PTXC - ECOLI - GREMLIN Contacts

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PTXC - Putative permease IIC component GlvC

UniProt:	P31452	Sequences: MLSQIQRFGGAMFTPVLLFPFAGIVVGLAILLQNPMFVGESLTDPNSLFAQIVHIIEEGGWTVFRNMPLIFAVGLPIGLAKQAQGRACLAVMVSFLTWNYFINAMGMTWGSYFGVDFTQDAVAGSGLTMMAGIKTLDTSIIGAIIISGIVTALHNRLFDKKLPVFLGIFQGTSYVVIIAFLVMIPCAWLTLLGWPKVQMGIESLQAFLRSAGALGVWVYTFLERILIPTGLHHFIYGQFIFGPAAVEGGIQMYWAQHLQEFSLSAEPLKSLFPEGGFALHGNSKIFGAVGISLAMYFTAAPENRVKVAGLLIPATLTAMLVGITEPLEFTFLFISPLLFAVHAVLAASMSTVMYLFGVVGNMGGGLID	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11710
Length:	368 (344)
Sequences:	1792 (887)
Seq/√Len:	47.8

ECOLI - PTXC PTW3C PTOCB PTGCB
BACSU - PTG3C PTW3C PTOCB PTWCB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
73_V	92_M	5.575	1.00
94_S	179_A	4.894	1.00
61_W	65_R	4.254	1.00
295_M	311_L	4.232	1.00
303_N	306_K	4.223	1.00
292_S	327_L	3.913	1.00
23_G	361_N	3.841	1.00
160_K	174_Y	3.593	1.00
341_V	345_L	3.568	1.00
149_I	186_C	3.429	1.00
340_A	344_V	3.311	1.00
220_T	350_S	3.232	1.00
223_E	276_G	3.111	1.00
293_L	297_F	3.033	1.00
285_I	319_M	3.031	1.00
351_T	355_L	2.771	1.00
150_V	179_A	2.755	1.00
146_I	183_M	2.715	1.00
11_A	79_L	2.596	1.00
67_M	140_I	2.548	1.00
221_F	343_A	2.508	1.00
222_L	235_I	2.490	1.00
13_F	233_H	2.435	1.00
160_K	170_Q	2.428	1.00
296_Y	308_A	2.418	1.00
29_A	60_G	2.359	1.00
221_F	340_A	2.341	1.00
288_A	291_I	2.309	1.00
308_A	312_I	2.264	1.00
148_G	152_A	2.235	1.00
332_L	339_F	2.231	1.00
181_L	185_P	2.227	1.00
146_I	186_C	2.225	1.00
174_Y	178_I	2.221	1.00
69_L	92_M	2.156	1.00
242_G	245_A	2.146	1.00
153_L	182_V	2.087	1.00
353_M	358_V	2.045	1.00
307_V	311_L	2.027	1.00
92_M	96_L	2.011	0.99
213_A	355_L	2.001	0.99
82_Q	154_H	1.994	0.99
279_L	346_A	1.970	0.99
178_I	182_V	1.966	0.99
225_I	343_A	1.930	0.99
157_L	178_I	1.924	0.99
296_Y	304_R	1.906	0.99
94_S	146_I	1.899	0.99
305_V	308_A	1.893	0.99
48_L	52_I	1.849	0.99
213_A	351_T	1.847	0.99
161_K	164_V	1.820	0.99
297_F	304_R	1.782	0.99
149_I	182_V	1.760	0.99
320_L	367_I	1.752	0.99
257_H	260_E	1.752	0.99
295_M	307_V	1.705	0.98
296_Y	311_L	1.693	0.98
301_P	304_R	1.672	0.98
258_L	263_L	1.617	0.98
292_S	311_L	1.616	0.97
254_W	261_F	1.597	0.97
23_G	317_T	1.583	0.97
21_F	180_F	1.574	0.97
295_M	298_T	1.568	0.97
30_I	57_E	1.568	0.97
188_W	192_L	1.566	0.97
77_I	88_C	1.562	0.97
79_L	148_G	1.561	0.97
257_H	261_F	1.532	0.97
221_F	225_I	1.529	0.96
94_S	183_M	1.512	0.96
291_I	295_M	1.505	0.96
46_N	49_F	1.485	0.96
153_L	178_I	1.478	0.96
319_M	366_L	1.467	0.96
279_L	287_G	1.440	0.95
240_I	363_G	1.438	0.95
146_I	150_V	1.425	0.95
221_F	344_V	1.423	0.95
278_A	349_M	1.418	0.95
266_E	269_K	1.413	0.95
24_I	28_L	1.412	0.94
26_V	64_F	1.410	0.94
127_L	134_K	1.395	0.94
98_W	190_T	1.392	0.94
297_F	301_P	1.379	0.94
214_L	218_V	1.371	0.94
288_A	327_L	1.357	0.93
223_E	346_A	1.355	0.93
200_G	203_S	1.350	0.93
337_L	340_A	1.348	0.93
153_L	174_Y	1.336	0.93
352_V	355_L	1.327	0.92
314_A	318_A	1.314	0.92
207_F	211_A	1.289	0.91
260_E	266_E	1.287	0.91
272_F	275_G	1.283	0.91
58_E	104_A	1.279	0.91
112_Y	134_K	1.270	0.91
130_M	133_I	1.270	0.91
248_G	265_A	1.269	0.91
5_I	8_F	1.269	0.91
219_Y	274_E	1.263	0.90
204_L	207_F	1.263	0.90
312_I	315_T	1.257	0.90
256_Q	260_E	1.256	0.90
247_E	251_Q	1.255	0.90
94_S	150_V	1.252	0.90
149_I	183_M	1.250	0.90
103_N	107_M	1.241	0.90
212_G	215_G	1.235	0.89
216_V	354_Y	1.229	0.89
4_Q	8_F	1.225	0.89
246_V	260_E	1.224	0.89
328_E	331_F	1.221	0.89
76_P	151_T	1.216	0.89
14_T	77_I	1.215	0.89
76_P	91_V	1.195	0.88
216_V	271_L	1.184	0.87
261_F	265_A	1.182	0.87
298_T	304_R	1.182	0.87
287_G	342_H	1.174	0.87
246_V	251_Q	1.154	0.86
278_A	353_M	1.151	0.86
348_S	352_V	1.143	0.85
128_T	137_D	1.135	0.85
146_I	153_L	1.133	0.85
221_F	347_A	1.130	0.85
217_W	221_F	1.092	0.83
217_W	348_S	1.087	0.82
95_F	99_N	1.073	0.82
205_Q	245_A	1.066	0.81
223_E	350_S	1.063	0.81
160_K	178_I	1.061	0.81
167_G	323_I	1.060	0.81
185_P	189_L	1.054	0.80
240_I	362_M	1.049	0.80
284_K	364_G	1.038	0.79
254_W	260_E	1.036	0.79
260_E	267_P	1.031	0.79
251_Q	254_W	1.030	0.79
248_G	251_Q	1.025	0.78
157_L	160_K	1.025	0.78
82_Q	159_D	1.024	0.78
293_L	296_Y	1.014	0.78
229_T	332_L	1.009	0.77
206_A	210_S	1.003	0.77
278_A	284_K	0.998	0.77
291_I	342_H	0.997	0.76
225_I	340_A	0.997	0.76
98_W	142_G	0.990	0.76
145_I	218_V	0.987	0.76
194_W	336_P	0.985	0.76
254_W	257_H	0.984	0.76
217_W	351_T	0.981	0.75
199_M	203_S	0.980	0.75
28_L	32_L	0.977	0.75
273_P	278_A	0.976	0.75
157_L	174_Y	0.976	0.75
350_S	364_G	0.974	0.75
44_D	47_S	0.971	0.75
248_G	252_M	0.967	0.74
284_K	318_A	0.963	0.74
293_L	298_T	0.961	0.74
299_A	304_R	0.960	0.74
45_P	50_A	0.958	0.74
98_W	146_I	0.956	0.73
21_F	181_L	0.955	0.73
17_L	168_I	0.952	0.73
85_G	290_G	0.948	0.73
260_E	265_A	0.940	0.72
220_T	347_A	0.936	0.72
254_W	263_L	0.935	0.72
227_I	284_K	0.935	0.72
310_L	314_A	0.934	0.72
33_Q	46_N	0.932	0.71
58_E	61_W	0.932	0.71
64_F	323_I	0.926	0.71
296_Y	312_I	0.925	0.71
113_F	127_L	0.924	0.71
154_H	270_S	0.923	0.71
54_H	57_E	0.919	0.70
141_I	192_L	0.917	0.70
288_A	314_A	0.916	0.70
149_I	152_A	0.916	0.70
12_M	172_T	0.910	0.70
174_Y	217_W	0.909	0.70
216_V	359_V	0.908	0.69
47_S	50_A	0.908	0.69
324_T	328_E	0.908	0.69
304_R	308_A	0.904	0.69
285_I	292_S	0.902	0.69
33_Q	57_E	0.899	0.69
138_T	142_G	0.887	0.68
145_I	190_T	0.878	0.67
33_Q	53_V	0.875	0.67
254_W	259_Q	0.875	0.67
130_M	134_K	0.872	0.66
213_A	354_Y	0.872	0.66
73_V	88_C	0.868	0.66
87_A	155_N	0.867	0.66
6_Q	9_G	0.860	0.65
170_Q	174_Y	0.859	0.65
360_G	368_D	0.857	0.65
163_P	169_F	0.856	0.65
112_Y	127_L	0.853	0.65
145_I	186_C	0.847	0.64
189_L	192_L	0.844	0.64
175_V	178_I	0.844	0.64
68_P	297_F	0.842	0.64
182_V	186_C	0.835	0.63
288_A	318_A	0.833	0.63
265_A	269_K	0.831	0.63
309_G	327_L	0.829	0.62
4_Q	152_A	0.826	0.62
240_I	284_K	0.825	0.62
6_Q	78_G	0.822	0.62
246_V	266_E	0.821	0.62
339_F	342_H	0.820	0.62
337_L	341_V	0.816	0.61
252_M	258_L	0.811	0.61
131_A	134_K	0.808	0.60
140_I	143_A	0.808	0.60
26_V	367_I	0.806	0.60
285_I	342_H	0.805	0.60
179_A	327_L	0.794	0.59
287_G	291_I	0.794	0.59
138_T	194_W	0.794	0.59
52_I	341_V	0.792	0.59
301_P	305_V	0.791	0.59
102_I	138_T	0.786	0.58
18_L	93_V	0.784	0.58
219_Y	339_F	0.782	0.58
157_L	320_L	0.782	0.58
182_V	189_L	0.776	0.57
276_G	339_F	0.775	0.57
293_L	301_P	0.775	0.57
173_S	176_V	0.775	0.57
249_G	273_P	0.773	0.57
156_R	182_V	0.772	0.57
252_M	261_F	0.772	0.57
345_L	348_S	0.772	0.57
72_A	143_A	0.771	0.57
95_F	142_G	0.767	0.56
26_V	61_W	0.766	0.56
150_V	178_I	0.766	0.56
315_T	319_M	0.764	0.56
45_P	49_F	0.764	0.56
256_Q	261_F	0.763	0.56
260_E	269_K	0.762	0.56
247_E	253_Y	0.761	0.56
99_N	133_I	0.761	0.56
292_S	315_T	0.757	0.55
76_P	87_A	0.757	0.55
186_C	193_G	0.754	0.55
225_I	353_M	0.752	0.55
101_F	187_A	0.749	0.55
7_R	155_N	0.748	0.54
17_L	176_V	0.743	0.54
2_L	8_F	0.742	0.54
133_I	136_L	0.739	0.54
240_I	272_F	0.739	0.54
227_I	332_L	0.735	0.53
288_A	342_H	0.735	0.53
327_L	330_T	0.734	0.53
257_H	265_A	0.734	0.53
250_I	253_Y	0.732	0.53
140_I	145_I	0.729	0.53
353_M	357_G	0.726	0.52
195_P	233_H	0.723	0.52
264_S	267_P	0.718	0.51
110_G	133_I	0.717	0.51
69_L	131_A	0.717	0.51
20_P	224_R	0.715	0.51
258_L	261_F	0.715	0.51
163_P	166_L	0.713	0.51
151_T	155_N	0.713	0.51
90_A	317_T	0.711	0.51
317_T	330_T	0.710	0.51
253_Y	257_H	0.709	0.51
189_L	193_G	0.702	0.50
127_L	131_A	0.701	0.50
328_E	342_H	0.700	0.50
299_A	311_L	0.699	0.50
105_M	191_L	0.699	0.50
194_W	197_V	0.696	0.49
183_M	186_C	0.695	0.49
311_L	330_T	0.695	0.49
149_I	153_L	0.695	0.49
54_H	58_E	0.695	0.49
150_V	153_L	0.695	0.49
252_M	255_A	0.693	0.49
81_K	344_V	0.692	0.49
27_G	31_L	0.690	0.49
221_F	229_T	0.686	0.48
30_I	34_N	0.686	0.48
68_P	140_I	0.685	0.48
127_L	130_M	0.683	0.48
96_L	131_A	0.683	0.48
218_V	237_G	0.683	0.48
225_I	276_G	0.683	0.48
27_G	30_I	0.680	0.48
279_L	349_M	0.678	0.47
32_L	53_V	0.675	0.47
183_M	187_A	0.675	0.47
59_G	101_F	0.672	0.47
247_E	250_I	0.672	0.47
207_F	218_V	0.672	0.47
334_I	337_L	0.668	0.46
289_V	292_S	0.667	0.46
186_C	190_T	0.667	0.46
58_E	65_R	0.664	0.46
223_E	279_L	0.663	0.46
290_G	318_A	0.658	0.45
156_R	213_A	0.658	0.45
244_A	260_E	0.656	0.45
132_G	135_T	0.656	0.45
74_G	277_F	0.653	0.45
49_F	53_V	0.653	0.45
99_N	102_I	0.653	0.45
88_C	91_V	0.652	0.45
75_L	148_G	0.652	0.45
240_I	364_G	0.651	0.45
97_T	180_F	0.651	0.45
130_M	136_L	0.649	0.45
153_L	183_M	0.648	0.45
50_A	54_H	0.648	0.45
66_N	96_L	0.646	0.44
240_I	277_F	0.642	0.44
223_E	235_I	0.640	0.44
321_V	365_G	0.640	0.44
251_Q	256_Q	0.640	0.44
246_V	269_K	0.638	0.44
273_P	277_F	0.638	0.44
293_L	308_A	0.637	0.43
106_G	127_L	0.636	0.43
44_D	49_F	0.634	0.43
20_P	313_P	0.631	0.43
142_G	194_W	0.631	0.43
84_Q	154_H	0.629	0.43
76_P	80_A	0.628	0.43
106_G	110_G	0.627	0.42
295_M	327_L	0.627	0.42
153_L	157_L	0.627	0.42
208_L	234_F	0.626	0.42
191_L	195_P	0.626	0.42
33_Q	47_S	0.625	0.42
211_A	218_V	0.625	0.42
76_P	88_C	0.625	0.42
154_H	172_T	0.624	0.42
2_L	297_F	0.622	0.42
224_R	324_T	0.622	0.42
23_G	224_R	0.622	0.42
229_T	349_M	0.620	0.42
254_W	258_L	0.619	0.42
165_F	316_L	0.619	0.42
202_E	206_A	0.618	0.42
51_Q	108_T	0.618	0.42
82_Q	87_A	0.617	0.41
161_K	170_Q	0.616	0.41
207_F	210_S	0.616	0.41
235_I	238_Q	0.616	0.41
129_M	134_K	0.615	0.41
310_L	334_I	0.615	0.41
237_G	241_F	0.615	0.41
74_G	144_I	0.613	0.41
284_K	349_M	0.613	0.41
203_S	206_A	0.613	0.41
139_S	242_G	0.613	0.41
219_Y	240_I	0.612	0.41
219_Y	235_I	0.612	0.41
263_L	266_E	0.611	0.41
208_L	271_L	0.610	0.41
295_M	302_E	0.610	0.41
181_L	315_T	0.609	0.41
93_V	180_F	0.607	0.40
21_F	311_L	0.607	0.40
276_G	364_G	0.605	0.40
168_I	176_V	0.603	0.40
31_L	59_G	0.603	0.40
180_F	183_M	0.603	0.40
273_P	284_K	0.599	0.40
172_T	290_G	0.599	0.40
192_L	305_V	0.598	0.40
194_W	198_Q	0.598	0.40
29_A	57_E	0.598	0.40
193_G	196_K	0.597	0.40
80_A	215_G	0.596	0.39
113_F	129_M	0.596	0.39
141_I	145_I	0.596	0.39
74_G	89_L	0.595	0.39
17_L	240_I	0.595	0.39
33_Q	50_A	0.595	0.39
246_V	267_P	0.595	0.39
351_T	358_V	0.594	0.39
181_L	184_I	0.594	0.39
299_A	307_V	0.593	0.39
276_G	350_S	0.592	0.39
29_A	53_V	0.592	0.39
214_L	344_V	0.590	0.39
294_A	299_A	0.589	0.39
217_W	347_A	0.588	0.39
152_A	157_L	0.588	0.39
330_T	334_I	0.588	0.39
311_L	334_I	0.587	0.39
352_V	356_F	0.586	0.38
48_L	51_Q	0.586	0.38
349_M	353_M	0.584	0.38
20_P	25_V	0.583	0.38
249_G	254_W	0.583	0.38
247_E	252_M	0.583	0.38
290_G	293_L	0.582	0.38
203_S	207_F	0.582	0.38
263_L	273_P	0.581	0.38
152_A	156_R	0.580	0.38
80_A	301_P	0.579	0.38
28_L	152_A	0.578	0.38
277_F	284_K	0.578	0.38
135_T	142_G	0.576	0.38
9_G	12_M	0.575	0.37
276_G	279_L	0.573	0.37
143_A	147_S	0.573	0.37
98_W	183_M	0.572	0.37
152_A	188_W	0.571	0.37
9_G	78_G	0.571	0.37
166_L	178_I	0.571	0.37
277_F	286_F	0.570	0.37
244_A	269_K	0.569	0.37
20_P	277_F	0.569	0.37
200_G	204_L	0.568	0.37
99_N	136_L	0.567	0.37
192_L	196_K	0.565	0.37
132_G	136_L	0.563	0.36
240_I	278_A	0.563	0.36
77_I	84_Q	0.562	0.36
24_I	237_G	0.562	0.36
256_Q	265_A	0.562	0.36
201_I	216_V	0.562	0.36
246_V	249_G	0.561	0.36
107_M	200_G	0.561	0.36
246_V	265_A	0.561	0.36
188_W	191_L	0.561	0.36
191_L	209_R	0.561	0.36
78_G	239_F	0.559	0.36
219_Y	239_F	0.556	0.36
23_G	309_G	0.554	0.35
13_F	173_S	0.553	0.35
72_A	288_A	0.552	0.35
258_L	273_P	0.552	0.35
285_I	315_T	0.551	0.35
79_L	198_Q	0.549	0.35
177_I	180_F	0.549	0.35
173_S	275_G	0.548	0.35
16_V	30_I	0.547	0.35
32_L	91_V	0.547	0.35
16_V	170_Q	0.545	0.35
150_V	183_M	0.544	0.35
225_I	332_L	0.543	0.34
166_L	362_M	0.543	0.34
275_G	365_G	0.542	0.34
227_I	346_A	0.542	0.34
272_F	279_L	0.541	0.34
58_E	101_F	0.540	0.34
250_I	254_W	0.540	0.34
182_V	304_R	0.537	0.34
20_P	78_G	0.535	0.34
94_S	178_I	0.533	0.34
10_G	80_A	0.533	0.34
176_V	321_V	0.532	0.33
81_K	88_C	0.532	0.33
98_W	187_A	0.532	0.33
136_L	198_Q	0.532	0.33
306_K	314_A	0.531	0.33
234_F	272_F	0.529	0.33
60_G	287_G	0.528	0.33
212_G	234_F	0.528	0.33
23_G	99_N	0.526	0.33
361_N	364_G	0.526	0.33
166_L	181_L	0.525	0.33
142_G	187_A	0.524	0.33
256_Q	259_Q	0.523	0.33
317_T	367_I	0.523	0.33
284_K	287_G	0.523	0.33
146_I	191_L	0.523	0.33
13_F	17_L	0.521	0.33
182_V	185_P	0.521	0.33
160_K	175_V	0.519	0.32
33_Q	60_G	0.519	0.32
146_I	178_I	0.518	0.32
23_G	64_F	0.518	0.32
77_I	81_K	0.518	0.32
244_A	266_E	0.516	0.32
10_G	56_I	0.515	0.32
198_Q	272_F	0.514	0.32
252_M	259_Q	0.513	0.32
128_T	131_A	0.513	0.32
6_Q	10_G	0.511	0.32
22_A	321_V	0.510	0.32
95_F	197_V	0.510	0.32
102_I	191_L	0.510	0.32
3_S	199_M	0.509	0.31
290_G	297_F	0.508	0.31
87_A	316_L	0.507	0.31
85_G	363_G	0.507	0.31
75_L	164_V	0.506	0.31
246_V	250_I	0.506	0.31
223_E	343_A	0.505	0.31
222_L	347_A	0.505	0.31
270_S	273_P	0.504	0.31
276_G	343_A	0.503	0.31
205_Q	244_A	0.503	0.31
214_L	340_A	0.503	0.31
238_Q	243_P	0.503	0.31
69_L	300_A	0.501	0.31
3_S	196_K	0.500	0.31

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
3qnqA	2	0.8995	100	0.673	Contact Map
4b19A	1	0.0815	7.3	0.98	Contact Map
2micA	2	0.1114	4.9	0.982	Contact Map
2z34C	1	0.0571	4.2	0.982	Contact Map
3fhtA	1	0.1304	3.5	0.983	Contact Map
3fmpB	1	0	3.3	0.983	Contact Map
2bf1A	1	0.1739	3.3	0.983	Contact Map
4c48C	1	0.1223	3.2	0.983	Contact Map
2mvhA	1	0.0489	2.7	0.984	Contact Map
2kv5A	1	0.0897	2.7	0.984	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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