YRRL - BACSU - GREMLIN Contacts

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YRRL - UPF0755 protein YrrL

UniProt:	O34758	Sequences: MYINQQKKSFFNKKRIILSSIVVLFLIIGGAFLYGKSLLEPVEKDSKTTVNINIPSGSSVSAIASILKKNDVIKSEKAFQYYVKYKGASGFQAGFYHLNKGMDLDAIIQKLTSGATGYAFQITVTEGAQLTQIAAAIADETKYSKKQVIAKLDDETFINQLKKEFPDTVTNDVFNKNIKHPLEGYLFPATYPFNDPDTSLEDIIKAMIKQTNSYVETYKSEMKKNKVSVHKLLTMASLIEEEATEKADRHKIASVFYNRLKKKMPLQTDPTVLYAAGKHKDRVLYKDLEIDSPYNTYKNTGLTPGPIANAGMSSWEAALHPDKTDYLYFLAKSNGEVVFTKTLKEHNKAKEKYISSKNEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	360 (322)
Sequences:	3867 (3048)
Seq/√Len:	169.9

ECOLI - YCEG
BACSU - YRRL

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
343_L	347_N	5.034	1.00
325_D	341_K	3.929	1.00
340_T	349_A	3.910	1.00
254_S	324_T	3.781	1.00
342_T	345_E	3.353	1.00
256_F	268_T	3.256	1.00
55_P	58_S	3.147	1.00
32_F	36_K	2.815	1.00
68_K	76_E	2.691	1.00
227_V	235_M	2.517	1.00
249_R	314_S	2.494	1.00
291_D	299_N	2.425	1.00
251_K	322_D	2.421	1.00
238_L	268_T	2.412	1.00
55_P	66_I	2.359	1.00
239_I	318_A	2.315	1.00
58_S	66_I	2.305	1.00
235_M	256_F	2.300	1.00
265_P	300_T	2.269	1.00
232_L	319_L	2.264	1.00
250_H	322_D	2.251	1.00
239_I	253_A	2.126	1.00
248_D	337_V	2.113	1.00
185_Y	230_H	2.113	1.00
214_Y	312_M	2.102	1.00
255_V	329_F	2.093	1.00
243_A	252_I	2.076	1.00
275_A	292_S	2.066	1.00
128_A	136_A	2.053	1.00
210_Q	214_Y	2.019	1.00
233_L	315_W	2.018	1.00
312_M	316_E	2.003	1.00
49_T	97_H	2.000	1.00
291_D	298_K	1.996	1.00
246_K	313_S	1.992	1.00
341_K	345_E	1.958	1.00
267_Q	328_Y	1.942	1.00
315_W	319_L	1.892	1.00
256_F	329_F	1.869	1.00
254_S	322_D	1.859	1.00
253_A	257_Y	1.845	1.00
189_A	210_Q	1.837	1.00
332_K	336_E	1.836	1.00
254_S	326_Y	1.829	1.00
251_K	326_Y	1.809	1.00
351_E	355_S	1.797	1.00
257_Y	318_A	1.779	1.00
199_S	202_D	1.777	1.00
135_A	145_K	1.711	1.00
60_V	83_V	1.698	1.00
338_V	352_K	1.695	1.00
52_I	66_I	1.689	1.00
228_S	231_K	1.672	1.00
268_T	329_F	1.668	1.00
267_Q	297_Y	1.653	1.00
240_E	249_R	1.648	1.00
64_A	79_F	1.631	1.00
264_M	327_L	1.599	1.00
245_E	336_E	1.599	1.00
29_G	33_L	1.584	1.00
285_Y	288_L	1.561	1.00
238_L	271_T	1.550	1.00
338_V	349_A	1.547	1.00
53_N	95_F	1.531	1.00
346_H	350_K	1.508	1.00
129_Q	132_Q	1.504	1.00
235_M	257_Y	1.490	1.00
251_K	324_T	1.486	1.00
125_T	128_A	1.485	1.00
241_E	308_A	1.477	1.00
262_K	327_L	1.477	1.00
272_V	288_L	1.477	1.00
253_A	318_A	1.474	1.00
61_S	80_Q	1.456	1.00
98_L	107_I	1.455	1.00
121_Q	192_P	1.447	1.00
96_Y	114_G	1.439	1.00
271_T	296_T	1.439	1.00
30_G	34_Y	1.437	1.00
210_Q	213_S	1.435	1.00
235_M	268_T	1.427	1.00
125_T	136_A	1.421	1.00
99_N	102_M	1.403	1.00
66_I	70_N	1.380	1.00
283_V	288_L	1.379	1.00
270_P	329_F	1.378	1.00
230_H	234_T	1.374	1.00
110_K	115_A	1.368	1.00
58_S	62_A	1.349	1.00
235_M	318_A	1.345	1.00
222_M	225_N	1.338	1.00
138_A	145_K	1.336	1.00
234_T	305_G	1.325	1.00
34_Y	38_L	1.324	1.00
211_T	233_L	1.312	1.00
124_V	133_I	1.305	1.00
58_S	63_I	1.302	1.00
140_E	193_F	1.282	1.00
208_I	212_N	1.280	1.00
98_L	102_M	1.270	1.00
135_A	139_D	1.258	1.00
64_A	80_Q	1.248	1.00
350_K	354_I	1.247	1.00
134_A	149_I	1.239	1.00
143_Y	200_L	1.235	1.00
133_I	309_N	1.232	1.00
214_Y	217_T	1.232	1.00
273_L	283_V	1.228	1.00
105_D	109_Q	1.226	1.00
103_D	106_A	1.225	1.00
230_H	305_G	1.215	1.00
205_K	209_K	1.214	1.00
123_T	190_T	1.208	1.00
348_K	352_K	1.184	1.00
221_E	320_H	1.175	1.00
65_S	69_K	1.175	1.00
258_N	324_T	1.174	1.00
193_F	203_I	1.167	1.00
346_H	349_A	1.165	1.00
289_E	298_K	1.153	1.00
285_Y	289_E	1.152	1.00
275_A	290_I	1.152	1.00
95_F	120_F	1.150	1.00
344_K	347_N	1.147	1.00
344_K	348_K	1.145	1.00
145_K	149_I	1.127	1.00
284_L	287_D	1.126	1.00
198_T	202_D	1.116	1.00
216_E	229_V	1.114	1.00
316_E	320_H	1.110	1.00
349_A	352_K	1.104	1.00
151_K	201_E	1.101	1.00
137_I	148_V	1.098	1.00
217_T	312_M	1.089	1.00
263_K	300_T	1.086	1.00
211_T	310_A	1.083	1.00
227_V	257_Y	1.081	1.00
187_F	210_Q	1.078	1.00
188_P	310_A	1.075	1.00
33_L	37_S	1.071	1.00
286_K	289_E	1.065	1.00
257_Y	321_P	1.060	1.00
128_A	132_Q	1.059	0.99
289_E	292_S	1.056	0.99
294_Y	305_G	1.053	0.99
348_K	351_E	1.052	0.99
276_A	287_D	1.050	0.99
102_M	107_I	1.045	0.99
126_E	311_G	1.044	0.99
119_A	192_P	1.043	0.99
221_E	224_K	1.039	0.99
122_I	137_I	1.035	0.99
54_I	66_I	1.033	0.99
130_L	309_N	1.032	0.99
150_A	154_D	1.030	0.99
62_A	66_I	1.025	0.99
313_S	316_E	1.012	0.99
232_L	315_W	1.009	0.99
187_F	211_T	1.006	0.99
121_Q	190_T	1.003	0.99
345_E	348_K	1.003	0.99
240_E	314_S	1.001	0.99
38_L	41_P	0.998	0.99
241_E	273_L	0.997	0.99
102_M	110_K	0.996	0.99
276_A	290_I	0.994	0.99
256_F	270_P	0.990	0.99
262_K	265_P	0.987	0.99
294_Y	304_P	0.986	0.99
326_Y	341_K	0.983	0.99
161_L	165_F	0.983	0.99
221_E	225_N	0.981	0.99
134_A	152_L	0.980	0.99
265_P	299_N	0.976	0.99
226_K	257_Y	0.975	0.99
28_I	32_F	0.973	0.99
134_A	148_V	0.970	0.99
352_K	355_S	0.964	0.99
292_S	299_N	0.961	0.99
264_M	267_Q	0.960	0.99
211_T	215_V	0.947	0.99
50_V	70_N	0.945	0.99
33_L	36_K	0.939	0.99
72_V	107_I	0.937	0.99
318_A	321_P	0.935	0.99
227_V	231_K	0.932	0.99
148_V	152_L	0.927	0.99
331_A	336_E	0.926	0.99
51_N	95_F	0.921	0.99
270_P	331_A	0.919	0.99
249_R	313_S	0.913	0.99
330_L	350_K	0.913	0.99
209_K	213_S	0.911	0.98
238_L	329_F	0.909	0.98
282_R	354_I	0.908	0.98
134_A	138_A	0.908	0.98
201_E	205_K	0.901	0.98
60_V	64_A	0.901	0.98
338_V	345_E	0.900	0.98
331_A	337_V	0.895	0.98
272_V	297_Y	0.895	0.98
216_E	219_K	0.891	0.98
273_L	279_H	0.888	0.98
52_I	72_V	0.887	0.98
276_A	283_V	0.886	0.98
347_N	350_K	0.885	0.98
248_D	339_F	0.880	0.98
225_N	257_Y	0.880	0.98
50_V	72_V	0.877	0.98
297_Y	346_H	0.877	0.98
126_E	187_F	0.875	0.98
83_V	108_I	0.870	0.98
67_L	72_V	0.870	0.98
286_K	290_I	0.869	0.98
64_A	76_E	0.861	0.98
136_A	139_D	0.859	0.98
35_G	38_L	0.856	0.98
130_L	134_A	0.854	0.98
48_T	100_K	0.852	0.98
227_V	232_L	0.851	0.98
51_N	97_H	0.850	0.98
243_A	249_R	0.847	0.98
146_K	200_L	0.844	0.98
151_K	157_F	0.841	0.97
59_S	62_A	0.839	0.97
146_K	149_I	0.838	0.97
75_S	78_A	0.837	0.97
166_P	179_K	0.833	0.97
193_F	206_A	0.831	0.97
158_I	182_L	0.829	0.97
135_A	138_A	0.827	0.97
23_V	27_I	0.823	0.97
58_S	93_A	0.821	0.97
110_K	113_S	0.820	0.97
246_K	249_R	0.819	0.97
77_K	81_Y	0.817	0.97
187_F	311_G	0.817	0.97
77_K	80_Q	0.814	0.97
99_N	110_K	0.813	0.97
186_L	204_I	0.812	0.97
86_K	105_D	0.811	0.97
260_L	302_L	0.811	0.97
154_D	158_I	0.811	0.97
217_T	220_S	0.809	0.97
32_F	35_G	0.807	0.97
102_M	106_A	0.806	0.97
340_T	345_E	0.806	0.97
206_A	210_Q	0.805	0.97
15_R	26_L	0.804	0.97
193_F	198_T	0.796	0.96
97_H	118_Y	0.794	0.96
258_N	261_K	0.794	0.96
215_V	233_L	0.788	0.96
30_G	33_L	0.787	0.96
222_M	232_L	0.784	0.96
272_V	290_I	0.784	0.96
136_A	140_E	0.779	0.96
131_T	278_K	0.778	0.96
265_P	298_K	0.776	0.96
332_K	338_V	0.775	0.96
153_D	156_T	0.775	0.96
65_S	76_E	0.774	0.96
188_P	191_Y	0.772	0.96
234_T	302_L	0.767	0.96
251_K	254_S	0.767	0.96
26_L	30_G	0.766	0.96
137_I	203_I	0.764	0.96
79_F	83_V	0.762	0.95
95_F	196_P	0.760	0.95
317_A	321_P	0.756	0.95
212_N	216_E	0.755	0.95
64_A	68_K	0.752	0.95
257_Y	261_K	0.752	0.95
290_I	299_N	0.748	0.95
54_I	63_I	0.747	0.95
80_Q	84_K	0.742	0.95
165_F	185_Y	0.742	0.95
234_T	237_S	0.739	0.95
328_Y	343_L	0.738	0.95
124_V	128_A	0.733	0.94
222_M	320_H	0.732	0.94
272_V	292_S	0.730	0.94
202_D	205_K	0.729	0.94
149_I	152_L	0.729	0.94
272_V	275_A	0.728	0.94
188_P	211_T	0.723	0.94
143_Y	203_I	0.721	0.94
187_F	214_Y	0.715	0.94
214_Y	315_W	0.714	0.94
189_A	192_P	0.713	0.94
270_P	273_L	0.712	0.94
35_G	39_L	0.708	0.93
273_L	281_D	0.707	0.93
271_T	303_T	0.707	0.93
330_L	337_V	0.706	0.93
184_G	233_L	0.706	0.93
248_D	251_K	0.705	0.93
293_P	304_P	0.701	0.93
66_I	69_K	0.701	0.93
153_D	180_H	0.700	0.93
272_V	295_N	0.700	0.93
296_T	303_T	0.698	0.93
272_V	283_V	0.697	0.93
122_I	140_E	0.696	0.93
78_A	104_L	0.695	0.93
71_D	101_G	0.695	0.93
134_A	145_K	0.694	0.93
47_K	101_G	0.694	0.93
124_V	207_M	0.694	0.93
82_Y	85_Y	0.693	0.93
185_Y	305_G	0.692	0.93
81_Y	85_Y	0.692	0.93
290_I	298_K	0.684	0.92
128_A	133_I	0.684	0.92
60_V	88_A	0.681	0.92
278_K	287_D	0.678	0.92
106_A	109_Q	0.678	0.92
299_N	304_P	0.677	0.92
60_V	63_I	0.676	0.92
282_R	285_Y	0.675	0.92
166_P	180_H	0.672	0.91
138_A	144_S	0.671	0.91
129_Q	241_E	0.670	0.91
187_F	312_M	0.667	0.91
151_K	200_L	0.664	0.91
292_S	298_K	0.663	0.91
17_I	20_S	0.663	0.91
82_Y	86_K	0.663	0.91
218_Y	221_E	0.662	0.91
123_T	189_A	0.659	0.91
255_V	339_F	0.658	0.91
243_A	273_L	0.658	0.91
148_V	204_I	0.657	0.90
250_H	316_E	0.656	0.90
20_S	27_I	0.654	0.90
351_E	354_I	0.653	0.90
280_K	284_L	0.653	0.90
185_Y	211_T	0.653	0.90
254_S	258_N	0.652	0.90
245_E	248_D	0.650	0.90
198_T	206_A	0.650	0.90
160_Q	201_E	0.649	0.90
189_A	312_M	0.647	0.90
287_D	290_I	0.646	0.90
52_I	111_L	0.645	0.90
82_Y	108_I	0.645	0.90
90_G	112_T	0.645	0.90
165_F	208_I	0.644	0.90
246_K	314_S	0.642	0.89
238_L	304_P	0.642	0.89
22_V	25_F	0.639	0.89
345_E	349_A	0.638	0.89
182_L	208_I	0.636	0.89
194_N	197_D	0.633	0.89
23_V	30_G	0.633	0.89
186_L	207_M	0.632	0.89
31_A	34_Y	0.632	0.89
310_A	315_W	0.630	0.89
131_T	277_G	0.629	0.88
49_T	99_N	0.627	0.88
31_A	35_G	0.626	0.88
336_E	354_I	0.626	0.88
247_A	336_E	0.625	0.88
65_S	68_K	0.623	0.88
235_M	329_F	0.622	0.88
230_H	306_P	0.622	0.88
218_Y	316_E	0.622	0.88
342_T	346_H	0.621	0.88
194_N	206_A	0.618	0.88
240_E	311_G	0.618	0.88
123_T	126_E	0.617	0.88
63_I	91_F	0.616	0.87
343_L	350_K	0.616	0.87
316_E	319_L	0.615	0.87
186_L	208_I	0.615	0.87
189_A	214_Y	0.613	0.87
62_A	65_S	0.613	0.87
39_L	42_V	0.610	0.87
15_R	18_L	0.610	0.87
198_T	203_I	0.610	0.87
310_A	313_S	0.608	0.87
164_E	205_K	0.608	0.87
126_E	189_A	0.606	0.87
72_V	98_L	0.605	0.87
96_Y	110_K	0.604	0.86
281_D	353_Y	0.602	0.86
91_F	112_T	0.602	0.86
82_Y	105_D	0.602	0.86
269_D	290_I	0.599	0.86
53_N	196_P	0.598	0.86
267_Q	298_K	0.598	0.86
347_N	351_E	0.597	0.86
338_V	353_Y	0.595	0.86
183_E	274_Y	0.594	0.86
95_F	118_Y	0.593	0.85
179_K	185_Y	0.587	0.85
272_V	287_D	0.586	0.85
152_L	204_I	0.586	0.85
154_D	157_F	0.583	0.84
15_R	19_S	0.582	0.84
284_L	288_L	0.581	0.84
42_V	71_D	0.580	0.84
157_F	161_L	0.579	0.84
322_D	326_Y	0.577	0.84
276_A	279_H	0.576	0.84
303_T	307_I	0.575	0.84
204_I	208_I	0.574	0.84
340_T	346_H	0.574	0.84
126_E	190_T	0.573	0.83
284_L	289_E	0.572	0.83
282_R	287_D	0.572	0.83
46_S	50_V	0.571	0.83
45_D	106_A	0.571	0.83
272_V	276_A	0.570	0.83
96_Y	116_T	0.569	0.83
350_K	353_Y	0.569	0.83
132_Q	135_A	0.569	0.83
289_E	300_T	0.567	0.83
281_D	288_L	0.566	0.83
223_K	226_K	0.566	0.83
149_I	153_D	0.566	0.83
34_Y	37_S	0.565	0.83
109_Q	113_S	0.564	0.82
161_L	208_I	0.562	0.82
330_L	349_A	0.562	0.82
343_L	346_H	0.562	0.82
208_I	211_T	0.561	0.82
250_H	320_H	0.561	0.82
283_V	287_D	0.560	0.82
269_D	275_A	0.560	0.82
37_S	41_P	0.558	0.82
161_L	205_K	0.557	0.82
225_N	321_P	0.555	0.81
215_V	232_L	0.555	0.81
249_R	253_A	0.553	0.81
67_L	73_I	0.552	0.81
146_K	150_A	0.551	0.81
320_H	323_K	0.548	0.81
265_P	328_Y	0.548	0.81
182_L	186_L	0.547	0.81
332_K	349_A	0.547	0.81
255_V	327_L	0.546	0.80
210_Q	312_M	0.546	0.80
86_K	109_Q	0.542	0.80
240_E	246_K	0.537	0.79
327_L	341_K	0.535	0.79
250_H	318_A	0.534	0.79
51_N	118_Y	0.534	0.79
138_A	141_T	0.532	0.79
254_S	323_K	0.531	0.79
184_G	230_H	0.530	0.78
106_A	110_K	0.530	0.78
23_V	26_L	0.529	0.78
254_S	257_Y	0.527	0.78
252_I	334_N	0.525	0.78
271_T	307_I	0.525	0.78
49_T	100_K	0.523	0.78
274_Y	305_G	0.523	0.78
107_I	111_L	0.523	0.78
211_T	309_N	0.522	0.77
46_S	49_T	0.521	0.77
79_F	82_Y	0.521	0.77
82_Y	104_L	0.520	0.77
29_G	32_F	0.519	0.77
220_S	224_K	0.517	0.77
129_Q	279_H	0.516	0.77
273_L	276_A	0.515	0.76
41_P	44_K	0.512	0.76
120_F	196_P	0.512	0.76
76_E	80_Q	0.509	0.76
191_Y	207_M	0.509	0.76
264_M	297_Y	0.508	0.76
270_P	307_I	0.507	0.75
332_K	353_Y	0.506	0.75
282_R	288_L	0.504	0.75
79_F	104_L	0.504	0.75
255_V	258_N	0.503	0.75
279_H	283_V	0.502	0.75
46_S	100_K	0.502	0.75
25_F	28_I	0.502	0.75
152_L	160_Q	0.501	0.75
311_G	314_S	0.501	0.75
279_H	282_R	0.500	0.74

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
4iiwA	4	0.8444	100	0.134	Contact Map
2r1fA	4	0.7028	100	0.236	Contact Map
4f55A	1	0.2944	89.6	0.955	Contact Map
4b8vA	2	0.5028	87.4	0.956	Contact Map
2m8rA	1	0.1028	63.9	0.965	Contact Map
2w3zA	1	0.5083	62.6	0.965	Contact Map
4fetB	1	0.2722	52.7	0.967	Contact Map
1rz2A	1	0.4611	36.3	0.97	Contact Map
4uz3A	1	0.2417	28	0.972	Contact Map
3owqA	1	0.5972	25.7	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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