YFKR - BACSU - GREMLIN Contacts

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YFKR - Putative spore germination protein YfkR

UniProt:	O35028	Sequences: MKKTIYKCVLPLLICILLTGCWDRTEINDIAFVVSSAIDKKKDQYRVAMQIPLVGQLGGQTGGGGGTAGSKTWYVDSASGTTIREANNKLQTSLSRTINTSHRRTVIIGEDMARDGVAPVFDILTRNPQNRLTALILVSRGEARDILNTDVQLEQFPAEMIRELAIIATSRPVFLSRFMSDLVEIGSDPYAPVISASKTKPGGKGKSNLKIDGLAIFKKDRLMDIFKDEHMTAALMLLNQARQPEFIVDLPNQMGQASIQLQKSNASFHAAEKNGKLSMTIEIRAKGIIMENQSTYETRENDQYYIIQKALNRTIKKDVISTVHRLQKLKADPAGFQDRTIRSTATTKNLLKKEWEEVYKDMEVHVVPIVTIEQGGVLYKTISH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	384 (357)
Sequences:	2222 (1915)
Seq/√Len:	101.3

BACSU - YFKR GERKC YNDF GERBC GERAC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
280_T	365_H	5.063	1.00
282_E	367_V	4.270	1.00
110_E	114_R	4.044	1.00
230_H	325_R	4.022	1.00
40_K	115_D	3.914	1.00
110_E	140_R	3.443	1.00
46_R	144_R	3.435	1.00
250_L	294_S	3.400	1.00
316_K	320_I	3.326	1.00
107_I	139_S	2.997	1.00
142_E	145_D	2.940	1.00
193_V	225_I	2.901	1.00
284_R	369_I	2.800	1.00
312_N	370_V	2.742	1.00
259_I	311_L	2.720	1.00
279_M	336_F	2.662	1.00
144_R	148_N	2.429	1.00
316_K	368_P	2.399	1.00
279_M	362_M	2.383	1.00
116_G	220_D	2.357	1.00
222_L	225_I	2.345	1.00
286_K	373_E	2.334	1.00
278_S	363_E	2.331	1.00
215_A	222_L	2.331	1.00
283_I	319_V	2.323	1.00
49_M	90_L	2.304	1.00
327_Q	359_Y	2.267	1.00
44_Q	79_S	2.258	1.00
178_F	189_P	2.250	1.00
138_V	215_A	2.242	1.00
47_V	86_A	2.240	1.00
233_A	322_T	2.187	1.00
330_K	360_K	2.183	1.00
326_L	359_Y	2.122	1.00
278_S	365_H	2.101	1.00
323_V	364_V	2.077	1.00
48_A	143_A	2.049	1.00
214_L	231_M	2.033	1.00
113_A	138_V	2.020	1.00
224_D	329_L	1.972	1.00
108_I	120_V	1.952	1.00
35_S	158_A	1.944	1.00
326_L	333_P	1.941	1.00
354_E	357_E	1.877	1.00
46_R	79_S	1.872	1.00
280_T	367_V	1.865	1.00
122_D	126_R	1.861	1.00
326_L	334_A	1.853	1.00
136_I	178_F	1.845	1.00
281_I	336_F	1.838	1.00
78_A	89_K	1.774	1.00
214_L	234_A	1.756	1.00
137_L	194_I	1.756	1.00
271_A	280_T	1.749	1.00
39_D	143_A	1.742	1.00
178_F	191_A	1.728	1.00
190_Y	234_A	1.721	1.00
109_G	143_A	1.709	1.00
347_T	351_L	1.708	1.00
41_K	79_S	1.705	1.00
38_I	112_M	1.705	1.00
305_Y	308_Q	1.700	1.00
337_Q	355_W	1.689	1.00
44_Q	81_T	1.658	1.00
88_N	260_Q	1.646	1.00
33_V	98_I	1.642	1.00
87_N	100_T	1.631	1.00
39_D	109_G	1.583	1.00
37_A	143_A	1.579	1.00
36_S	103_R	1.564	1.00
227_K	230_H	1.549	1.00
285_A	370_V	1.542	1.00
259_I	287_G	1.537	1.00
279_M	340_T	1.535	1.00
185_I	352_K	1.535	1.00
193_V	222_L	1.521	1.00
46_R	77_S	1.505	1.00
270_A	277_L	1.488	1.00
138_V	217_F	1.480	1.00
233_A	315_I	1.469	1.00
35_S	147_L	1.465	1.00
113_A	217_F	1.450	1.00
282_E	369_I	1.446	1.00
307_I	372_I	1.444	1.00
323_V	366_V	1.420	1.00
186_G	337_Q	1.409	1.00
286_K	371_T	1.407	1.00
77_S	144_R	1.403	1.00
109_G	112_M	1.400	1.00
306_I	310_A	1.397	1.00
276_K	363_E	1.396	1.00
314_T	318_D	1.393	1.00
188_D	331_A	1.391	1.00
272_E	277_L	1.387	1.00
140_R	195_S	1.386	1.00
216_I	333_P	1.384	1.00
132_L	176_S	1.368	0.99
268_F	279_M	1.362	0.99
312_N	316_K	1.361	0.99
41_K	46_R	1.352	0.99
308_Q	312_N	1.345	0.99
81_T	85_E	1.339	0.99
224_D	331_A	1.337	0.99
161_I	194_I	1.336	0.99
322_T	326_L	1.334	0.99
314_T	317_K	1.326	0.99
108_I	117_V	1.313	0.99
319_V	366_V	1.311	0.99
108_I	113_A	1.300	0.99
11_P	15_C	1.292	0.99
80_G	86_A	1.292	0.99
145_D	148_N	1.286	0.99
239_N	266_A	1.283	0.99
46_R	142_E	1.278	0.99
188_D	356_E	1.264	0.99
237_L	334_A	1.253	0.99
36_S	124_L	1.246	0.99
324_H	327_Q	1.224	0.99
195_S	212_D	1.217	0.99
327_Q	355_W	1.214	0.99
30_I	99_N	1.214	0.99
355_W	359_Y	1.210	0.99
309_K	312_N	1.184	0.98
197_S	210_K	1.182	0.98
234_A	333_P	1.174	0.98
139_S	146_I	1.168	0.98
233_A	326_L	1.164	0.98
237_L	281_I	1.162	0.98
311_L	370_V	1.159	0.98
84_R	88_N	1.154	0.98
266_A	283_I	1.154	0.98
149_T	196_A	1.148	0.98
340_T	347_T	1.146	0.98
126_R	376_G	1.146	0.98
33_V	100_T	1.143	0.98
84_R	290_M	1.143	0.98
84_R	260_Q	1.139	0.98
14_I	17_L	1.139	0.98
104_R	162_R	1.138	0.98
340_T	344_T	1.135	0.98
300_E	303_Q	1.134	0.98
267_S	282_E	1.123	0.98
48_A	77_S	1.119	0.98
38_I	83_I	1.117	0.98
216_I	329_L	1.109	0.98
125_T	179_M	1.108	0.98
18_L	21_C	1.106	0.98
287_G	311_L	1.104	0.98
45_Y	112_M	1.102	0.98
103_R	130_N	1.101	0.98
107_I	137_L	1.099	0.97
84_R	123_I	1.097	0.97
80_G	85_E	1.094	0.97
34_V	52_P	1.092	0.97
50_Q	157_P	1.087	0.97
297_E	300_E	1.083	0.97
270_A	343_S	1.082	0.97
195_S	210_K	1.075	0.97
288_I	374_Q	1.073	0.97
48_A	75_V	1.073	0.97
111_D	143_A	1.068	0.97
73_W	157_P	1.067	0.97
257_A	307_I	1.065	0.97
31_A	51_I	1.050	0.97
218_K	223_M	1.046	0.97
304_Y	308_Q	1.038	0.96
270_A	279_M	1.031	0.96
54_V	154_E	1.030	0.96
113_A	215_A	1.026	0.96
285_A	315_I	1.018	0.96
118_A	220_D	1.018	0.96
80_G	89_K	1.018	0.96
78_A	90_L	1.017	0.96
245_E	260_Q	1.013	0.96
270_A	344_T	1.008	0.96
106_V	134_A	1.005	0.96
269_H	280_T	1.004	0.96
140_R	225_I	0.998	0.96
230_H	321_S	0.996	0.96
188_D	359_Y	0.995	0.95
234_A	238_L	0.995	0.95
237_L	319_V	0.993	0.95
28_N	132_L	0.991	0.95
273_K	278_S	0.983	0.95
338_D	341_I	0.978	0.95
168_A	241_A	0.976	0.95
310_A	313_R	0.967	0.95
320_I	366_V	0.962	0.95
109_G	139_S	0.959	0.94
186_G	335_G	0.959	0.94
349_N	352_K	0.957	0.94
37_A	142_E	0.954	0.94
227_K	231_M	0.950	0.94
191_A	217_F	0.943	0.94
82_T	256_Q	0.940	0.94
356_E	359_Y	0.934	0.94
327_Q	360_K	0.934	0.94
97_T	129_Q	0.934	0.94
292_N	296_Y	0.932	0.94
137_L	192_P	0.931	0.94
102_H	131_R	0.930	0.94
313_R	316_K	0.928	0.93
339_R	342_R	0.926	0.93
93_S	208_N	0.925	0.93
127_N	290_M	0.921	0.93
313_R	317_K	0.919	0.93
81_T	256_Q	0.915	0.93
37_A	109_G	0.910	0.93
106_V	124_L	0.903	0.93
7_K	18_L	0.900	0.92
246_F	318_D	0.896	0.92
268_F	281_I	0.894	0.92
320_I	324_H	0.890	0.92
324_H	328_K	0.889	0.92
336_F	364_V	0.888	0.92
269_H	282_E	0.887	0.92
338_D	342_R	0.884	0.92
223_M	331_A	0.884	0.92
111_D	114_R	0.884	0.92
73_W	156_F	0.884	0.92
358_V	361_D	0.883	0.92
93_S	210_K	0.879	0.91
113_A	222_L	0.878	0.91
57_L	72_T	0.872	0.91
50_Q	73_W	0.870	0.91
110_E	225_I	0.869	0.91
340_T	348_K	0.866	0.91
345_A	349_N	0.866	0.91
117_V	178_F	0.863	0.91
283_I	368_P	0.859	0.91
37_A	48_A	0.858	0.90
316_K	366_V	0.856	0.90
270_A	339_R	0.853	0.90
78_A	86_A	0.852	0.90
41_K	44_Q	0.851	0.90
309_K	313_R	0.851	0.90
178_F	182_L	0.848	0.90
277_L	362_M	0.846	0.90
106_V	136_I	0.846	0.90
226_F	230_H	0.845	0.90
25_T	30_I	0.845	0.90
233_A	319_V	0.844	0.90
31_A	153_L	0.842	0.90
113_A	116_G	0.837	0.89
272_E	344_T	0.836	0.89
315_I	319_V	0.831	0.89
36_S	49_M	0.830	0.89
146_I	194_I	0.828	0.89
15_C	19_T	0.824	0.89
109_G	138_V	0.818	0.88
38_I	47_V	0.811	0.88
136_I	191_A	0.811	0.88
105_T	137_L	0.811	0.88
344_T	347_T	0.804	0.87
339_R	343_S	0.800	0.87
146_I	196_A	0.798	0.87
271_A	278_S	0.797	0.87
317_K	321_S	0.796	0.87
187_S	335_G	0.793	0.87
24_R	32_F	0.792	0.87
114_R	217_F	0.791	0.87
305_Y	309_K	0.788	0.86
36_S	106_V	0.786	0.86
84_R	127_N	0.786	0.86
218_K	331_A	0.782	0.86
7_K	11_P	0.779	0.86
236_M	241_A	0.779	0.86
325_R	329_L	0.779	0.86
347_T	350_L	0.776	0.85
164_L	211_I	0.773	0.85
176_S	180_S	0.773	0.85
138_V	222_L	0.772	0.85
216_I	226_F	0.769	0.85
323_V	334_A	0.769	0.85
286_K	374_Q	0.769	0.85
257_A	292_N	0.768	0.85
137_L	165_A	0.765	0.85
29_D	163_E	0.763	0.85
233_A	236_M	0.762	0.84
10_L	13_L	0.762	0.84
217_F	222_L	0.762	0.84
184_E	338_D	0.761	0.84
135_L	162_R	0.760	0.84
35_S	105_T	0.757	0.84
82_T	291_E	0.756	0.84
235_L	240_Q	0.754	0.84
143_A	147_L	0.753	0.84
345_A	348_K	0.752	0.84
76_D	90_L	0.750	0.84
78_A	93_S	0.748	0.83
40_K	111_D	0.747	0.83
84_R	291_E	0.746	0.83
53_L	56_Q	0.742	0.83
6_Y	302_D	0.741	0.83
174_F	177_R	0.740	0.83
236_M	285_A	0.739	0.83
50_Q	131_R	0.737	0.82
26_E	96_R	0.737	0.82
178_F	217_F	0.735	0.82
323_V	327_Q	0.733	0.82
139_S	143_A	0.731	0.82
237_L	266_A	0.731	0.82
315_I	370_V	0.731	0.82
160_M	164_L	0.731	0.82
193_V	215_A	0.729	0.82
268_F	339_R	0.729	0.82
35_S	50_Q	0.729	0.82
32_F	99_N	0.728	0.82
116_G	217_F	0.726	0.81
260_Q	290_M	0.725	0.81
297_E	301_N	0.721	0.81
108_I	138_V	0.719	0.81
190_Y	333_P	0.718	0.81
301_N	305_Y	0.717	0.81
303_Q	306_I	0.713	0.80
251_P	310_A	0.711	0.80
7_K	15_C	0.705	0.80
91_Q	128_P	0.703	0.79
38_I	106_V	0.701	0.79
272_E	347_T	0.700	0.79
289_I	298_T	0.696	0.79
36_S	47_V	0.694	0.79
109_G	222_L	0.694	0.79
28_N	160_M	0.693	0.78
6_Y	17_L	0.691	0.78
82_T	258_S	0.691	0.78
26_E	102_H	0.690	0.78
259_I	372_I	0.687	0.78
233_A	318_D	0.686	0.78
159_E	163_E	0.685	0.78
270_A	336_F	0.684	0.77
103_R	134_A	0.683	0.77
117_V	217_F	0.682	0.77
51_I	94_L	0.682	0.77
100_T	106_V	0.680	0.77
49_M	87_N	0.679	0.77
117_V	220_D	0.678	0.77
351_L	358_V	0.672	0.76
218_K	356_E	0.671	0.76
140_R	193_V	0.671	0.76
79_S	83_I	0.669	0.76
257_A	287_G	0.667	0.76
76_D	94_L	0.666	0.76
89_K	92_T	0.666	0.76
188_D	333_P	0.664	0.75
249_D	256_Q	0.662	0.75
85_E	247_I	0.661	0.75
355_W	360_K	0.660	0.75
284_R	371_T	0.658	0.75
19_T	22_W	0.657	0.75
38_I	45_Y	0.656	0.75
49_M	100_T	0.655	0.74
248_V	310_A	0.649	0.74
181_D	187_S	0.646	0.73
326_L	329_L	0.645	0.73
32_F	73_W	0.644	0.73
33_V	90_L	0.643	0.73
31_A	94_L	0.643	0.73
17_L	309_K	0.641	0.73
105_T	161_I	0.641	0.73
274_N	284_R	0.640	0.73
48_A	144_R	0.639	0.73
124_L	175_L	0.639	0.73
35_S	159_E	0.638	0.72
48_A	139_S	0.631	0.72
15_C	18_L	0.630	0.72
92_T	228_D	0.627	0.71
7_K	115_D	0.625	0.71
37_A	144_R	0.623	0.71
84_R	128_P	0.622	0.71
353_K	357_E	0.622	0.71
122_D	291_E	0.620	0.70
177_R	181_D	0.620	0.70
287_G	308_Q	0.618	0.70
119_P	311_L	0.618	0.70
40_K	45_Y	0.618	0.70
50_Q	75_V	0.617	0.70
168_A	232_T	0.616	0.70
268_F	362_M	0.616	0.70
189_P	337_Q	0.616	0.70
140_R	222_L	0.614	0.70
37_A	107_I	0.612	0.69
139_S	213_G	0.612	0.69
48_A	147_L	0.611	0.69
61_T	350_L	0.610	0.69
223_M	329_L	0.609	0.69
112_M	120_V	0.609	0.69
323_V	359_Y	0.607	0.69
15_C	321_S	0.606	0.69
189_P	335_G	0.605	0.68
277_L	340_T	0.604	0.68
48_A	109_G	0.603	0.68
175_L	178_F	0.603	0.68
287_G	370_V	0.599	0.68
319_V	322_T	0.598	0.68
159_E	162_R	0.598	0.68
108_I	121_F	0.598	0.68
127_N	260_Q	0.595	0.67
179_M	378_L	0.594	0.67
322_T	325_R	0.593	0.67
141_G	213_G	0.593	0.67
276_K	361_D	0.592	0.67
187_S	338_D	0.592	0.67
138_V	191_A	0.589	0.66
236_M	315_I	0.589	0.66
235_L	377_V	0.589	0.66
151_V	154_E	0.587	0.66
260_Q	288_I	0.587	0.66
234_A	322_T	0.585	0.66
48_A	111_D	0.584	0.66
226_F	234_A	0.584	0.66
327_Q	362_M	0.584	0.66
10_L	17_L	0.582	0.66
134_A	176_S	0.581	0.65
113_A	117_V	0.581	0.65
110_E	193_V	0.581	0.65
34_V	176_S	0.579	0.65
7_K	14_I	0.578	0.65
235_L	239_N	0.578	0.65
114_R	302_D	0.577	0.65
23_D	29_D	0.576	0.65
212_D	228_D	0.574	0.64
232_T	318_D	0.573	0.64
8_C	12_L	0.573	0.64
224_D	359_Y	0.572	0.64
45_Y	120_V	0.572	0.64
27_I	72_T	0.572	0.64
88_N	91_Q	0.572	0.64
122_D	376_G	0.572	0.64
285_A	310_A	0.571	0.64
24_R	154_E	0.570	0.64
173_V	181_D	0.570	0.64
9_V	275_G	0.569	0.64
262_Q	288_I	0.568	0.64
165_A	331_A	0.568	0.64
16_I	114_R	0.568	0.64
322_T	333_P	0.566	0.63
52_P	155_Q	0.564	0.63
261_L	264_S	0.557	0.62
273_K	276_K	0.557	0.62
190_Y	214_L	0.556	0.62
107_I	143_A	0.556	0.62
50_Q	158_A	0.555	0.62
330_K	357_E	0.555	0.62
96_R	154_E	0.554	0.62
38_I	108_I	0.551	0.61
90_L	183_V	0.551	0.61
19_T	23_D	0.551	0.61
28_N	53_L	0.550	0.61
149_T	209_L	0.549	0.61
92_T	169_T	0.548	0.61
217_F	220_D	0.547	0.61
101_S	189_P	0.545	0.60
25_T	82_T	0.544	0.60
99_N	104_R	0.543	0.60
251_P	255_G	0.543	0.60
229_E	318_D	0.543	0.60
114_R	225_I	0.543	0.60
107_I	162_R	0.542	0.60
15_C	249_D	0.541	0.60
159_E	166_I	0.541	0.60
149_T	159_E	0.541	0.60
192_P	211_I	0.541	0.60
232_T	236_M	0.540	0.60
117_V	248_V	0.539	0.60
37_A	50_Q	0.539	0.60
110_E	141_G	0.538	0.59
80_G	247_I	0.537	0.59
7_K	17_L	0.537	0.59
216_I	275_G	0.537	0.59
137_L	161_I	0.537	0.59
226_F	325_R	0.537	0.59
216_I	331_A	0.535	0.59
241_A	264_S	0.535	0.59
91_Q	98_I	0.534	0.59
11_P	14_I	0.533	0.59
17_L	321_S	0.532	0.59
354_E	358_V	0.531	0.58
277_L	351_L	0.529	0.58
216_I	326_L	0.529	0.58
236_M	246_F	0.529	0.58
72_T	157_P	0.529	0.58
95_S	151_V	0.529	0.58
8_C	11_P	0.528	0.58
296_Y	303_Q	0.528	0.58
312_N	369_I	0.528	0.58
75_V	157_P	0.526	0.58
7_K	371_T	0.526	0.58
251_P	254_M	0.526	0.58
250_L	257_A	0.526	0.58
121_F	136_I	0.526	0.58
102_H	143_A	0.524	0.58
94_L	98_I	0.524	0.58
186_G	189_P	0.524	0.58
336_F	359_Y	0.524	0.58
38_I	86_A	0.521	0.57
22_W	348_K	0.521	0.57
41_K	111_D	0.521	0.57
261_L	287_G	0.520	0.57
114_R	222_L	0.519	0.57
109_G	142_E	0.519	0.57
218_K	302_D	0.518	0.57
181_D	248_V	0.517	0.57
88_N	127_N	0.517	0.57
237_L	323_V	0.515	0.56
95_S	164_L	0.514	0.56
135_L	172_P	0.513	0.56
241_A	244_P	0.513	0.56
51_I	153_L	0.513	0.56
96_R	342_R	0.513	0.56
34_V	211_I	0.512	0.56
311_L	314_T	0.511	0.56
51_I	76_D	0.510	0.55
234_A	334_A	0.510	0.55
49_M	130_N	0.510	0.55
32_F	175_L	0.510	0.55
261_L	285_A	0.508	0.55
71_K	150_D	0.508	0.55
32_F	54_V	0.508	0.55
30_I	101_S	0.507	0.55
319_V	368_P	0.505	0.55
232_T	334_A	0.505	0.55
152_Q	340_T	0.505	0.55
133_T	175_L	0.504	0.55
284_R	313_R	0.503	0.54
20_G	126_R	0.503	0.54
6_Y	18_L	0.503	0.54
305_Y	352_K	0.503	0.54
226_F	322_T	0.502	0.54
43_D	255_G	0.502	0.54
277_L	347_T	0.501	0.54
76_D	100_T	0.501	0.54
37_A	148_N	0.501	0.54
8_C	310_A	0.500	0.54
247_I	258_S	0.500	0.54
248_V	314_T	0.500	0.54

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
3n54B	5	0.7891	100	0.226	Contact Map
3utkA	1	0.2083	27.1	0.964	Contact Map
3zbiC	1	0.0703	24.9	0.965	Contact Map
4ng7A	1	0.6979	23.6	0.965	Contact Map
4n6kA	1	0.6927	17	0.967	Contact Map
3wfdC	1	0.3333	15.2	0.968	Contact Map
4o8mA	4	0.6849	10	0.97	Contact Map
4n6dA	1	0.6719	8.5	0.971	Contact Map
4fybB	1	0.375	8.3	0.971	Contact Map
2m1jA	1	0.0781	7.2	0.972	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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