G	16_Y	0.530	1.00
10_L	212_A	0.529	1.00
110_L	114_P	0.528	1.00
202_R	208_Y	0.527	1.00
99_R	323_F	0.525	1.00
59_M	196_P	0.525	1.00
307_V	311_F	0.524	1.00
265_A	269_P	0.524	1.00
119_G	315_L	0.524	1.00
327_K	337_L	0.523	1.00
68_Y	285_G	0.523	1.00
314_F	323_F	0.519	1.00
14_A	145_L	0.518	1.00
292_K	301_P	0.517	1.00
322_D	325_R	0.517	1.00
178_Y	182_G	0.517	1.00
26_P	227_S	0.517	1.00
242_P	252_I	0.516	1.00
100_F	104_L	0.516	1.00
12_F	15_L	0.516	1.00
262_I	266_F	0.515	1.00
138_T	276_A	0.515	1.00
92_L	95_A	0.514	1.00
286_L	290_H	0.512	1.00
97_D	100_F	0.512	1.00
163_I	171_V	0.511	1.00
142_Q	145_L	0.506	1.00
196_P	209_T	0.506	1.00
124_F	312_W	0.505	1.00
163_I	170_P	0.503	1.00
216_G	220_L	0.503	1.00
168_L	228_I	0.502	1.00
284_Y	290_H	0.501	1.00
20_V	271_I	0.501	1.00
91_L	95_A	0.500	1.00
153_L	156_P	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
3l1lA	2	0.9665	100	0.34	Contact Map
3giaA	1	0.9804	100	0.393	Contact Map
4djkA	2	0.9525	100	0.438	Contact Map
4wgvA	2	0.9525	98.3	0.845	Contact Map
2jlnA	1	0.9553	98.2	0.85	Contact Map
3dh4A	3	0.9525	98.2	0.85	Contact Map
2xq2A	2	0.9497	98.1	0.856	Contact Map
4us3A	1	0.9609	96.1	0.894	Contact Map
4xp4A	1	0.9804	94.7	0.904	Contact Map
2a65A	2	0.9637	94.6	0.904	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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