NMPC - ECOLI - GREMLIN Contacts

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NMPC - Putative outer membrane porin protein NmpC

UniProt:	P21420	Sequences: MKKLTVAISAVAASVLMAMSAQAAEIYNKDSNKLDLYGKVNAKHYFSSNDADDGDTTYARLGFKGETQINDQLTGFGQWEYEFKGNRAESQGSSKDKTRLAFAGLKFGDYGSIDYGRNYGVAYDIGAWTDVLPEFGGDTWTQTDVFMTQRATGVATYRNNDFFGLVDGLNFAAQYQGKNDRSDFDNYTEGNGDGFGFSATYEYEGFGIGATYAKSDRTDTQVNAGKVLPEVFASGKNAEVWAAGLKYDANNIYLATTYSETQNMTVFADHFVANKAQNFEAVAQYQFDFGLRPSVAYLQSKGKDLGVWGDQDLVKYVDVGATYYFNKNMSTFVDYKINLLDKNDFTKALGVSTDDIVAVGLVYQF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10659
Length:	365 (324)
Sequences:	5585 (4027)
Seq/√Len:	223.7

ECOLI - NMPC OMPN OMPC YEDS PHOE OMPF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_Y	62_G	4.127	1.00
65_G	77_G	3.665	1.00
297_Y	315_K	3.397	1.00
74_T	106_K	3.357	1.00
76_F	104_G	3.266	1.00
78_Q	102_F	3.160	1.00
66_E	74_T	3.130	1.00
291_L	321_A	3.064	1.00
252_I	285_Y	2.877	1.00
159_N	171_F	2.797	1.00
335_Y	355_D	2.733	1.00
210_A	241_W	2.567	1.00
157_Y	160_N	2.506	1.00
124_D	156_T	2.494	1.00
40_V	85_G	2.482	1.00
258_Y	277_Q	2.435	1.00
42_A	85_G	2.427	1.00
260_E	277_Q	2.307	1.00
121_V	174_Q	2.304	1.00
76_F	112_S	2.298	1.00
64_K	78_Q	2.287	1.00
299_Q	315_K	2.281	1.00
292_R	324_Y	2.258	1.00
76_F	114_D	2.253	1.00
322_T	330_S	2.238	1.00
173_A	197_F	2.233	1.00
208_I	245_L	2.181	1.00
214_K	239_E	2.177	1.00
330_S	362_V	2.176	1.00
171_F	199_A	2.153	1.00
291_L	323_Y	2.133	1.00
325_F	331_T	2.117	1.00
287_F	293_P	2.076	1.00
18_A	22_Q	2.060	1.00
36_L	63_F	2.022	1.00
121_V	172_A	1.996	1.00
154_V	174_Q	1.972	1.00
100_L	119_Y	1.969	1.00
37_Y	80_E	1.958	1.00
106_K	112_S	1.933	1.00
117_R	152_T	1.916	1.00
73_L	105_L	1.889	1.00
165_L	170_N	1.886	1.00
73_L	109_D	1.878	1.00
170_N	200_T	1.858	1.00
86_N	179_N	1.856	1.00
210_A	243_A	1.814	1.00
159_N	166_V	1.799	1.00
249_A	254_L	1.782	1.00
37_Y	78_Q	1.776	1.00
39_K	60_R	1.763	1.00
82_E	99_R	1.752	1.00
41_N	332_F	1.729	1.00
329_M	363_Y	1.725	1.00
115_Y	155_A	1.710	1.00
81_Y	96_D	1.658	1.00
339_L	353_T	1.658	1.00
160_N	166_V	1.642	1.00
331_T	361_L	1.636	1.00
212_Y	241_W	1.623	1.00
206_F	247_Y	1.611	1.00
255_A	282_V	1.593	1.00
37_Y	64_K	1.581	1.00
113_I	155_A	1.581	1.00
251_N	285_Y	1.577	1.00
293_P	321_A	1.573	1.00
158_R	172_A	1.570	1.00
60_R	99_R	1.562	1.00
214_K	237_N	1.562	1.00
284_Q	292_R	1.551	1.00
76_F	106_K	1.548	1.00
95_K	152_T	1.530	1.00
330_S	364_Q	1.517	1.00
69_I	75_G	1.502	1.00
92_G	98_T	1.486	1.00
328_N	363_Y	1.456	1.00
60_R	80_E	1.443	1.00
80_E	99_R	1.436	1.00
245_L	256_T	1.434	1.00
68_Q	72_Q	1.411	1.00
61_L	81_Y	1.395	1.00
36_L	61_L	1.378	1.00
337_I	353_T	1.374	1.00
114_D	158_R	1.356	1.00
114_D	156_T	1.346	1.00
254_L	283_A	1.329	1.00
110_Y	157_Y	1.325	1.00
114_D	118_N	1.318	1.00
111_G	157_Y	1.316	1.00
246_K	255_A	1.315	1.00
67_T	326_N	1.314	1.00
57_T	362_V	1.310	1.00
283_A	295_V	1.307	1.00
74_T	108_G	1.303	1.00
159_N	168_G	1.303	1.00
129_T	207_G	1.296	1.00
118_N	154_V	1.290	1.00
125_I	209_G	1.287	1.00
100_L	118_N	1.285	1.00
76_F	102_F	1.283	1.00
176_Q	194_G	1.280	1.00
208_I	243_A	1.271	1.00
241_W	260_E	1.266	1.00
257_T	280_E	1.262	1.00
252_I	256_T	1.258	1.00
299_Q	313_L	1.248	1.00
288_D	291_L	1.246	1.00
287_F	291_L	1.246	1.00
252_I	283_A	1.244	1.00
73_L	110_Y	1.241	1.00
337_I	355_D	1.240	1.00
151_A	194_G	1.234	1.00
205_G	247_Y	1.230	1.00
202_E	207_G	1.230	1.00
297_Y	317_V	1.220	1.00
301_K	313_L	1.211	1.00
78_Q	100_L	1.207	1.00
155_A	177_G	1.207	1.00
290_G	324_Y	1.194	1.00
95_K	98_T	1.191	1.00
286_Q	292_R	1.190	1.00
43_K	55_D	1.183	1.00
175_Y	195_F	1.177	1.00
333_V	359_V	1.174	1.00
296_A	318_D	1.174	1.00
246_K	253_Y	1.164	1.00
294_S	320_G	1.163	1.00
45_Y	358_A	1.154	1.00
68_Q	74_T	1.149	1.00
154_V	176_Q	1.144	1.00
248_D	251_N	1.142	1.00
206_F	245_L	1.138	1.00
207_G	246_K	1.134	1.00
122_A	211_T	1.118	1.00
314_V	340_L	1.117	1.00
332_F	360_G	1.110	1.00
102_F	114_D	1.108	1.00
99_R	150_R	1.107	1.00
110_Y	113_I	1.104	1.00
81_Y	90_S	1.103	1.00
40_V	83_F	1.101	1.00
256_T	279_F	1.100	1.00
66_E	76_F	1.094	1.00
340_L	351_V	1.094	1.00
174_Q	196_G	1.092	1.00
112_S	156_T	1.089	1.00
260_E	275_K	1.086	1.00
39_K	364_Q	1.083	1.00
75_G	103_A	1.082	1.00
4_L	10_A	1.081	1.00
34_L	77_G	1.070	1.00
256_T	281_A	1.068	1.00
93_S	98_T	1.067	1.00
212_Y	239_E	1.058	1.00
75_G	105_L	1.047	1.00
248_D	253_Y	1.044	1.00
73_L	108_G	1.043	1.00
242_A	259_S	1.042	1.00
66_E	106_K	1.042	1.00
313_L	341_D	1.039	1.00
60_R	150_R	1.038	1.00
156_T	174_Q	1.037	1.00
48_S	355_D	1.034	1.00
67_T	328_N	1.033	1.00
295_V	317_V	1.031	1.00
282_V	296_A	1.031	1.00
10_A	13_A	1.024	1.00
320_G	334_D	1.023	1.00
169_L	203_Y	1.022	1.00
79_W	101_A	1.018	1.00
79_W	97_K	1.016	1.00
43_K	358_A	1.015	1.00
294_S	322_T	1.015	1.00
160_N	165_L	1.009	1.00
170_N	202_E	1.009	1.00
333_V	357_V	1.008	1.00
19_M	22_Q	1.005	1.00
278_N	300_S	1.004	1.00
33_K	66_E	0.989	1.00
42_A	86_N	0.983	1.00
121_V	198_S	0.980	1.00
169_L	199_A	0.979	1.00
14_S	18_A	0.979	1.00
248_D	285_Y	0.975	1.00
314_V	338_N	0.971	1.00
151_A	154_V	0.969	1.00
173_A	195_F	0.967	1.00
317_V	337_I	0.967	1.00
248_D	286_Q	0.959	1.00
122_A	240_V	0.959	1.00
92_G	95_K	0.958	1.00
287_F	321_A	0.956	1.00
59_A	83_F	0.951	1.00
15_V	19_M	0.938	1.00
295_V	319_V	0.932	1.00
39_K	362_V	0.931	1.00
132_L	320_G	0.925	1.00
62_G	80_E	0.923	1.00
118_N	156_T	0.916	0.99
122_A	242_A	0.915	0.99
57_T	330_S	0.914	0.99
277_Q	303_K	0.914	0.99
176_Q	179_N	0.912	0.99
88_A	97_K	0.910	0.99
13_A	16_L	0.908	0.99
173_A	199_A	0.903	0.99
172_A	198_S	0.902	0.99
72_Q	108_G	0.902	0.99
325_F	329_M	0.900	0.99
120_G	151_A	0.898	0.99
329_M	361_L	0.893	0.99
335_Y	357_V	0.888	0.99
209_G	244_G	0.887	0.99
56_T	330_S	0.885	0.99
106_K	109_D	0.881	0.99
324_Y	330_S	0.880	0.99
253_Y	286_Q	0.879	0.99
251_N	286_Q	0.877	0.99
318_D	336_K	0.873	0.99
41_N	54_G	0.871	0.99
67_T	329_M	0.862	0.99
280_E	298_L	0.862	0.99
132_L	294_S	0.862	0.99
198_S	211_T	0.859	0.99
16_L	19_M	0.859	0.99
125_I	198_S	0.852	0.99
35_D	64_K	0.847	0.99
131_V	284_Q	0.846	0.99
340_L	344_D	0.841	0.99
158_R	170_N	0.841	0.99
279_F	301_K	0.840	0.99
16_L	20_S	0.839	0.99
179_N	182_S	0.838	0.99
290_G	321_A	0.835	0.99
32_N	67_T	0.829	0.99
43_K	57_T	0.823	0.99
121_V	211_T	0.818	0.99
57_T	364_Q	0.815	0.99
125_I	200_T	0.814	0.99
156_T	172_A	0.811	0.99
276_A	300_S	0.810	0.99
153_G	179_N	0.809	0.99
17_M	20_S	0.808	0.99
70_N	326_N	0.800	0.99
82_E	98_T	0.800	0.99
84_K	87_R	0.799	0.99
121_V	196_G	0.790	0.98
253_Y	284_Q	0.790	0.98
182_S	188_T	0.786	0.98
238_A	261_T	0.783	0.98
322_T	362_V	0.777	0.98
196_G	213_A	0.776	0.98
61_L	96_D	0.776	0.98
255_A	284_Q	0.775	0.98
129_T	244_G	0.772	0.98
131_V	296_A	0.770	0.98
49_N	354_D	0.770	0.98
125_I	158_R	0.769	0.98
160_N	168_G	0.766	0.98
135_F	138_D	0.763	0.98
131_V	282_V	0.761	0.98
82_E	97_K	0.760	0.98
67_T	70_N	0.758	0.98
102_F	118_N	0.758	0.98
277_Q	301_K	0.753	0.98
5_T	9_S	0.753	0.98
313_L	339_L	0.752	0.98
18_A	21_A	0.752	0.98
72_Q	109_D	0.749	0.98
119_Y	123_Y	0.748	0.98
132_L	296_A	0.745	0.98
4_L	8_I	0.744	0.98
8_I	15_V	0.743	0.98
124_D	158_R	0.743	0.98
60_R	82_E	0.741	0.98
278_N	298_L	0.738	0.98
359_V	363_Y	0.734	0.98
258_Y	279_F	0.734	0.98
67_T	363_Y	0.730	0.97
159_N	167_D	0.730	0.97
319_V	335_Y	0.722	0.97
151_A	174_Q	0.721	0.97
289_F	323_Y	0.720	0.97
62_G	99_R	0.719	0.97
86_N	153_G	0.717	0.97
108_G	113_I	0.716	0.97
249_A	252_I	0.715	0.97
126_G	242_A	0.714	0.97
11_V	15_V	0.713	0.97
8_I	13_A	0.709	0.97
131_V	280_E	0.704	0.97
241_W	277_Q	0.704	0.97
334_D	358_A	0.700	0.97
120_G	196_G	0.698	0.97
159_N	173_A	0.695	0.97
128_W	200_T	0.695	0.97
205_G	249_A	0.694	0.97
112_S	158_R	0.694	0.97
171_F	197_F	0.691	0.96
292_R	322_T	0.686	0.96
132_L	138_D	0.682	0.96
262_Q	275_K	0.676	0.96
68_Q	71_D	0.676	0.96
31_S	35_D	0.675	0.96
204_E	247_Y	0.674	0.96
4_L	9_S	0.672	0.96
261_T	276_A	0.670	0.96
17_M	22_Q	0.669	0.96
119_Y	150_R	0.668	0.96
117_R	150_R	0.665	0.96
47_S	356_I	0.663	0.96
194_G	215_S	0.659	0.95
159_N	165_L	0.659	0.95
165_L	202_E	0.655	0.95
15_V	18_A	0.652	0.95
321_A	333_V	0.652	0.95
284_Q	294_S	0.647	0.95
48_S	351_V	0.646	0.95
13_A	20_S	0.643	0.95
251_N	287_F	0.642	0.95
10_A	15_V	0.642	0.95
190_G	216_D	0.640	0.95
241_W	258_Y	0.639	0.95
82_E	150_R	0.639	0.95
339_L	352_S	0.636	0.94
122_A	196_G	0.635	0.94
61_L	83_F	0.634	0.94
67_T	75_G	0.634	0.94
280_E	296_A	0.634	0.94
130_D	135_F	0.631	0.94
160_N	170_N	0.630	0.94
32_N	68_Q	0.627	0.94
115_Y	118_N	0.627	0.94
108_G	157_Y	0.626	0.94
203_Y	208_I	0.625	0.94
13_A	17_M	0.624	0.94
81_Y	97_K	0.622	0.94
87_R	97_K	0.622	0.94
130_D	136_G	0.621	0.94
14_S	22_Q	0.620	0.94
15_V	20_S	0.619	0.94
141_T	144_D	0.617	0.93
200_T	209_G	0.615	0.93
135_F	139_T	0.614	0.93
37_Y	99_R	0.614	0.93
55_D	358_A	0.613	0.93
175_Y	193_D	0.613	0.93
110_Y	160_N	0.612	0.93
243_A	258_Y	0.609	0.93
317_V	339_L	0.607	0.93
287_F	290_G	0.606	0.93
302_G	312_D	0.605	0.93
43_K	360_G	0.603	0.93
318_D	334_D	0.602	0.93
69_I	72_Q	0.601	0.93
14_S	20_S	0.598	0.92
244_G	257_T	0.597	0.92
326_N	329_M	0.597	0.92
181_R	188_T	0.596	0.92
45_Y	356_I	0.595	0.92
238_A	263_N	0.595	0.92
195_F	199_A	0.595	0.92
279_F	299_Q	0.594	0.92
93_S	96_D	0.593	0.92
130_D	133_P	0.589	0.92
90_S	96_D	0.589	0.92
189_E	193_D	0.587	0.92
151_A	176_Q	0.587	0.92
221_Q	233_A	0.586	0.92
46_F	357_V	0.584	0.91
298_L	316_Y	0.584	0.91
11_V	17_M	0.582	0.91
344_D	351_V	0.581	0.91
109_D	113_I	0.579	0.91
90_S	94_S	0.579	0.91
111_G	160_N	0.578	0.91
55_D	58_Y	0.578	0.91
157_Y	171_F	0.577	0.91
316_Y	338_N	0.575	0.91
166_V	170_N	0.575	0.91
104_G	114_D	0.574	0.91
34_L	65_G	0.571	0.91
9_S	16_L	0.568	0.90
322_T	364_Q	0.567	0.90
59_A	85_G	0.565	0.90
46_F	337_I	0.565	0.90
300_S	314_V	0.564	0.90
317_V	353_T	0.563	0.90
46_F	355_D	0.563	0.90
121_V	124_D	0.562	0.90
139_T	149_Q	0.561	0.90
148_T	213_A	0.560	0.90
275_K	301_K	0.560	0.90
286_Q	324_Y	0.560	0.90
4_L	16_L	0.559	0.90
360_G	365_F	0.559	0.90
58_Y	82_E	0.557	0.89
129_T	255_A	0.556	0.89
310_D	342_K	0.555	0.89
181_R	190_G	0.554	0.89
168_G	201_Y	0.554	0.89
11_V	20_S	0.554	0.89
216_D	237_N	0.553	0.89
120_G	213_A	0.552	0.89
103_A	326_N	0.551	0.89
34_L	67_T	0.549	0.89
2_K	5_T	0.549	0.89
279_F	283_A	0.548	0.89
94_S	98_T	0.548	0.89
254_L	281_A	0.547	0.89
125_I	172_A	0.546	0.89
60_R	100_L	0.546	0.89
5_T	14_S	0.544	0.88
76_F	156_T	0.544	0.88
105_L	108_G	0.544	0.88
178_K	182_S	0.543	0.88
74_T	112_S	0.543	0.88
3_K	9_S	0.543	0.88
43_K	332_F	0.542	0.88
67_T	77_G	0.541	0.88
5_T	8_I	0.541	0.88
31_S	68_Q	0.540	0.88
96_D	101_A	0.537	0.88
304_D	312_D	0.537	0.88
314_V	344_D	0.535	0.88
84_K	91_Q	0.533	0.87
191_N	217_R	0.532	0.87
105_L	110_Y	0.532	0.87
159_N	169_L	0.531	0.87
337_I	357_V	0.530	0.87
275_K	303_K	0.530	0.87
45_Y	336_K	0.529	0.87
136_G	358_A	0.528	0.87
42_A	46_F	0.527	0.87
263_N	266_V	0.527	0.87
159_N	170_N	0.526	0.87
203_Y	206_F	0.526	0.87
42_A	59_A	0.525	0.87
9_S	13_A	0.524	0.86
205_G	248_D	0.524	0.86
180_D	191_N	0.522	0.86
81_Y	101_A	0.522	0.86
174_Q	194_G	0.522	0.86
42_A	45_Y	0.522	0.86
54_G	59_A	0.522	0.86
145_V	148_T	0.521	0.86
157_Y	166_V	0.521	0.86
165_L	168_G	0.520	0.86
264_M	273_A	0.519	0.86
315_K	339_L	0.518	0.86
124_D	172_A	0.518	0.86
259_S	276_A	0.518	0.86
77_G	97_K	0.517	0.86
88_A	328_N	0.517	0.86
315_K	341_D	0.517	0.86
202_E	205_G	0.517	0.86
207_G	248_D	0.515	0.86
203_Y	210_A	0.515	0.86
87_R	95_K	0.515	0.86
77_G	329_M	0.515	0.86
33_K	65_G	0.514	0.85
257_T	282_V	0.514	0.85
98_T	101_A	0.513	0.85
266_V	274_N	0.513	0.85
132_L	135_F	0.513	0.85
316_Y	336_K	0.512	0.85
191_N	220_T	0.511	0.85
39_K	99_R	0.510	0.85
126_G	257_T	0.509	0.85
319_V	333_V	0.509	0.85
5_T	16_L	0.509	0.85
58_Y	119_Y	0.508	0.85
167_D	203_Y	0.507	0.85
193_D	216_D	0.507	0.85
17_M	21_A	0.506	0.85
44_H	54_G	0.506	0.85
136_G	139_T	0.505	0.84
123_Y	147_M	0.504	0.84
69_I	329_M	0.504	0.84
56_T	320_G	0.503	0.84
326_N	363_Y	0.502	0.84
194_G	213_A	0.501	0.84
250_N	256_T	0.501	0.84
169_L	201_Y	0.501	0.84
182_S	189_E	0.500	0.84
353_T	356_I	0.500	0.84

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
3nsgA	3	0.8986	100	0.26	Contact Map
2j1nA	3	0.9041	100	0.26	Contact Map
1phoA	3	0.8877	100	0.261	Contact Map
2zfgA	3	0.8877	100	0.276	Contact Map
2fgqX	3	0.8329	100	0.3	Contact Map
3vy8X	3	0.8685	100	0.316	Contact Map
3wi5A	3	0.8164	100	0.356	Contact Map
2porA	3	0.7726	100	0.39	Contact Map
3prnA	3	0.7425	100	0.402	Contact Map
2o4vA	3	0.9205	99.4	0.773	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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