RODA - BACSU - GREMLIN Contacts

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RODA - Rod shape-determining protein RodA

UniProt:	P39604	Sequences: MSRYKKQQSPFYQGDLIFIFGVFFIISVVSIYAAGQFGQYGNTDWIQQIVFYLLGAVAITVLLYFDLEQLEKLSLYIFIIGILSLIILKISPESIAPVIKGAKSWFRIGRITIQPSEFMKVGLIMMLASVIGKANPKGVRTLRDDIHLLLKIAGVAVIPVGLILMQDAGTAGICMFIVLVMVFMSGINWKLIAIIAGSGILLISLILLVMINFPDVAKSVGIQDYQIKRVTSWVSASNETQEDSNDSWQVDQAIMAIGSGGILGNGISNLKVYVPESTTDFIFSIIGESFGFIGCAIVVIMFFFLIYRLVVLIDKIHPFNRFASFFCVGYTALIVIHTFQNIGMNIGIMPVTGIPLLFVSYGGSSTLSTLIGFGIVYNASVQLTKYRSYLFNS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	393 (350)
Sequences:	8082 (5595)
Seq/√Len:	299.1

ECOLI - RODA FTSW
BACSU - RODA FTSW SP5E

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
309_L	331_T	3.774	1.00
13_Q	308_R	3.552	1.00
309_L	376_V	3.366	1.00
107_R	110_R	3.199	1.00
180_V	332_A	3.180	1.00
235_S	238_N	2.767	1.00
24_F	52_Y	2.765	1.00
98_V	103_K	2.763	1.00
242_E	245_N	2.741	1.00
19_I	304_F	2.694	1.00
287_G	295_C	2.679	1.00
67_L	323_A	2.633	1.00
257_I	287_G	2.602	1.00
81_G	122_G	2.514	1.00
327_C	376_V	2.494	1.00
62_L	371_I	2.473	1.00
77_I	122_G	2.347	1.00
20_F	373_F	2.330	1.00
55_G	370_L	2.330	1.00
19_I	305_L	2.201	1.00
286_I	298_V	2.155	1.00
90_I	95_I	2.097	1.00
330_Y	376_V	2.090	1.00
81_G	119_M	2.076	1.00
283_F	295_C	2.071	1.00
184_M	328_V	2.066	1.00
160_V	171_A	2.057	1.00
276_E	279_T	1.987	1.00
358_F	373_F	1.985	1.00
306_I	335_V	1.969	1.00
59_I	377_Y	1.958	1.00
40_Y	46_I	1.943	1.00
43_T	47_Q	1.927	1.00
100_K	276_E	1.916	1.00
30_S	286_I	1.916	1.00
87_I	106_F	1.893	1.00
358_F	369_T	1.861	1.00
237_S	251_D	1.857	1.00
28_V	45_W	1.833	1.00
311_V	315_K	1.829	1.00
156_A	178_V	1.824	1.00
30_S	290_F	1.818	1.00
181_M	329_G	1.817	1.00
107_R	112_T	1.798	1.00
250_V	351_V	1.744	1.00
243_D	251_D	1.729	1.00
343_G	349_M	1.715	1.00
71_E	322_F	1.709	1.00
161_G	165_M	1.707	1.00
87_I	95_I	1.692	1.00
316_I	379_A	1.691	1.00
330_Y	372_G	1.691	1.00
267_I	290_F	1.685	1.00
344_M	351_V	1.670	1.00
338_T	342_I	1.662	1.00
309_L	327_C	1.638	1.00
49_I	53_L	1.627	1.00
296_A	300_I	1.597	1.00
228_K	246_D	1.592	1.00
73_L	76_Y	1.566	1.00
125_M	326_F	1.561	1.00
33_A	289_S	1.556	1.00
26_I	286_I	1.548	1.00
28_V	48_Q	1.541	1.00
116_S	170_T	1.519	1.00
327_C	379_A	1.509	1.00
131_I	181_M	1.507	1.00
323_A	379_A	1.492	1.00
24_F	370_L	1.488	1.00
85_L	119_M	1.484	1.00
299_V	342_I	1.480	1.00
113_I	118_F	1.477	1.00
79_I	83_L	1.472	1.00
263_L	293_I	1.468	1.00
283_F	342_I	1.461	1.00
97_P	107_R	1.459	1.00
88_L	106_F	1.458	1.00
86_I	90_I	1.449	1.00
204_S	207_L	1.445	1.00
46_I	49_I	1.444	1.00
173_I	354_I	1.435	1.00
51_F	363_G	1.400	1.00
83_L	87_I	1.396	1.00
302_F	338_T	1.395	1.00
313_I	327_C	1.392	1.00
19_I	301_M	1.390	1.00
286_I	359_V	1.389	1.00
223_Q	226_Q	1.382	1.00
34_A	285_I	1.380	1.00
163_I	174_C	1.380	1.00
97_P	112_T	1.379	1.00
78_F	159_P	1.369	1.00
26_I	298_V	1.368	1.00
334_I	369_T	1.357	1.00
82_I	158_I	1.353	1.00
124_I	329_G	1.352	1.00
76_Y	80_I	1.346	1.00
320_N	323_A	1.345	1.00
177_I	333_L	1.345	1.00
58_A	371_I	1.332	1.00
306_I	331_T	1.331	1.00
306_I	338_T	1.329	1.00
355_P	365_S	1.327	1.00
123_L	174_C	1.317	1.00
224_D	227_I	1.317	1.00
30_S	282_I	1.317	1.00
20_F	370_L	1.312	1.00
59_I	374_G	1.311	1.00
129_S	133_K	1.303	1.00
181_M	325_F	1.299	1.00
53_L	57_V	1.295	1.00
378_N	382_Q	1.289	1.00
250_V	347_G	1.284	1.00
176_F	336_I	1.280	1.00
262_I	292_F	1.277	1.00
32_Y	45_W	1.276	1.00
28_V	49_I	1.261	1.00
292_F	296_A	1.241	1.00
247_S	251_D	1.240	1.00
242_E	246_D	1.235	1.00
157_V	161_G	1.227	1.00
224_D	228_K	1.227	1.00
119_M	159_P	1.222	1.00
227_I	231_T	1.222	1.00
52_Y	366_T	1.211	1.00
16_L	305_L	1.205	1.00
281_F	351_V	1.203	1.00
104_S	116_S	1.199	1.00
23_F	359_V	1.194	1.00
44_D	278_T	1.189	1.00
312_L	327_C	1.169	1.00
70_L	375_I	1.165	1.00
57_V	61_V	1.164	1.00
193_A	197_G	1.157	1.00
46_I	50_V	1.154	1.00
71_E	129_S	1.154	1.00
87_I	90_I	1.152	1.00
127_L	178_V	1.149	1.00
67_L	378_N	1.145	1.00
188_N	191_L	1.144	1.00
253_A	345_N	1.144	1.00
154_G	158_I	1.142	1.00
127_L	152_I	1.140	1.00
74_S	129_S	1.124	1.00
222_I	226_Q	1.119	1.00
54_L	367_L	1.118	1.00
124_I	177_I	1.117	1.00
44_D	361_Y	1.116	1.00
15_D	304_F	1.113	1.00
29_V	267_I	1.109	1.00
242_E	247_S	1.108	1.00
252_Q	270_L	1.108	1.00
310_V	331_T	1.104	1.00
88_L	115_P	1.100	1.00
238_N	242_E	1.099	1.00
128_A	181_M	1.094	1.00
69_Q	72_K	1.084	1.00
228_K	231_T	1.081	1.00
333_L	372_G	1.081	1.00
82_I	159_P	1.080	1.00
16_L	312_L	1.071	1.00
305_L	373_F	1.070	1.00
12_Y	17_I	1.063	1.00
117_E	120_K	1.060	1.00
75_L	79_I	1.059	1.00
63_L	374_G	1.057	1.00
248_W	275_P	1.051	1.00
299_V	338_T	1.050	1.00
71_E	132_G	1.049	1.00
259_S	265_N	1.047	1.00
17_I	377_Y	1.038	1.00
252_Q	255_M	1.038	1.00
145_D	148_L	1.032	1.00
377_Y	380_S	1.029	1.00
274_V	284_S	1.028	1.00
73_L	77_I	1.022	1.00
337_H	365_S	1.019	1.00
99_I	112_T	1.017	1.00
326_F	379_A	1.016	1.00
124_I	333_L	1.011	1.00
254_I	347_G	1.009	1.00
59_I	62_L	1.006	1.00
331_T	376_V	1.004	1.00
67_L	320_N	1.002	1.00
298_V	359_V	0.998	1.00
56_A	60_T	0.991	1.00
248_W	252_Q	0.987	1.00
262_I	293_I	0.985	1.00
75_L	126_M	0.976	1.00
18_F	22_V	0.975	1.00
172_G	176_F	0.974	1.00
118_F	368_S	0.974	1.00
55_G	366_T	0.973	1.00
312_L	380_S	0.972	1.00
23_F	305_L	0.969	1.00
164_L	171_A	0.966	1.00
189_W	193_A	0.960	1.00
76_Y	79_I	0.960	1.00
66_D	69_Q	0.958	1.00
47_Q	51_F	0.954	1.00
130_V	152_I	0.953	1.00
279_T	361_Y	0.951	1.00
67_L	379_A	0.950	1.00
307_Y	311_V	0.950	1.00
170_T	355_P	0.948	1.00
195_I	199_G	0.944	1.00
286_I	290_F	0.944	1.00
237_S	254_I	0.943	1.00
43_T	46_I	0.938	1.00
221_G	224_D	0.938	1.00
313_I	331_T	0.937	1.00
48_Q	51_F	0.934	1.00
125_M	322_F	0.933	1.00
63_L	378_N	0.931	1.00
255_M	270_L	0.925	1.00
169_G	352_T	0.920	1.00
328_V	332_A	0.920	1.00
121_V	375_I	0.919	1.00
22_V	301_M	0.917	1.00
253_A	284_S	0.917	1.00
201_L	204_S	0.915	1.00
47_Q	50_V	0.913	1.00
232_S	246_D	0.911	1.00
26_I	301_M	0.908	1.00
169_G	344_M	0.907	1.00
104_S	169_G	0.900	1.00
121_V	371_I	0.897	1.00
202_L	206_I	0.897	1.00
337_H	355_P	0.897	1.00
85_L	162_L	0.893	1.00
321_R	324_S	0.889	1.00
74_S	322_F	0.888	1.00
31_I	282_I	0.888	1.00
31_I	34_A	0.886	1.00
121_V	368_S	0.885	1.00
334_I	338_T	0.885	1.00
63_L	381_V	0.884	1.00
15_D	308_R	0.884	1.00
175_M	179_L	0.882	1.00
102_A	166_Q	0.881	1.00
32_Y	42_N	0.880	1.00
62_L	70_L	0.877	1.00
183_F	189_W	0.874	1.00
313_I	328_V	0.874	1.00
47_Q	361_Y	0.874	1.00
69_Q	73_L	0.872	1.00
89_K	165_M	0.871	1.00
194_I	198_S	0.867	1.00
204_S	208_L	0.867	1.00
78_F	82_I	0.866	1.00
266_G	289_S	0.866	1.00
26_I	30_S	0.861	1.00
356_L	359_V	0.857	1.00
326_F	375_I	0.857	1.00
192_I	196_A	0.854	1.00
147_H	151_K	0.852	1.00
123_L	156_A	0.847	1.00
236_A	247_S	0.847	1.00
59_I	373_F	0.846	1.00
160_V	175_M	0.846	1.00
344_M	352_T	0.846	1.00
163_I	170_T	0.842	1.00
365_S	369_T	0.842	1.00
277_S	285_I	0.841	1.00
78_F	126_M	0.838	1.00
126_M	155_V	0.833	1.00
84_S	88_L	0.832	1.00
131_I	185_S	0.832	1.00
376_V	379_A	0.828	1.00
303_F	307_Y	0.828	1.00
168_A	226_Q	0.826	1.00
250_V	253_A	0.826	1.00
121_V	372_G	0.825	1.00
61_V	65_F	0.825	1.00
228_K	232_S	0.822	1.00
274_V	277_S	0.822	1.00
300_I	304_F	0.820	1.00
124_I	330_Y	0.819	1.00
55_G	374_G	0.817	1.00
107_R	111_I	0.816	1.00
167_D	170_T	0.816	1.00
20_F	305_L	0.814	1.00
278_T	361_Y	0.813	1.00
21_G	25_I	0.809	1.00
55_G	367_L	0.807	1.00
23_F	298_V	0.805	1.00
343_G	348_I	0.804	1.00
150_L	154_G	0.804	1.00
236_A	251_D	0.804	1.00
45_W	49_I	0.798	1.00
74_S	122_G	0.798	1.00
134_A	151_K	0.797	1.00
283_F	298_V	0.797	1.00
33_A	266_G	0.791	0.99
232_S	238_N	0.790	0.99
374_G	378_N	0.787	0.99
39_Q	44_D	0.782	0.99
124_I	181_M	0.780	0.99
302_F	356_L	0.779	0.99
42_N	45_W	0.776	0.99
25_I	29_V	0.775	0.99
295_C	346_I	0.775	0.99
339_F	348_I	0.770	0.99
82_I	86_I	0.769	0.99
75_L	129_S	0.767	0.99
88_L	103_K	0.766	0.99
249_Q	253_A	0.766	0.99
184_M	332_A	0.765	0.99
96_A	103_K	0.763	0.99
68_E	320_N	0.762	0.99
32_Y	268_S	0.762	0.99
51_F	367_L	0.759	0.99
322_F	326_F	0.759	0.99
203_I	207_L	0.757	0.99
50_V	53_L	0.755	0.99
342_I	346_I	0.755	0.99
253_A	281_F	0.754	0.99
375_I	379_A	0.753	0.99
177_I	180_V	0.752	0.99
344_M	349_M	0.752	0.99
42_N	46_I	0.751	0.99
378_N	381_V	0.745	0.99
148_L	151_K	0.742	0.99
168_A	172_G	0.741	0.99
60_T	64_Y	0.735	0.99
200_I	204_S	0.735	0.99
15_D	19_I	0.734	0.99
308_R	311_V	0.733	0.99
281_F	345_N	0.733	0.99
191_L	195_I	0.728	0.99
149_L	153_A	0.728	0.99
257_I	346_I	0.728	0.99
113_I	368_S	0.727	0.99
295_C	299_V	0.726	0.99
58_A	367_L	0.726	0.99
327_C	331_T	0.725	0.99
128_A	322_F	0.725	0.99
59_I	370_L	0.724	0.99
151_K	154_G	0.723	0.99
198_S	202_L	0.722	0.99
152_I	178_V	0.718	0.99
56_A	59_I	0.717	0.99
31_I	48_Q	0.714	0.99
24_F	56_A	0.713	0.99
119_M	122_G	0.713	0.99
180_V	336_I	0.712	0.99
65_F	70_L	0.711	0.99
128_A	132_G	0.710	0.99
255_M	258_G	0.710	0.99
127_L	156_A	0.710	0.99
131_I	152_I	0.706	0.99
86_I	89_K	0.704	0.99
201_L	205_L	0.703	0.99
282_I	359_V	0.702	0.99
323_A	326_F	0.702	0.99
176_F	180_V	0.702	0.99
202_L	205_L	0.700	0.99
19_I	308_R	0.700	0.99
285_I	289_S	0.695	0.99
369_T	372_G	0.693	0.99
250_V	281_F	0.691	0.99
84_S	113_I	0.689	0.99
191_L	194_I	0.684	0.99
316_I	320_N	0.683	0.98
225_Y	228_K	0.683	0.98
283_F	356_L	0.683	0.98
39_Q	43_T	0.675	0.98
86_I	162_L	0.671	0.98
168_A	223_Q	0.668	0.98
305_L	334_I	0.666	0.98
156_A	160_V	0.666	0.98
310_V	332_A	0.662	0.98
113_I	364_S	0.661	0.98
67_L	326_F	0.661	0.98
134_A	148_L	0.660	0.98
290_F	294_G	0.659	0.98
66_D	323_A	0.658	0.98
130_V	155_V	0.656	0.98
79_I	82_I	0.656	0.98
207_L	227_I	0.653	0.98
305_L	309_L	0.653	0.98
11_F	381_V	0.653	0.98
300_I	303_F	0.651	0.98
342_I	356_L	0.651	0.98
235_S	247_S	0.650	0.98
254_I	258_G	0.649	0.98
282_I	286_I	0.649	0.98
118_F	371_I	0.647	0.98
197_G	201_L	0.647	0.98
316_I	323_A	0.646	0.98
36_Q	271_K	0.646	0.98
124_I	326_F	0.646	0.98
149_L	182_V	0.645	0.98
232_S	247_S	0.644	0.98
84_S	118_F	0.644	0.98
61_V	64_Y	0.641	0.98
332_A	336_I	0.639	0.98
364_S	368_S	0.638	0.98
340_Q	349_M	0.637	0.98
97_P	100_K	0.637	0.98
199_G	203_I	0.634	0.98
193_A	196_A	0.634	0.98
271_K	289_S	0.629	0.97
58_A	61_V	0.627	0.97
238_N	247_S	0.626	0.97
298_V	302_F	0.624	0.97
321_R	325_F	0.622	0.97
237_S	247_S	0.622	0.97
316_I	319_F	0.620	0.97
252_Q	275_P	0.619	0.97
68_E	71_E	0.618	0.97
232_S	236_A	0.613	0.97
304_F	308_R	0.613	0.97
64_Y	381_V	0.612	0.97
231_T	235_S	0.609	0.97
146_I	150_L	0.609	0.97
89_K	103_K	0.609	0.97
302_F	358_F	0.608	0.97
55_G	58_A	0.606	0.97
230_V	234_V	0.603	0.97
131_I	325_F	0.602	0.97
373_F	376_V	0.602	0.97
309_L	373_F	0.600	0.97
369_T	373_F	0.599	0.97
190_K	194_I	0.599	0.97
48_Q	52_Y	0.598	0.97
243_D	247_S	0.597	0.97
330_Y	379_A	0.597	0.97
122_G	126_M	0.597	0.97
251_D	255_M	0.593	0.96
44_D	47_Q	0.592	0.96
274_V	285_I	0.591	0.96
100_K	278_T	0.589	0.96
179_L	196_A	0.588	0.96
100_K	103_K	0.587	0.96
85_L	88_L	0.587	0.96
368_S	372_G	0.584	0.96
108_I	112_T	0.583	0.96
315_K	380_S	0.582	0.96
312_L	316_I	0.580	0.96
71_E	320_N	0.579	0.96
14_G	18_F	0.578	0.96
97_P	103_K	0.578	0.96
131_I	182_V	0.577	0.96
316_I	327_C	0.576	0.96
310_V	314_D	0.574	0.96
48_Q	366_T	0.572	0.96
19_I	300_I	0.569	0.95
104_S	354_I	0.568	0.95
283_F	299_V	0.568	0.95
174_C	178_V	0.567	0.95
341_N	345_N	0.566	0.95
128_A	329_G	0.566	0.95
185_S	325_F	0.565	0.95
250_V	254_I	0.563	0.95
231_T	238_N	0.562	0.95
340_Q	344_M	0.562	0.95
28_V	52_Y	0.562	0.95
125_M	375_I	0.562	0.95
128_A	326_F	0.562	0.95
126_M	130_V	0.561	0.95
134_A	137_K	0.561	0.95
129_S	322_F	0.559	0.95
51_F	55_G	0.559	0.95
207_L	231_T	0.558	0.95
54_L	58_A	0.558	0.95
16_L	308_R	0.557	0.95
104_S	170_T	0.556	0.95
40_Y	43_T	0.556	0.95
309_L	312_L	0.554	0.95
81_G	118_F	0.554	0.95
54_L	57_V	0.553	0.95
67_L	382_Q	0.553	0.95
104_S	166_Q	0.552	0.95
114_Q	117_E	0.551	0.95
22_V	25_I	0.549	0.94
32_Y	36_Q	0.547	0.94
88_L	166_Q	0.546	0.94
232_S	242_E	0.544	0.94
104_S	352_T	0.543	0.94
339_F	349_M	0.542	0.94
146_I	191_L	0.541	0.94
99_I	103_K	0.540	0.94
232_S	250_V	0.540	0.94
335_V	338_T	0.537	0.94
266_G	288_E	0.537	0.94
370_L	374_G	0.535	0.94
71_E	133_K	0.533	0.94
297_I	300_I	0.532	0.94
137_K	147_H	0.532	0.94
63_L	377_Y	0.531	0.93
297_I	301_M	0.530	0.93
339_F	343_G	0.530	0.93
253_A	274_V	0.530	0.93
228_K	238_N	0.529	0.93
177_I	181_M	0.526	0.93
183_F	192_I	0.526	0.93
187_I	192_I	0.525	0.93
128_A	325_F	0.523	0.93
116_S	166_Q	0.521	0.93
305_L	376_V	0.520	0.93
26_I	359_V	0.520	0.93
13_Q	380_S	0.520	0.93
51_F	361_Y	0.518	0.93
85_L	163_I	0.518	0.93
330_Y	333_L	0.518	0.93
251_D	254_I	0.517	0.93
78_F	155_V	0.517	0.93
258_G	292_F	0.513	0.92
233_W	346_I	0.512	0.92
108_I	111_I	0.511	0.92
345_N	351_V	0.509	0.92
268_S	289_S	0.508	0.92
163_I	171_A	0.508	0.92
253_A	346_I	0.507	0.92
135_N	321_R	0.507	0.92
51_F	54_L	0.506	0.92
99_I	107_R	0.504	0.92
80_I	122_G	0.504	0.92
19_I	22_V	0.504	0.92
132_G	322_F	0.503	0.92
208_L	221_G	0.503	0.92
104_S	174_C	0.503	0.92
380_S	384_T	0.503	0.92
235_S	242_E	0.500	0.91

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
2l6wA	2	0.0916	6.8	0.974	Contact Map
3j01B	1	0.1323	4.6	0.976	Contact Map
3rceA	1	0.7735	4.5	0.976	Contact Map
2m8rA	1	0.0967	4.2	0.977	Contact Map
3dinD	1	0.1374	3.4	0.978	Contact Map
4qncA	2	0.1934	3.4	0.978	Contact Map
4ev6A	3	0.1603	3.4	0.978	Contact Map
3dl8C	1	0.0891	3.4	0.978	Contact Map
4i0uA	4	0.1552	3.3	0.978	Contact Map
3wu2Z	1	0.1221	3.2	0.978	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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