MALI - ECOLI - GREMLIN Contacts

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MALI - Maltose regulon regulatory protein MalI

UniProt:	P18811	Sequences: MATAKKITIHDVALAAGVSVSTVSLVLSGKGRISTATGERVNAAIEELGFVRNRQASALRGGQSGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLHGGKDGEQLAQRFSLLLNQGVDGVVIAGAAGSSDDLRRMAEEKAIPVIFASRASYLDDVDTVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHSDWVLECTSSQKQAAEAITALLRHNPTISAVVCYNETIAMGAWFGLLKAGRQSGESGVDRYFEQQVSLAAFTDATPTTLDDIPVTWASTPARELGITLADRMMQKITHEETHSRNLIIPARLIAAK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10557
Length:	342 (322)
Sequences:	34429 (25202)
Seq/√Len:	1404.4

ECOLI - MALI GALS GALR CYTR LACI IDNR GNTR CRA PURR ASCG RBSR YCJW EBGR TRER TORT ALSB RBSB YTFQ XYLF LSRB YPHF ARAF DGAL XYLR
BACSU - KDGR CCPA DEGA RBSR NTDR YKVZ MSMR EXUR GANR YVDE ARAR CCPB RBSB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
167_M	206_A	3.420	1.00
182_H	245_S	3.292	1.00
15_A	47_E	3.174	1.00
268_Q	280_Q	3.166	1.00
173_L	285_A	2.723	1.00
201_V	205_C	2.612	1.00
182_H	283_S	2.610	1.00
123_G	318_M	2.574	1.00
289_D	304_S	2.560	1.00
171_Q	210_K	2.383	1.00
160_D	321_K	2.320	1.00
35_T	39_E	2.284	1.00
231_A	264_K	2.263	1.00
43_A	47_E	2.250	1.00
39_E	43_A	2.214	1.00
89_A	92_A	2.187	1.00
89_A	316_D	2.160	1.00
235_T	265_A	2.145	1.00
178_I	211_F	2.111	1.00
313_T	316_D	2.092	1.00
168_Q	172_L	2.067	1.00
171_Q	206_A	2.045	1.00
235_T	261_G	2.010	1.00
175_E	207_T	2.008	1.00
171_Q	207_T	2.006	1.00
26_V	41_V	1.995	1.00
90_L	315_A	1.995	1.00
38_G	42_N	1.931	1.00
175_E	179_R	1.911	1.00
170_A	174_T	1.900	1.00
85_G	311_G	1.900	1.00
167_M	202_G	1.897	1.00
27_L	45_I	1.893	1.00
262_L	282_V	1.891	1.00
169_A	287_F	1.882	1.00
230_A	257_G	1.880	1.00
10_H	20_V	1.871	1.00
239_R	265_A	1.869	1.00
170_A	248_V	1.828	1.00
177_L	246_A	1.813	1.00
89_A	312_I	1.800	1.00
304_S	337_R	1.795	1.00
320_Q	325_E	1.788	1.00
174_T	204_Y	1.783	1.00
88_E	308_R	1.741	1.00
175_E	211_F	1.741	1.00
16_A	44_A	1.725	1.00
231_A	261_G	1.718	1.00
15_A	44_A	1.710	1.00
171_Q	175_E	1.707	1.00
306_P	309_E	1.674	1.00
187_W	250_Y	1.673	1.00
85_G	308_R	1.655	1.00
267_R	281_Q	1.648	1.00
234_I	258_A	1.645	1.00
176_H	180_N	1.644	1.00
68_G	121_V	1.637	1.00
268_Q	281_Q	1.614	1.00
186_A	244_I	1.604	1.00
249_C	258_A	1.599	1.00
172_L	336_A	1.598	1.00
89_A	93_Q	1.589	1.00
263_L	297_D	1.584	1.00
313_T	332_L	1.580	1.00
261_G	265_A	1.565	1.00
42_N	46_E	1.563	1.00
150_A	314_L	1.536	1.00
184_R	216_H	1.523	1.00
93_Q	319_M	1.522	1.00
26_V	45_I	1.516	1.00
168_Q	171_Q	1.510	1.00
202_G	206_A	1.501	1.00
309_E	313_T	1.498	1.00
184_R	243_T	1.494	1.00
178_I	207_T	1.483	1.00
165_D	168_Q	1.482	1.00
285_A	301_T	1.478	1.00
221_L	236_A	1.476	1.00
309_E	312_I	1.456	1.00
261_G	264_K	1.455	1.00
12_V	44_A	1.450	1.00
42_N	45_I	1.442	1.00
199_E	202_G	1.430	1.00
176_H	179_R	1.413	1.00
65_G	122_D	1.411	1.00
205_C	209_L	1.388	1.00
89_A	315_A	1.379	1.00
262_L	267_R	1.370	1.00
216_H	219_W	1.366	1.00
235_T	264_K	1.357	1.00
174_T	178_I	1.343	1.00
234_I	247_V	1.327	1.00
174_T	203_G	1.327	1.00
67_I	90_L	1.323	1.00
231_A	235_T	1.315	1.00
169_A	336_A	1.315	1.00
186_A	237_L	1.312	1.00
10_H	14_L	1.307	1.00
207_T	210_K	1.305	1.00
11_D	14_L	1.294	1.00
174_T	207_T	1.293	1.00
65_G	95_R	1.290	1.00
35_T	38_G	1.288	1.00
170_A	203_G	1.286	1.00
235_T	239_R	1.285	1.00
184_R	245_S	1.285	1.00
231_A	260_F	1.285	1.00
182_H	246_A	1.275	1.00
316_D	320_Q	1.266	1.00
15_A	48_L	1.265	1.00
234_I	262_L	1.259	1.00
34_S	37_T	1.254	1.00
25_L	30_K	1.247	1.00
203_G	207_T	1.242	1.00
40_R	44_A	1.241	1.00
319_M	323_T	1.239	1.00
12_V	16_A	1.237	1.00
44_A	47_E	1.233	1.00
175_E	210_K	1.231	1.00
69_L	86_L	1.218	1.00
259_W	284_L	1.204	1.00
236_A	240_H	1.199	1.00
224_T	229_Q	1.199	1.00
100_L	112_R	1.198	1.00
172_L	175_E	1.186	1.00
125_V	314_L	1.184	1.00
9_I	20_V	1.184	1.00
167_M	199_E	1.182	1.00
90_L	97_V	1.180	1.00
100_L	116_L	1.179	1.00
86_L	125_V	1.178	1.00
167_M	171_Q	1.171	1.00
7_I	48_L	1.170	1.00
86_L	315_A	1.165	1.00
37_T	40_R	1.165	1.00
68_G	116_L	1.159	1.00
44_A	48_L	1.157	1.00
204_Y	208_L	1.150	1.00
228_K	232_E	1.147	1.00
308_R	312_I	1.144	1.00
114_S	139_M	1.139	1.00
188_L	258_A	1.131	1.00
12_V	48_L	1.127	1.00
183_Q	245_S	1.121	1.00
257_G	261_G	1.121	1.00
43_A	46_E	1.121	1.00
252_E	302_W	1.121	1.00
185_I	208_L	1.112	1.00
69_L	97_V	1.089	1.00
176_H	301_T	1.086	1.00
167_M	203_G	1.085	1.00
39_E	42_N	1.085	1.00
93_Q	316_D	1.084	1.00
247_V	258_A	1.082	1.00
178_I	213_L	1.078	1.00
26_V	33_I	1.077	1.00
87_T	91_E	1.076	1.00
187_W	201_V	1.072	1.00
206_A	210_K	1.072	1.00
207_T	211_F	1.071	1.00
313_T	317_R	1.066	1.00
91_E	108_Q	1.064	1.00
66_V	98_F	1.063	1.00
233_A	236_A	1.059	1.00
66_V	96_M	1.059	1.00
9_I	23_V	1.058	1.00
311_G	315_A	1.055	1.00
173_L	248_V	1.047	1.00
230_A	234_I	1.046	1.00
249_C	255_A	1.045	1.00
179_R	211_F	1.044	1.00
252_E	286_A	1.042	1.00
29_G	38_G	1.042	1.00
241_N	244_I	1.037	1.00
202_G	205_C	1.029	1.00
226_S	229_Q	1.025	1.00
184_R	242_P	1.024	1.00
55_Q	58_A	1.023	1.00
53_N	59_L	1.021	1.00
312_I	316_D	1.020	1.00
93_Q	323_T	1.015	1.00
110_A	114_S	1.014	1.00
232_E	236_A	0.999	1.00
208_L	213_L	0.996	1.00
318_M	322_I	0.989	1.00
249_C	254_I	0.982	1.00
138_R	142_E	0.972	1.00
221_L	233_A	0.968	1.00
45_I	48_L	0.964	1.00
95_R	319_M	0.961	1.00
168_Q	335_P	0.961	1.00
259_W	296_D	0.956	1.00
215_F	218_D	0.955	1.00
16_A	23_V	0.952	1.00
227_Q	260_F	0.949	1.00
204_Y	248_V	0.947	1.00
185_I	246_A	0.945	1.00
205_C	215_F	0.944	1.00
198_A	202_G	0.943	1.00
180_N	283_S	0.938	1.00
259_W	278_F	0.935	1.00
313_T	334_I	0.933	1.00
114_S	118_N	0.932	1.00
229_Q	232_E	0.931	1.00
173_L	303_A	0.930	1.00
92_A	312_I	0.924	1.00
234_I	238_L	0.924	1.00
317_R	332_L	0.923	1.00
56_A	59_L	0.923	1.00
174_T	208_L	0.922	1.00
164_P	306_P	0.913	1.00
192_S	222_E	0.910	1.00
53_N	56_A	0.905	1.00
125_V	318_M	0.898	1.00
183_Q	213_L	0.898	1.00
178_I	183_Q	0.887	1.00
88_E	312_I	0.886	1.00
69_L	83_T	0.882	1.00
29_G	42_N	0.880	1.00
52_R	57_S	0.879	1.00
67_I	125_V	0.878	1.00
84_A	88_E	0.875	1.00
238_L	261_G	0.870	1.00
86_L	311_G	0.868	1.00
108_Q	111_Q	0.867	1.00
161_T	331_N	0.859	1.00
232_E	235_T	0.858	1.00
268_Q	279_E	0.858	1.00
195_L	199_E	0.857	1.00
164_P	336_A	0.853	1.00
165_D	335_P	0.852	1.00
247_V	282_V	0.852	1.00
162_V	317_R	0.850	1.00
208_L	215_F	0.844	1.00
267_R	282_V	0.841	1.00
82_L	150_A	0.840	1.00
286_A	302_W	0.839	1.00
64_S	122_D	0.839	1.00
26_V	42_N	0.839	1.00
252_E	289_D	0.835	1.00
186_A	247_V	0.835	1.00
190_G	225_S	0.834	1.00
165_D	333_I	0.833	1.00
306_P	334_I	0.826	1.00
163_R	333_I	0.824	1.00
160_D	317_R	0.823	1.00
317_R	320_Q	0.819	1.00
123_G	322_I	0.816	1.00
219_W	240_H	0.812	1.00
168_Q	336_A	0.810	1.00
164_P	305_T	0.809	1.00
66_V	119_Q	0.806	1.00
201_V	220_V	0.804	1.00
184_R	219_W	0.804	1.00
105_D	108_Q	0.802	1.00
206_A	209_L	0.801	1.00
223_C	254_I	0.800	1.00
81_E	308_R	0.800	1.00
289_D	293_T	0.800	1.00
262_L	284_L	0.800	1.00
243_T	267_R	0.799	1.00
315_A	319_M	0.799	1.00
36_A	39_E	0.797	1.00
78_F	307_A	0.790	1.00
18_V	41_V	0.787	1.00
288_T	305_T	0.785	1.00
163_R	331_N	0.784	1.00
166_N	200_R	0.783	1.00
245_S	283_S	0.781	1.00
177_L	285_A	0.779	1.00
8_T	11_D	0.774	1.00
63_Q	122_D	0.770	1.00
252_E	255_A	0.770	1.00
86_L	97_V	0.770	1.00
187_W	248_V	0.770	1.00
234_I	261_G	0.770	1.00
229_Q	233_A	0.769	1.00
193_S	198_A	0.769	1.00
54_R	57_S	0.765	1.00
188_L	249_C	0.763	1.00
36_A	40_R	0.762	1.00
22_T	25_L	0.761	1.00
85_G	89_A	0.761	1.00
306_P	337_R	0.760	1.00
67_I	315_A	0.754	1.00
199_E	203_G	0.753	1.00
189_G	201_V	0.753	1.00
85_G	312_I	0.748	1.00
83_T	87_T	0.747	1.00
21_S	25_L	0.745	1.00
238_L	265_A	0.742	1.00
117_L	143_K	0.737	1.00
234_I	237_L	0.737	1.00
221_L	237_L	0.737	1.00
72_R	79_Y	0.737	1.00
68_G	124_V	0.736	1.00
25_L	32_R	0.731	1.00
88_E	92_A	0.729	1.00
221_L	240_H	0.726	1.00
172_L	303_A	0.726	1.00
256_M	296_D	0.723	1.00
260_F	299_P	0.721	1.00
25_L	31_G	0.720	1.00
51_V	118_N	0.718	1.00
134_D	138_R	0.714	1.00
248_V	285_A	0.710	1.00
160_D	330_R	0.709	1.00
83_T	99_L	0.707	1.00
111_Q	114_S	0.706	1.00
320_Q	324_H	0.706	1.00
213_L	216_H	0.704	1.00
260_F	263_L	0.704	1.00
295_L	298_I	0.701	1.00
294_T	298_I	0.700	1.00
296_D	299_P	0.698	1.00
63_Q	323_T	0.695	1.00
230_A	233_A	0.693	1.00
135_D	138_R	0.692	1.00
236_A	239_R	0.691	1.00
153_A	331_N	0.691	1.00
84_A	87_T	0.690	1.00
87_T	97_V	0.690	1.00
240_H	243_T	0.689	1.00
176_H	338_L	0.688	1.00
289_D	339_I	0.686	1.00
149_F	154_S	0.685	1.00
123_G	148_I	0.684	1.00
87_T	101_H	0.681	1.00
184_R	214_P	0.679	1.00
149_F	159_V	0.676	1.00
39_E	46_E	0.674	1.00
262_L	278_F	0.669	1.00
26_V	38_G	0.669	1.00
108_Q	112_R	0.669	1.00
103_G	108_Q	0.668	1.00
98_F	121_V	0.666	1.00
324_H	327_T	0.662	1.00
107_E	111_Q	0.662	1.00
204_Y	215_F	0.660	1.00
185_I	245_S	0.659	1.00
171_Q	203_G	0.655	1.00
178_I	208_L	0.655	1.00
234_I	257_G	0.651	1.00
240_H	244_I	0.651	1.00
260_F	297_D	0.649	1.00
172_L	176_H	0.648	1.00
147_V	159_V	0.648	1.00
251_N	288_T	0.644	1.00
260_F	264_K	0.641	1.00
223_C	229_Q	0.641	1.00
255_A	286_A	0.641	1.00
148_I	318_M	0.632	1.00
187_W	204_Y	0.628	1.00
117_L	145_I	0.628	1.00
32_R	37_T	0.628	1.00
177_L	248_V	0.626	1.00
141_E	158_D	0.625	1.00
7_I	44_A	0.625	1.00
278_F	281_Q	0.623	1.00
18_V	37_T	0.623	1.00
259_W	263_L	0.622	1.00
293_T	302_W	0.622	1.00
12_V	23_V	0.621	1.00
81_E	307_A	0.619	1.00
225_S	250_Y	0.619	1.00
148_I	321_K	0.619	1.00
10_H	60_R	0.618	1.00
110_A	135_D	0.618	1.00
7_I	49_G	0.618	1.00
76_A	253_T	0.617	1.00
23_V	26_V	0.615	1.00
46_E	49_G	0.615	1.00
84_A	308_R	0.615	1.00
294_T	299_P	0.614	1.00
190_G	197_R	0.613	1.00
125_V	150_A	0.613	1.00
227_Q	292_P	0.612	1.00
262_L	265_A	0.611	1.00
40_R	43_A	0.611	1.00
185_I	204_Y	0.611	1.00
113_F	124_V	0.611	1.00
51_V	114_S	0.610	1.00
176_H	285_A	0.610	1.00
197_R	225_S	0.608	1.00
256_M	292_P	0.608	1.00
82_L	307_A	0.606	1.00
23_V	45_I	0.605	1.00
148_I	162_V	0.601	1.00
304_S	339_I	0.601	1.00
171_Q	174_T	0.600	1.00
141_E	147_V	0.600	1.00
151_S	166_N	0.599	1.00
85_G	307_A	0.599	1.00
320_Q	330_R	0.597	1.00
102_G	109_L	0.596	1.00
287_F	305_T	0.595	1.00
151_S	196_T	0.595	1.00
70_I	112_R	0.594	1.00
256_M	290_A	0.593	1.00
186_A	219_W	0.593	1.00
51_V	55_Q	0.593	1.00
166_N	199_E	0.590	1.00
95_R	322_I	0.588	1.00
308_R	311_G	0.586	1.00
228_K	231_A	0.586	1.00
267_R	278_F	0.586	1.00
123_G	314_L	0.585	1.00
139_M	142_E	0.585	1.00
248_V	287_F	0.584	1.00
84_A	103_G	0.578	1.00
263_L	268_Q	0.576	1.00
189_G	222_E	0.576	1.00
148_I	314_L	0.572	1.00
140_A	147_V	0.572	1.00
267_R	279_E	0.571	1.00
95_R	122_D	0.571	1.00
78_F	82_L	0.570	1.00
67_I	123_G	0.569	1.00
201_V	222_E	0.566	1.00
67_I	322_I	0.566	1.00
25_L	33_I	0.565	1.00
295_L	299_P	0.564	1.00
213_L	218_D	0.562	1.00
251_N	254_I	0.562	1.00
184_R	244_I	0.559	1.00
98_F	119_Q	0.559	1.00
33_I	38_G	0.553	1.00
227_Q	257_G	0.551	1.00
90_L	319_M	0.551	1.00
67_I	95_R	0.549	1.00
317_R	321_K	0.548	1.00
173_L	246_A	0.547	1.00
258_A	262_L	0.545	1.00
148_I	317_R	0.544	1.00
106_G	110_A	0.543	1.00
162_V	313_T	0.542	1.00
29_G	32_R	0.541	1.00
231_A	257_G	0.541	1.00
231_A	234_I	0.539	1.00
197_R	250_Y	0.536	1.00
124_V	145_I	0.535	1.00
218_D	240_H	0.535	1.00
57_S	61_G	0.535	1.00
249_C	286_A	0.534	1.00
153_A	161_T	0.534	1.00
313_T	320_Q	0.534	1.00
205_C	220_V	0.532	1.00
215_F	220_V	0.529	1.00
238_L	262_L	0.528	1.00
16_A	26_V	0.528	1.00
23_V	41_V	0.528	1.00
244_I	267_R	0.527	1.00
333_I	336_A	0.527	1.00
18_V	23_V	0.526	1.00
174_T	211_F	0.523	1.00
66_V	122_D	0.522	1.00
100_L	115_L	0.520	1.00
164_P	169_A	0.519	1.00
180_N	245_S	0.518	1.00
58_A	61_G	0.516	1.00
233_A	237_L	0.515	1.00
121_V	124_V	0.515	1.00
79_Y	127_A	0.514	1.00
77_P	253_T	0.512	1.00
229_Q	254_I	0.511	1.00
64_S	95_R	0.511	1.00
16_A	41_V	0.511	1.00
116_L	121_V	0.510	1.00
135_D	139_M	0.510	1.00
293_T	300_V	0.509	1.00
164_P	287_F	0.509	1.00
306_P	310_L	0.507	1.00
31_G	38_G	0.506	1.00
30_K	33_I	0.504	1.00
76_A	79_Y	0.504	1.00
260_F	294_T	0.504	1.00
301_T	338_L	0.504	1.00
321_K	324_H	0.504	1.00
21_S	30_K	0.501	1.00
290_A	302_W	0.501	1.00
115_L	118_N	0.501	1.00
64_S	96_M	0.500	1.00
11_D	15_A	0.500	1.00

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
3dbiA	2	0.7924	100	0.096	Contact Map
2o20A	2	0.7953	100	0.099	Contact Map
2hsgA	1	0.9474	100	0.1	Contact Map
1qpzA	2	0.9532	100	0.107	Contact Map
3bilA	2	0.7339	100	0.107	Contact Map
3kjxA	2	0.962	100	0.109	Contact Map
3jvdA	2	0.7515	100	0.111	Contact Map
3e3mA	2	0.769	100	0.113	Contact Map
4o5aA	2	0.769	100	0.116	Contact Map
3h5oA	2	0.7778	100	0.121	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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