COBT - ECOLI - GREMLIN Contacts

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COBT - Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase

UniProt:	P36562	Sequences: MQILADLLNTIPAIDSTAMSRAQRHIDGLLKPVGSLGKLEVLAIQLAGMPGLNGIPHVGKKAVLVMCADHGVWEEGVAISPKEVTAIQAENMTRGTTGVCVLAEQAGANVHVIDVGIDTAEPIPGLINMRVARGSGNIASAPAMSRRQAEKLLLDVICYTQELAKNGVTLFGVGELGMANTTPAAAIVSTITGRDPEEVVGIGANLPTDKLANKIDVVRRAITLNQPNPQDGVDVLAKVGGFDLVGIAGVMLGAASCGLPVLLDGFLSYAAALAACQMSPAIKPYLIPSHLSAEKGARIALSHLGLEPYLNMEMRLGEGSGAALAMPIIEAACAIYNNMGELAASNIVLPGNTTSDLNS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12151
Length:	359 (338)
Sequences:	2304 (1644)
Seq/√Len:	89.4

ECOLI - COBT

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
115_V	246_G	3.521	1.00
202_I	208_T	3.406	1.00
75_E	137_N	3.395	1.00
132_A	148_Q	2.893	1.00
187_I	235_V	2.739	1.00
73_W	179_A	2.644	1.00
138_I	221_A	2.579	1.00
190_T	222_I	2.554	1.00
136_G	141_A	2.519	1.00
93_T	126_L	2.356	1.00
82_K	118_D	2.340	1.00
197_E	219_R	2.307	1.00
188_V	300_A	2.301	1.00
19_M	48_G	2.283	1.00
141_A	225_N	2.266	1.00
288_P	306_L	2.245	1.00
132_A	242_F	2.237	1.00
99_V	323_A	2.234	1.00
42_L	287_I	2.203	1.00
206_L	210_K	2.191	1.00
291_L	311_N	2.147	1.00
282_I	286_L	2.129	1.00
288_P	301_L	2.108	1.00
277_Q	303_H	2.058	1.00
74_E	140_S	2.036	1.00
129_M	158_C	2.000	1.00
262_L	329_I	1.986	1.00
152_L	245_V	1.970	1.00
31_K	40_E	1.965	1.00
46_L	333_C	1.941	1.00
22_A	47_A	1.936	1.00
189_S	222_I	1.918	1.00
145_S	148_Q	1.909	1.00
173_V	247_I	1.905	1.00
202_I	211_L	1.898	1.00
104_E	338_N	1.805	1.00
61_K	330_E	1.784	1.00
63_V	172_G	1.782	1.00
64_L	113_I	1.779	1.00
234_D	238_K	1.747	1.00
165_K	257_C	1.729	1.00
28_G	343_A	1.728	1.00
63_V	323_A	1.721	1.00
216_D	220_R	1.712	1.00
135_S	144_M	1.707	1.00
23_Q	27_D	1.704	1.00
139_A	220_R	1.681	1.00
92_M	176_L	1.680	1.00
196_P	219_R	1.675	1.00
234_D	237_A	1.663	1.00
120_A	130_R	1.661	1.00
115_V	155_D	1.648	1.00
189_S	196_P	1.646	1.00
210_K	213_N	1.631	1.00
15_D	51_G	1.620	1.00
195_D	219_R	1.601	1.00
161_Q	257_C	1.594	1.00
161_Q	253_G	1.589	1.00
30_L	91_N	1.575	1.00
66_M	250_V	1.556	1.00
38_K	41_V	1.552	1.00
72_V	138_I	1.552	1.00
247_I	271_A	1.547	1.00
253_G	257_C	1.539	1.00
89_A	117_I	1.531	1.00
207_P	210_K	1.526	1.00
172_G	322_A	1.515	1.00
164_A	259_L	1.514	1.00
118_D	133_R	1.514	1.00
213_N	217_V	1.506	1.00
202_I	295_K	1.504	1.00
224_L	238_K	1.492	1.00
225_N	238_K	1.487	1.00
132_A	136_G	1.486	1.00
309_Y	328_I	1.479	1.00
269_Y	300_A	1.466	0.99
75_E	139_A	1.457	0.99
109_N	168_V	1.451	0.99
208_T	211_L	1.444	0.99
25_H	344_A	1.432	0.99
34_G	315_R	1.430	0.99
219_R	223_T	1.428	0.99
72_V	182_T	1.413	0.99
87_I	347_I	1.406	0.99
60_K	169_T	1.404	0.99
272_A	286_L	1.403	0.99
185_A	199_V	1.400	0.99
154_L	158_C	1.398	0.99
38_K	307_E	1.390	0.99
42_L	329_I	1.386	0.99
98_G	339_M	1.384	0.99
19_M	23_Q	1.381	0.99
114_D	130_R	1.378	0.99
73_W	82_K	1.369	0.99
270_A	300_A	1.356	0.99
276_C	283_K	1.355	0.99
44_I	48_G	1.350	0.99
263_L	288_P	1.349	0.99
192_T	303_H	1.347	0.99
120_A	133_R	1.346	0.99
138_I	183_P	1.327	0.99
106_A	331_A	1.316	0.99
12_P	258_G	1.315	0.99
130_R	133_R	1.313	0.99
200_V	218_V	1.313	0.99
334_A	338_N	1.312	0.99
63_V	99_V	1.298	0.99
276_C	281_A	1.291	0.99
45_Q	287_I	1.290	0.99
188_V	270_A	1.290	0.99
194_R	198_E	1.288	0.99
136_G	148_Q	1.288	0.99
269_Y	297_A	1.288	0.99
91_N	96_T	1.287	0.99
154_L	157_I	1.287	0.99
245_V	274_A	1.276	0.99
291_L	298_R	1.272	0.99
150_E	154_L	1.272	0.99
141_A	224_L	1.271	0.99
216_D	219_R	1.267	0.98
66_M	246_G	1.266	0.98
64_L	163_L	1.265	0.98
211_L	215_I	1.261	0.98
23_Q	44_I	1.255	0.98
146_R	234_D	1.252	0.98
26_I	43_A	1.243	0.98
97_T	100_C	1.238	0.98
324_L	331_A	1.235	0.98
49_M	285_Y	1.234	0.98
191_I	274_A	1.228	0.98
251_M	263_L	1.227	0.98
172_G	323_A	1.224	0.98
108_A	326_M	1.214	0.98
64_L	250_V	1.212	0.98
197_E	215_I	1.210	0.98
60_K	109_N	1.210	0.98
188_V	199_V	1.199	0.98
49_M	260_P	1.198	0.98
123_I	126_L	1.194	0.98
86_A	119_T	1.184	0.98
314_M	324_L	1.179	0.98
172_G	326_M	1.179	0.98
162_E	166_N	1.175	0.98
66_M	247_I	1.168	0.97
42_L	309_Y	1.167	0.97
68_A	183_P	1.164	0.97
293_A	313_E	1.158	0.97
87_I	90_E	1.157	0.97
159_Y	253_G	1.156	0.97
138_I	186_A	1.155	0.97
153_L	248_A	1.150	0.97
63_V	108_A	1.149	0.97
160_T	250_V	1.147	0.97
276_C	286_L	1.146	0.97
102_L	335_I	1.137	0.97
63_V	103_A	1.134	0.97
262_L	287_I	1.132	0.97
281_A	284_P	1.131	0.97
173_V	251_M	1.130	0.97
146_R	237_A	1.128	0.97
185_A	266_F	1.128	0.97
171_F	254_A	1.123	0.97
18_A	51_G	1.121	0.97
215_I	219_R	1.120	0.97
187_I	274_A	1.115	0.97
170_L	329_I	1.114	0.97
149_A	237_A	1.110	0.97
196_P	218_V	1.107	0.96
105_Q	334_A	1.100	0.96
26_I	335_I	1.098	0.96
142_P	225_N	1.097	0.96
67_C	89_A	1.088	0.96
160_T	171_F	1.080	0.96
262_L	289_S	1.079	0.96
75_E	220_R	1.075	0.96
206_L	211_L	1.073	0.96
146_R	231_D	1.072	0.96
157_I	253_G	1.069	0.96
20_S	24_R	1.068	0.96
72_V	139_A	1.058	0.95
75_E	140_S	1.058	0.95
131_V	148_Q	1.057	0.95
244_L	267_L	1.049	0.95
298_R	302_S	1.048	0.95
182_T	218_V	1.048	0.95
18_A	54_G	1.041	0.95
266_F	296_G	1.026	0.95
253_G	256_S	1.019	0.94
307_E	313_E	1.018	0.94
74_E	137_N	1.018	0.94
111_H	162_E	1.018	0.94
27_D	33_V	1.007	0.94
232_G	274_A	1.004	0.94
19_M	44_I	1.001	0.94
33_V	80_S	1.000	0.94
194_R	299_I	0.999	0.94
231_D	234_D	0.986	0.93
161_Q	165_K	0.986	0.93
149_A	245_V	0.986	0.93
77_V	179_A	0.984	0.93
287_I	329_I	0.980	0.93
170_L	326_M	0.979	0.93
146_R	150_E	0.972	0.93
251_M	286_L	0.972	0.93
227_P	238_K	0.969	0.93
151_K	155_D	0.957	0.92
88_Q	97_T	0.954	0.92
18_A	48_G	0.952	0.92
61_K	326_M	0.951	0.92
192_T	273_L	0.941	0.92
55_I	337_N	0.936	0.91
164_A	257_C	0.935	0.91
113_I	159_Y	0.935	0.91
155_D	246_G	0.934	0.91
62_A	168_V	0.930	0.91
74_E	82_K	0.925	0.91
196_P	215_I	0.925	0.91
159_Y	162_E	0.919	0.91
150_E	233_V	0.918	0.91
139_A	217_V	0.914	0.90
70_H	183_P	0.909	0.90
87_I	348_V	0.906	0.90
80_S	204_A	0.902	0.90
62_A	111_H	0.902	0.90
273_L	277_Q	0.901	0.90
86_A	90_E	0.899	0.90
189_S	199_V	0.897	0.90
127_I	162_E	0.886	0.89
30_L	96_T	0.884	0.89
88_Q	204_A	0.883	0.89
144_M	242_F	0.879	0.89
38_K	313_E	0.879	0.89
142_P	238_K	0.872	0.88
15_D	18_A	0.869	0.88
57_H	169_T	0.867	0.88
254_A	261_V	0.866	0.88
170_L	262_L	0.866	0.88
87_I	345_S	0.865	0.88
148_Q	151_K	0.864	0.88
330_E	334_A	0.862	0.88
14_I	284_P	0.860	0.88
103_A	110_V	0.859	0.87
341_E	344_A	0.856	0.87
251_M	261_V	0.851	0.87
283_K	286_L	0.851	0.87
188_V	192_T	0.848	0.87
59_G	169_T	0.847	0.87
14_I	19_M	0.845	0.87
22_A	26_I	0.843	0.86
191_I	235_V	0.842	0.86
293_A	315_R	0.840	0.86
24_R	27_D	0.839	0.86
18_A	47_A	0.838	0.86
79_I	206_L	0.836	0.86
115_V	131_V	0.830	0.86
173_V	268_S	0.830	0.86
62_A	163_L	0.829	0.86
187_I	270_A	0.827	0.85
178_M	204_A	0.827	0.85
23_Q	41_V	0.826	0.85
157_I	256_S	0.826	0.85
100_C	320_S	0.826	0.85
309_Y	325_A	0.823	0.85
16_S	19_M	0.822	0.85
129_M	155_D	0.818	0.85
229_P	232_G	0.815	0.85
289_S	328_I	0.814	0.85
131_V	151_K	0.813	0.84
30_L	342_L	0.811	0.84
25_H	29_L	0.811	0.84
52_L	55_I	0.805	0.84
106_A	327_P	0.804	0.84
186_A	218_V	0.802	0.84
21_R	24_R	0.800	0.83
11_I	255_A	0.800	0.83
131_V	242_F	0.798	0.83
83_E	87_I	0.798	0.83
232_G	277_Q	0.797	0.83
138_I	218_V	0.797	0.83
138_I	225_N	0.797	0.83
220_R	223_T	0.791	0.83
35_S	40_E	0.790	0.83
172_G	262_L	0.788	0.83
29_L	341_E	0.786	0.82
26_I	44_I	0.785	0.82
228_N	238_K	0.782	0.82
111_H	163_L	0.781	0.82
131_V	152_L	0.779	0.82
186_A	239_V	0.779	0.82
198_E	299_I	0.775	0.82
138_I	239_V	0.774	0.81
70_H	243_D	0.772	0.81
45_Q	49_M	0.771	0.81
183_P	243_D	0.770	0.81
89_A	112_V	0.769	0.81
64_L	159_Y	0.762	0.80
58_V	170_L	0.760	0.80
242_F	245_V	0.758	0.80
101_V	105_Q	0.757	0.80
19_M	45_Q	0.748	0.79
289_S	325_A	0.745	0.79
122_P	128_N	0.745	0.79
287_I	309_Y	0.741	0.79
14_I	48_G	0.741	0.79
61_K	169_T	0.741	0.79
182_T	196_P	0.740	0.78
160_T	164_A	0.740	0.78
196_P	200_V	0.737	0.78
90_E	119_T	0.736	0.78
171_F	250_V	0.736	0.78
272_A	282_I	0.735	0.78
172_G	289_S	0.733	0.78
195_D	198_E	0.726	0.77
164_A	253_G	0.725	0.77
146_R	233_V	0.724	0.77
149_A	274_A	0.723	0.77
46_L	260_P	0.721	0.77
220_R	224_L	0.721	0.77
147_R	150_E	0.721	0.77
149_A	233_V	0.718	0.76
188_V	266_F	0.718	0.76
310_L	325_A	0.718	0.76
61_K	108_A	0.717	0.76
46_L	50_P	0.716	0.76
212_A	215_I	0.715	0.76
181_T	214_K	0.714	0.76
80_S	88_Q	0.714	0.76
248_A	274_A	0.713	0.76
111_H	159_Y	0.712	0.76
184_A	270_A	0.711	0.76
41_V	307_E	0.708	0.75
115_V	159_Y	0.706	0.75
255_A	285_Y	0.705	0.75
100_C	110_V	0.701	0.75
148_Q	242_F	0.700	0.74
201_G	294_E	0.700	0.74
217_V	220_R	0.700	0.74
26_I	336_Y	0.697	0.74
25_H	336_Y	0.697	0.74
344_A	348_V	0.693	0.74
83_E	86_A	0.690	0.73
111_H	127_I	0.682	0.73
185_A	200_V	0.680	0.72
279_S	282_I	0.679	0.72
245_V	248_A	0.677	0.72
251_M	272_A	0.674	0.72
75_E	217_V	0.674	0.72
30_L	345_S	0.674	0.72
31_K	339_M	0.672	0.71
194_R	199_V	0.670	0.71
41_V	45_Q	0.668	0.71
153_L	233_V	0.665	0.71
22_A	48_G	0.661	0.70
258_G	285_Y	0.660	0.70
68_A	242_F	0.660	0.70
183_P	244_L	0.660	0.70
233_V	237_A	0.660	0.70
233_V	278_M	0.660	0.70
105_Q	330_E	0.659	0.70
213_N	216_D	0.659	0.70
147_R	151_K	0.658	0.70
102_L	320_S	0.657	0.70
190_T	235_V	0.651	0.69
260_P	287_I	0.649	0.69
38_K	45_Q	0.648	0.69
161_Q	256_S	0.646	0.68
263_L	269_Y	0.644	0.68
24_R	343_A	0.637	0.67
74_E	118_D	0.637	0.67
137_N	140_S	0.637	0.67
72_V	218_V	0.637	0.67
244_L	271_A	0.636	0.67
90_E	123_I	0.635	0.67
65_V	323_A	0.633	0.67
105_Q	331_A	0.632	0.67
292_S	314_M	0.630	0.67
103_A	108_A	0.629	0.66
64_L	173_V	0.628	0.66
173_V	250_V	0.627	0.66
96_T	100_C	0.625	0.66
16_S	20_S	0.625	0.66
247_I	268_S	0.624	0.66
170_L	260_P	0.623	0.66
297_A	301_L	0.623	0.66
14_I	18_A	0.622	0.66
247_I	251_M	0.621	0.65
212_A	216_D	0.620	0.65
99_V	320_S	0.620	0.65
149_A	236_L	0.620	0.65
68_A	135_S	0.619	0.65
18_A	21_R	0.619	0.65
187_I	238_K	0.617	0.65
202_I	207_P	0.616	0.65
232_G	270_A	0.616	0.65
135_S	243_D	0.615	0.65
135_S	183_P	0.615	0.65
60_K	168_V	0.614	0.65
236_L	274_A	0.612	0.64
101_V	335_I	0.612	0.64
263_L	306_L	0.609	0.64
158_C	162_E	0.609	0.64
88_Q	176_L	0.604	0.63
87_I	96_T	0.602	0.63
299_I	302_S	0.602	0.63
163_L	168_V	0.601	0.63
227_P	234_D	0.600	0.63
58_V	333_C	0.599	0.63
191_I	277_Q	0.595	0.62
34_G	40_E	0.594	0.62
30_L	340_G	0.593	0.62
207_P	213_N	0.592	0.62
108_A	323_A	0.589	0.61
13_A	281_A	0.585	0.61
276_C	304_L	0.584	0.61
88_Q	100_C	0.584	0.61
209_D	216_D	0.583	0.61
24_R	28_G	0.583	0.61
251_M	268_S	0.583	0.61
231_D	235_V	0.581	0.60
88_Q	178_M	0.581	0.60
246_G	250_V	0.578	0.60
102_L	106_A	0.576	0.60
146_R	149_A	0.575	0.60
92_M	99_V	0.571	0.59
115_V	152_L	0.569	0.59
201_G	214_K	0.569	0.59
135_S	242_F	0.567	0.58
192_T	300_A	0.566	0.58
142_P	224_L	0.565	0.58
119_T	133_R	0.565	0.58
342_L	345_S	0.564	0.58
129_M	162_E	0.560	0.58
290_H	316_L	0.560	0.58
340_G	344_A	0.560	0.58
75_E	213_N	0.559	0.57
114_D	128_N	0.557	0.57
21_R	54_G	0.557	0.57
108_A	172_G	0.556	0.57
89_A	176_L	0.551	0.56
271_A	289_S	0.550	0.56
30_L	88_Q	0.548	0.56
88_Q	92_M	0.548	0.56
283_K	306_L	0.548	0.56
43_A	333_C	0.547	0.56
68_A	117_I	0.547	0.56
261_V	286_L	0.547	0.56
63_V	110_V	0.546	0.56
59_G	330_E	0.545	0.56
51_G	54_G	0.544	0.55
160_T	253_G	0.542	0.55
91_N	339_M	0.541	0.55
90_E	94_R	0.541	0.55
72_V	186_A	0.540	0.55
22_A	336_Y	0.539	0.55
92_M	112_V	0.538	0.55
283_K	288_P	0.536	0.54
41_V	44_I	0.536	0.54
274_A	278_M	0.534	0.54
115_V	242_F	0.532	0.54
205_N	210_K	0.531	0.54
38_K	311_N	0.530	0.53
186_A	221_A	0.529	0.53
72_V	221_A	0.529	0.53
178_M	316_L	0.528	0.53
22_A	44_I	0.527	0.53
125_G	128_N	0.527	0.53
255_A	275_A	0.526	0.53
93_T	123_I	0.525	0.53
159_Y	163_L	0.525	0.53
232_G	278_M	0.524	0.53
139_A	225_N	0.524	0.53
275_A	282_I	0.523	0.53
140_S	220_R	0.523	0.53
79_I	204_A	0.523	0.53
25_H	341_E	0.522	0.52
95_G	104_E	0.522	0.52
11_I	252_L	0.521	0.52
68_A	241_G	0.521	0.52
32_P	35_S	0.520	0.52
91_N	176_L	0.519	0.52
163_L	166_N	0.517	0.52
84_V	347_I	0.517	0.52
102_L	331_A	0.517	0.52
69_D	114_D	0.515	0.51
208_T	215_I	0.515	0.51
190_T	218_V	0.512	0.51
157_I	161_Q	0.510	0.51
69_D	117_I	0.510	0.51
87_I	204_A	0.509	0.51
78_A	206_L	0.508	0.50
101_V	339_M	0.507	0.50
136_G	145_S	0.507	0.50
52_L	169_T	0.507	0.50
80_S	179_A	0.506	0.50
180_N	318_E	0.506	0.50
67_C	296_G	0.505	0.50
187_I	191_I	0.504	0.50
13_A	284_P	0.504	0.50
66_M	115_V	0.504	0.50
68_A	142_P	0.503	0.50
101_V	104_E	0.503	0.50
190_T	229_P	0.503	0.50
190_T	239_V	0.503	0.50
45_Q	306_L	0.501	0.50
28_G	342_L	0.500	0.49
229_P	235_V	0.500	0.49
342_L	347_I	0.500	0.49

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
4kqiA	2	0.9443	100	0.071	Contact Map
4hdrA	1	0.9276	100	0.089	Contact Map
1wx1A	2	0.9164	100	0.098	Contact Map
4hdrB	1	0.9136	100	0.137	Contact Map
3l0zA	2	0.8691	100	0.463	Contact Map
3u4gA	2	0.7577	100	0.525	Contact Map
1g8fA	5	0.7159	35.9	0.973	Contact Map
4tx1A	5	0.5097	26.3	0.974	Contact Map
4fwgA	3	0.2869	22.5	0.975	Contact Map
4nicA	2	0.3259	10	0.979	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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