PHOE - ECOLI - GREMLIN Contacts

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PHOE - Outer membrane pore protein E

UniProt:	P02932	Sequences: MKKSTLALVVMGIVASASVQAAEIYNKDGNKLDVYGKVKAMHYMSDNASKDGDQSYIRFGFKGETQINDQLTGYGRWEAEFAGNKAESDTAQQKTRLAFAGLKYKDLGSFDYGRNLGALYDVEAWTDMFPEFGGDSSAQTDNFMTKRASGLATYRNTDFFGVIDGLNLTLQYQGKNENRDVKKQNGDGFGTSLTYDFGGSDFAISGAYTNSDRTNEQNLQSRGTGKRAEAWATGLKYDANNIYLATFYSETRKMTPITGGFANKTQNFEAVAQYQFDFGLRPSLGYVLSKGKDIEGIGDEDLVNYIDVGATYYFNKNMSAFVDYKINQLDSDNKLNINNDDIVAVGMTYQF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10729
Length:	351 (321)
Sequences:	5502 (3979)
Seq/√Len:	222.1

ECOLI - PHOE OMPF OMPN YEDS OMPC NMPC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
35_Y	60_G	3.699	1.00
63_G	75_G	3.465	1.00
286_Y	304_N	3.336	1.00
72_T	103_K	3.295	1.00
198_G	201_D	3.250	1.00
76_R	99_F	3.142	1.00
64_E	72_T	3.129	1.00
74_Y	101_G	3.090	1.00
280_L	310_A	3.000	1.00
242_I	274_Y	2.760	1.00
156_N	168_L	2.744	1.00
324_Y	341_D	2.663	1.00
206_G	231_W	2.462	1.00
248_Y	266_Q	2.454	1.00
121_D	153_T	2.397	1.00
38_V	83_G	2.364	1.00
154_Y	157_T	2.330	1.00
210_N	229_E	2.289	1.00
62_K	76_R	2.285	1.00
250_E	266_Q	2.271	1.00
288_L	304_N	2.264	1.00
40_A	83_G	2.264	1.00
118_A	171_Q	2.250	1.00
74_Y	109_S	2.246	1.00
281_R	313_Y	2.222	1.00
74_Y	111_D	2.182	1.00
314_F	320_A	2.168	1.00
170_L	191_T	2.145	1.00
311_T	319_S	2.131	1.00
204_I	235_L	2.127	1.00
168_L	193_L	2.116	1.00
34_V	61_F	2.078	1.00
319_S	348_T	2.047	1.00
280_L	312_Y	2.038	1.00
276_F	282_P	2.038	1.00
151_L	171_Q	1.952	1.00
118_A	169_T	1.925	1.00
114_R	149_S	1.925	1.00
103_K	109_S	1.921	1.00
35_Y	78_E	1.892	1.00
71_L	102_L	1.892	1.00
97_L	116_L	1.890	1.00
16_S	20_Q	1.890	1.00
239_A	244_L	1.850	1.00
71_L	106_D	1.844	1.00
90_T	95_T	1.837	1.00
156_N	163_I	1.833	1.00
167_N	194_T	1.825	1.00
206_G	233_T	1.812	1.00
162_V	167_N	1.785	1.00
35_Y	76_R	1.713	1.00
37_K	58_R	1.699	1.00
84_N	176_N	1.693	1.00
112_Y	152_A	1.666	1.00
320_A	347_M	1.656	1.00
79_A	93_Q	1.632	1.00
39_K	321_F	1.628	1.00
318_M	349_Y	1.623	1.00
110_F	152_A	1.617	1.00
328_Q	339_N	1.609	1.00
208_Y	231_W	1.601	1.00
157_T	163_I	1.588	1.00
92_Q	149_S	1.579	1.00
35_Y	62_K	1.575	1.00
80_E	96_R	1.568	1.00
210_N	227_R	1.557	1.00
74_Y	103_K	1.553	1.00
67_I	73_G	1.551	1.00
178_N	181_V	1.550	1.00
241_N	274_Y	1.497	1.00
235_L	246_T	1.493	1.00
319_S	350_Q	1.485	1.00
273_Q	281_R	1.474	1.00
282_P	310_A	1.470	1.00
155_R	169_T	1.461	1.00
202_F	237_Y	1.453	1.00
58_R	96_R	1.442	1.00
244_L	272_A	1.432	1.00
317_N	349_Y	1.413	1.00
66_Q	70_Q	1.412	1.00
245_A	271_V	1.404	1.00
58_R	78_E	1.400	1.00
108_G	154_Y	1.394	1.00
72_T	105_K	1.376	1.00
122_V	205_S	1.374	1.00
111_D	155_R	1.371	1.00
250_E	264_K	1.361	1.00
326_I	339_N	1.361	1.00
236_K	245_A	1.346	1.00
111_D	153_T	1.340	1.00
107_L	154_Y	1.335	1.00
59_F	79_A	1.308	1.00
78_E	96_R	1.304	1.00
148_A	188_G	1.303	1.00
197_F	201_D	1.298	1.00
115_N	151_L	1.296	1.00
34_V	59_F	1.296	1.00
247_F	269_E	1.290	1.00
156_N	165_G	1.280	1.00
74_Y	99_F	1.280	1.00
126_T	203_A	1.277	1.00
111_D	115_N	1.263	1.00
326_I	341_D	1.258	1.00
288_L	302_L	1.254	1.00
204_I	233_T	1.245	1.00
201_D	237_Y	1.243	1.00
242_I	246_T	1.240	1.00
272_A	284_L	1.239	1.00
65_T	315_N	1.230	1.00
97_L	115_N	1.228	1.00
290_K	302_L	1.224	1.00
76_R	97_L	1.214	1.00
202_F	235_L	1.208	1.00
172_Y	189_F	1.207	1.00
55_S	348_T	1.205	1.00
152_A	174_G	1.200	1.00
79_A	88_S	1.199	1.00
173_Q	188_G	1.197	1.00
71_L	107_L	1.191	1.00
277_D	280_L	1.188	1.00
236_K	243_Y	1.184	1.00
286_Y	306_I	1.184	1.00
329_L	337_I	1.184	1.00
276_F	280_L	1.179	1.00
49_S	84_N	1.176	1.00
82_A	87_E	1.171	1.00
151_L	173_Q	1.160	1.00
92_Q	95_T	1.159	1.00
107_L	110_F	1.159	1.00
66_Q	72_T	1.153	1.00
231_W	250_E	1.148	1.00
238_D	241_N	1.138	1.00
171_Q	190_G	1.136	1.00
246_T	268_F	1.135	1.00
196_D	203_A	1.135	1.00
275_Q	281_R	1.133	1.00
279_G	313_Y	1.132	1.00
73_G	100_A	1.130	1.00
321_F	346_G	1.130	1.00
208_Y	229_E	1.129	1.00
41_M	53_D	1.126	1.00
242_I	272_A	1.125	1.00
285_G	307_D	1.119	1.00
10_V	13_I	1.119	1.00
177_E	181_V	1.117	1.00
119_L	207_A	1.113	1.00
37_K	350_Q	1.107	1.00
43_Y	344_A	1.105	1.00
238_D	243_Y	1.084	1.00
38_V	81_F	1.077	1.00
284_L	306_I	1.075	1.00
73_G	102_L	1.071	1.00
99_F	111_D	1.068	1.00
64_E	74_Y	1.066	1.00
32_L	75_G	1.064	1.00
203_A	236_K	1.063	1.00
283_S	309_G	1.059	1.00
40_A	49_S	1.054	1.00
4_S	8_L	1.052	1.00
96_R	147_R	1.051	1.00
232_A	249_S	1.050	1.00
77_W	94_K	1.046	1.00
246_T	270_A	1.046	1.00
303_V	329_L	1.042	1.00
71_L	105_K	1.040	1.00
64_E	103_K	1.038	1.00
109_S	153_T	1.036	1.00
303_V	327_N	1.034	1.00
17_A	20_Q	1.033	1.00
283_S	311_T	1.026	1.00
46_D	341_D	1.025	1.00
322_V	345_V	1.018	1.00
153_T	171_Q	1.017	1.00
302_L	330_D	1.017	1.00
309_G	323_D	1.014	1.00
267_N	289_S	1.013	1.00
41_M	344_A	0.998	1.00
148_A	151_L	0.997	1.00
322_V	343_V	0.991	1.00
65_T	317_N	0.983	1.00
166_L	197_F	0.980	1.00
271_V	285_G	0.977	1.00
166_L	193_L	0.975	1.00
157_T	162_V	0.974	1.00
167_N	196_D	0.970	1.00
31_K	64_E	0.970	1.00
77_W	98_A	0.963	1.00
58_R	147_R	0.959	1.00
238_D	274_Y	0.956	1.00
170_L	193_L	0.953	1.00
170_L	189_F	0.952	1.00
306_I	326_I	0.947	1.00
6_L	10_V	0.939	1.00
313_Y	319_S	0.934	1.00
169_T	192_S	0.931	1.00
117_G	148_A	0.929	1.00
129_F	309_G	0.926	1.00
70_Q	105_K	0.921	0.99
3_K	6_L	0.917	0.99
129_F	283_S	0.916	0.99
37_K	348_T	0.915	0.99
318_M	347_M	0.910	0.99
103_K	106_D	0.910	0.99
115_N	153_T	0.908	0.99
119_L	232_A	0.908	0.99
57_I	81_F	0.908	0.99
40_A	84_N	0.906	0.99
238_D	275_Q	0.905	0.99
284_L	308_V	0.904	0.99
119_L	230_A	0.902	0.99
266_Q	292_K	0.895	0.99
60_G	78_E	0.894	0.99
173_Q	176_N	0.893	0.99
118_A	207_A	0.891	0.99
314_F	318_M	0.883	0.99
192_S	207_A	0.880	0.99
324_Y	343_V	0.878	0.99
241_N	275_Q	0.874	0.99
122_V	192_S	0.873	0.99
7_A	10_V	0.870	0.99
54_Q	319_S	0.867	0.99
276_F	310_A	0.859	0.99
243_Y	275_Q	0.848	0.99
5_T	8_L	0.845	0.99
228_A	251_T	0.841	0.99
30_N	65_T	0.839	0.99
129_F	285_G	0.837	0.99
128_M	285_G	0.834	0.99
55_S	350_Q	0.833	0.99
265_T	289_S	0.833	0.99
88_S	93_Q	0.831	0.99
55_S	319_S	0.830	0.99
33_D	62_K	0.829	0.99
243_Y	273_Q	0.829	0.99
4_S	7_A	0.827	0.99
205_S	234_G	0.822	0.99
153_T	169_T	0.821	0.99
252_R	264_K	0.816	0.99
118_A	192_S	0.806	0.99
279_G	310_A	0.805	0.99
15_A	18_S	0.800	0.99
269_E	287_V	0.799	0.99
155_R	167_N	0.799	0.99
122_V	194_T	0.790	0.98
68_N	315_N	0.790	0.98
307_D	325_K	0.785	0.98
65_T	318_M	0.781	0.98
125_W	194_T	0.778	0.98
128_M	269_E	0.777	0.98
82_A	89_D	0.776	0.98
9_V	13_I	0.774	0.98
245_A	273_Q	0.773	0.98
329_L	333_N	0.770	0.98
41_M	55_S	0.769	0.98
86_A	94_K	0.767	0.98
11_M	16_S	0.767	0.98
121_D	155_R	0.766	0.98
122_V	155_R	0.765	0.98
311_T	348_T	0.765	0.98
118_A	190_G	0.762	0.98
268_F	290_K	0.761	0.98
114_R	147_R	0.756	0.98
248_Y	268_F	0.752	0.98
126_T	234_G	0.751	0.98
123_E	232_A	0.750	0.98
99_F	115_N	0.749	0.98
8_L	11_M	0.749	0.98
251_T	265_T	0.748	0.98
65_T	68_N	0.748	0.98
156_N	170_L	0.746	0.98
267_N	287_V	0.745	0.98
82_A	85_K	0.741	0.98
16_S	19_V	0.736	0.98
39_K	52_G	0.735	0.97
148_A	171_Q	0.731	0.97
239_A	242_I	0.729	0.97
157_T	165_G	0.726	0.97
80_E	95_T	0.726	0.97
109_S	155_R	0.722	0.97
333_N	337_I	0.717	0.97
162_V	196_D	0.710	0.97
302_L	328_Q	0.710	0.97
66_Q	69_D	0.708	0.97
281_R	311_T	0.706	0.97
8_L	12_G	0.705	0.97
266_Q	290_K	0.705	0.97
59_F	93_Q	0.704	0.97
168_L	191_T	0.703	0.97
58_R	80_E	0.703	0.97
128_M	271_V	0.703	0.97
150_G	176_N	0.701	0.97
132_F	135_D	0.700	0.97
190_G	209_T	0.698	0.97
156_N	164_D	0.693	0.96
128_M	273_Q	0.691	0.96
116_L	120_Y	0.690	0.96
70_Q	106_D	0.689	0.96
119_L	190_G	0.689	0.96
276_F	279_G	0.686	0.96
9_V	12_G	0.683	0.96
328_Q	338_N	0.683	0.96
345_V	349_Y	0.681	0.96
264_K	290_K	0.677	0.96
80_E	94_K	0.676	0.96
308_V	324_Y	0.675	0.96
231_W	266_Q	0.672	0.96
188_G	211_S	0.670	0.96
323_D	344_A	0.668	0.96
117_G	190_G	0.668	0.96
65_T	73_G	0.667	0.96
201_D	239_A	0.664	0.95
60_G	96_R	0.664	0.95
29_G	33_D	0.663	0.95
116_L	147_R	0.661	0.95
273_Q	283_S	0.660	0.95
278_F	312_Y	0.660	0.95
7_A	11_M	0.660	0.95
105_K	110_F	0.657	0.95
310_A	322_V	0.656	0.95
172_Y	187_D	0.655	0.95
12_G	20_Q	0.653	0.95
88_S	92_Q	0.653	0.95
47_N	340_D	0.651	0.95
5_T	17_A	0.649	0.95
84_N	150_G	0.648	0.95
194_T	205_S	0.648	0.95
201_D	238_D	0.646	0.95
5_T	9_V	0.646	0.95
45_S	342_I	0.645	0.95
198_G	237_Y	0.644	0.95
184_Q	212_D	0.643	0.95
43_Y	342_I	0.641	0.95
157_T	167_N	0.641	0.95
30_N	66_Q	0.640	0.94
129_F	135_D	0.638	0.94
65_T	349_Y	0.637	0.94
43_Y	48_A	0.635	0.94
189_F	193_L	0.634	0.94
134_G	138_A	0.625	0.94
59_F	81_F	0.624	0.94
228_A	253_K	0.618	0.93
79_A	94_K	0.617	0.93
233_T	248_Y	0.614	0.93
165_G	195_Y	0.614	0.93
264_K	292_K	0.611	0.93
35_Y	96_R	0.611	0.93
315_N	318_M	0.611	0.93
105_K	154_Y	0.608	0.93
291_G	301_D	0.606	0.93
308_V	322_V	0.604	0.93
80_E	147_R	0.604	0.93
212_D	227_R	0.603	0.93
269_E	285_G	0.602	0.92
134_G	137_S	0.601	0.92
187_D	212_D	0.600	0.92
9_V	15_A	0.599	0.92
183_K	187_D	0.598	0.92
325_K	342_I	0.593	0.92
15_A	20_Q	0.593	0.92
127_D	132_F	0.592	0.92
44_M	341_D	0.592	0.92
156_N	162_V	0.591	0.92
67_I	70_Q	0.590	0.92
100_A	315_N	0.590	0.92
253_K	265_T	0.588	0.92
91_A	95_T	0.588	0.92
107_L	157_T	0.588	0.92
85_K	94_K	0.581	0.91
112_Y	115_N	0.581	0.91
305_Y	327_N	0.581	0.91
122_V	169_T	0.580	0.91
289_S	303_V	0.579	0.91
268_F	272_A	0.578	0.91
275_Q	313_Y	0.577	0.91
44_M	326_I	0.577	0.91
311_T	350_Q	0.576	0.91
132_F	136_S	0.576	0.91
148_A	173_Q	0.575	0.91
101_G	111_D	0.575	0.91
43_Y	50_K	0.574	0.91
4_S	15_A	0.573	0.91
117_G	209_T	0.572	0.90
51_D	83_G	0.571	0.90
46_D	337_I	0.571	0.90
121_D	169_T	0.570	0.90
254_M	262_A	0.570	0.90
127_D	133_G	0.567	0.90
126_T	245_A	0.565	0.90
177_E	185_N	0.564	0.90
12_G	15_A	0.563	0.90
299_D	331_S	0.563	0.90
307_D	323_D	0.563	0.90
32_L	63_G	0.561	0.90
306_I	328_Q	0.561	0.90
44_M	343_V	0.558	0.89
74_Y	153_T	0.556	0.89
57_I	83_G	0.555	0.89
56_Y	80_E	0.554	0.89
253_K	256_P	0.553	0.89
53_D	344_A	0.552	0.89
3_K	15_A	0.551	0.89
241_N	276_F	0.550	0.89
66_Q	316_K	0.549	0.89
49_S	52_G	0.549	0.89
40_A	44_M	0.549	0.89
287_V	305_Y	0.549	0.89
6_L	13_I	0.548	0.89
188_G	209_T	0.546	0.88
163_I	167_N	0.544	0.88
58_R	97_L	0.544	0.88
230_A	251_T	0.543	0.88
293_D	301_D	0.543	0.88
164_D	197_F	0.543	0.88
234_G	247_F	0.542	0.88
45_S	48_A	0.542	0.88
29_G	32_L	0.542	0.88
304_N	330_D	0.542	0.88
268_F	288_L	0.541	0.88
43_Y	54_Q	0.540	0.88
42_H	52_G	0.539	0.88
293_D	330_D	0.537	0.88
29_G	66_Q	0.536	0.87
56_Y	130_P	0.536	0.87
2_K	5_T	0.535	0.87
256_P	263_N	0.535	0.87
31_K	34_V	0.534	0.87
244_L	270_A	0.533	0.87
154_Y	163_I	0.532	0.87
93_Q	98_A	0.531	0.87
13_I	18_S	0.531	0.87
139_Q	142_N	0.530	0.87
156_N	166_L	0.529	0.87
247_F	271_V	0.528	0.87
5_T	15_A	0.527	0.87
117_G	141_D	0.526	0.86
127_D	130_P	0.525	0.86
62_K	316_K	0.525	0.86
190_G	229_E	0.525	0.86
32_L	65_T	0.524	0.86
203_A	206_G	0.524	0.86
6_L	9_V	0.523	0.86
211_S	228_A	0.523	0.86
135_D	138_A	0.522	0.86
43_Y	325_K	0.521	0.86
249_S	265_T	0.521	0.86
217_Q	223_G	0.520	0.86
306_I	339_N	0.520	0.86
203_A	238_D	0.519	0.86
231_W	248_Y	0.518	0.86
65_T	70_Q	0.517	0.86
275_Q	279_G	0.516	0.85
327_N	340_D	0.515	0.85
41_M	321_F	0.515	0.85
31_K	63_G	0.515	0.85
101_G	109_S	0.515	0.85
303_V	333_N	0.514	0.85
56_Y	131_E	0.513	0.85
249_S	267_N	0.513	0.85
182_K	187_D	0.513	0.85
305_Y	325_K	0.512	0.85
197_F	204_I	0.512	0.85
169_T	194_T	0.512	0.85
75_G	94_K	0.511	0.85
154_Y	168_L	0.511	0.85
108_G	157_T	0.510	0.85
134_G	305_Y	0.510	0.85
301_D	332_D	0.509	0.85
162_V	168_L	0.508	0.85
249_S	269_E	0.507	0.84
171_Q	188_G	0.506	0.84
178_N	182_K	0.506	0.84
6_L	12_G	0.505	0.84
54_Q	311_T	0.504	0.84
162_V	166_L	0.503	0.84
39_K	94_K	0.503	0.84
253_K	262_A	0.503	0.84
86_A	317_N	0.501	0.84
54_Q	309_G	0.501	0.84
192_S	205_S	0.501	0.84
53_D	56_Y	0.500	0.84
56_Y	116_L	0.500	0.84
40_A	43_Y	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
1phoA	3	0.9288	100	0.249	Contact Map
2j1nA	3	0.9288	100	0.265	Contact Map
2zfgA	3	0.9174	100	0.273	Contact Map
3nsgA	3	0.9202	100	0.276	Contact Map
2fgqX	3	0.8547	100	0.305	Contact Map
3vy8X	3	0.8746	100	0.323	Contact Map
3wi5A	3	0.849	100	0.353	Contact Map
2porA	3	0.8006	100	0.39	Contact Map
3prnA	3	0.7721	100	0.409	Contact Map
2o4vA	3	0.9202	99.4	0.776	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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