BIOF2 - BACSU - GREMLIN Contacts

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BIOF2 - 8-amino-7-oxononanoate synthase 2

UniProt:	P53556	Sequences: MKIDSWLNERLDRMKEAGVHRNLRSMDGAPVPERNIDGENQTVWSSNNYLGLASDRRLIDAAQTALQQFGTGSSGSRLTTGNSVWHEKLEKKIASFKLTEAALLFSSGYLANVGVLSSLPEKEDVILSDQLNHASMIDGCRLSKADTVVYRHIDMNDLENKLNETQRYQRRFIVTDGVFSMDGTIAPLDQIISLAKRYHAFVVVDDAHATGVLGDSGQGTSEYFGVCPDIVIGTLSKAVGAEGGFAAGSAVFIDFLLNHARTFIFQTAIPPASCAAAHEAFNIIEASREKRQLLFSYISMIRTSLKNMGYVVKGDHTPIIPVVIGDAHKTVLFAEKLQGKGIYAPAIRPPTVAPGESRIRITITSDHSMGDIDHLLQTFHSIGKELHII	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	389 (359)
Sequences:	6396 (3930)
Seq/√Len:	207.4

ECOLI - KBL BIOF
BACSU - BIOF2 BIOF1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
63_Q	67_Q	4.211	1.00
92_K	282_N	4.124	1.00
300_M	373_D	4.046	1.00
159_E	197_R	4.010	1.00
151_R	157_D	3.816	1.00
340_K	381_S	3.640	1.00
187_P	190_Q	3.221	1.00
157_D	161_K	3.149	1.00
175_T	179_F	3.085	1.00
173_I	195_A	2.887	1.00
279_E	282_N	2.851	1.00
92_K	278_H	2.829	1.00
300_M	369_M	2.781	1.00
159_E	198_Y	2.710	1.00
304_S	376_L	2.628	1.00
293_L	297_Y	2.543	1.00
92_K	285_E	2.420	1.00
248_G	253_I	2.324	1.00
105_F	260_A	2.320	1.00
159_E	163_N	2.310	1.00
60_D	64_T	2.293	1.00
248_G	252_F	2.272	1.00
189_D	224_F	2.249	1.00
233_G	245_F	2.234	1.00
157_D	160_N	2.222	1.00
155_M	194_L	2.178	1.00
206_D	209_A	2.163	1.00
216_S	222_E	2.160	1.00
95_S	285_E	2.085	1.00
304_S	373_D	2.062	1.00
100_E	250_A	2.040	1.00
175_T	204_V	2.018	1.00
57_R	279_E	2.014	1.00
308_M	380_H	1.986	1.00
287_S	290_K	1.929	1.00
127_L	161_K	1.906	1.00
59_I	66_L	1.881	1.00
324_I	333_F	1.878	1.00
190_Q	193_S	1.860	1.00
368_S	371_D	1.852	1.00
128_S	132_N	1.828	1.00
296_S	369_M	1.823	1.00
120_P	126_I	1.819	1.00
304_S	307_N	1.806	1.00
55_D	283_I	1.746	1.00
342_I	374_H	1.738	1.00
215_D	222_E	1.725	1.00
33_E	40_N	1.719	1.00
116_L	174_V	1.717	1.00
102_A	247_A	1.699	1.00
44_W	367_H	1.695	1.00
60_D	67_Q	1.693	1.00
336_K	339_G	1.691	1.00
41_Q	338_Q	1.686	1.00
57_R	286_A	1.650	1.00
300_M	304_S	1.647	1.00
130_Q	151_R	1.643	1.00
44_W	375_L	1.619	1.00
64_T	68_Q	1.613	1.00
308_M	376_L	1.612	1.00
328_H	332_L	1.610	1.00
138_D	261_R	1.609	1.00
96_F	218_Q	1.605	1.00
301_I	363_I	1.588	1.00
85_W	278_H	1.587	1.00
136_M	174_V	1.586	1.00
140_C	147_T	1.578	1.00
195_A	202_V	1.570	1.00
235_L	277_A	1.558	1.00
126_I	140_C	1.556	1.00
241_A	277_A	1.528	1.00
163_N	198_Y	1.527	1.00
114_G	262_T	1.519	1.00
94_A	102_A	1.518	1.00
127_L	171_R	1.507	1.00
206_D	220_T	1.494	1.00
65_A	275_A	1.472	1.00
242_E	270_P	1.466	1.00
333_F	382_I	1.449	1.00
288_R	292_Q	1.438	1.00
173_I	200_A	1.415	1.00
344_A	359_I	1.407	1.00
336_K	340_K	1.406	1.00
303_T	307_N	1.403	1.00
88_K	278_H	1.397	1.00
59_I	63_Q	1.396	1.00
150_Y	175_T	1.395	1.00
77_R	82_N	1.385	1.00
93_I	281_F	1.383	1.00
210_T	239_V	1.379	1.00
374_H	378_T	1.364	1.00
115_V	246_A	1.362	1.00
172_F	203_V	1.358	1.00
310_Y	383_G	1.348	1.00
300_M	372_I	1.341	1.00
33_E	371_D	1.326	1.00
148_V	161_K	1.317	1.00
250_A	254_D	1.313	1.00
297_Y	369_M	1.310	1.00
192_I	196_K	1.309	1.00
125_V	148_V	1.308	1.00
63_Q	66_L	1.307	1.00
134_A	261_R	1.297	1.00
283_I	287_S	1.288	1.00
335_E	339_G	1.281	1.00
101_A	250_A	1.270	1.00
326_D	329_K	1.267	1.00
301_I	305_L	1.266	1.00
155_M	187_P	1.263	1.00
73_S	268_A	1.259	1.00
194_L	198_Y	1.257	1.00
64_T	67_Q	1.255	1.00
292_Q	296_S	1.243	1.00
158_L	173_I	1.240	1.00
57_R	283_I	1.236	1.00
173_I	194_L	1.233	1.00
35_N	40_N	1.232	1.00
84_V	88_K	1.228	1.00
97_K	247_A	1.226	1.00
87_E	91_K	1.204	1.00
177_G	220_T	1.198	1.00
120_P	172_F	1.195	1.00
115_V	203_V	1.190	1.00
177_G	209_A	1.182	1.00
155_M	190_Q	1.179	1.00
82_N	87_E	1.176	1.00
97_K	210_T	1.168	1.00
162_L	194_L	1.166	1.00
327_A	357_S	1.156	1.00
114_G	260_A	1.155	1.00
336_K	382_I	1.153	1.00
93_I	235_L	1.153	1.00
152_H	184_T	1.153	1.00
159_E	194_L	1.153	1.00
349_P	354_P	1.152	1.00
297_Y	300_M	1.150	1.00
299_S	303_T	1.148	1.00
125_V	165_T	1.147	1.00
301_I	361_I	1.140	1.00
151_R	154_D	1.140	1.00
278_H	282_N	1.135	1.00
182_D	358_R	1.127	1.00
132_N	136_M	1.124	1.00
297_Y	372_I	1.123	1.00
153_I	187_P	1.123	1.00
123_E	169_Q	1.122	1.00
196_K	229_D	1.121	1.00
361_I	375_L	1.108	1.00
165_T	171_R	1.105	1.00
191_I	202_V	1.101	1.00
192_I	202_V	1.099	1.00
162_L	200_A	1.098	1.00
221_S	226_V	1.091	1.00
56_R	60_D	1.078	1.00
91_K	95_S	1.065	1.00
150_Y	179_F	1.056	1.00
101_A	253_I	1.048	1.00
61_A	65_A	1.043	1.00
93_I	245_F	1.042	1.00
342_I	375_L	1.041	1.00
218_Q	222_E	1.036	1.00
125_V	169_Q	1.035	1.00
333_F	383_G	1.034	1.00
112_N	135_S	1.033	1.00
340_K	378_T	1.029	1.00
85_W	275_A	1.028	1.00
120_P	124_D	1.025	1.00
99_T	247_A	1.025	1.00
94_A	247_A	1.021	1.00
27_D	84_V	1.018	1.00
295_F	298_I	1.017	1.00
297_Y	365_S	1.014	1.00
160_N	164_E	1.010	1.00
107_S	110_L	1.005	1.00
101_A	257_L	0.998	1.00
156_N	160_N	0.998	1.00
99_T	248_G	0.997	1.00
275_A	279_E	0.996	1.00
175_T	191_I	0.995	1.00
154_D	157_D	0.991	1.00
369_M	373_D	0.987	1.00
161_K	164_E	0.986	1.00
331_V	346_A	0.972	1.00
110_L	266_Q	0.970	1.00
342_I	378_T	0.967	1.00
337_L	378_T	0.966	1.00
185_I	224_F	0.963	1.00
193_S	197_R	0.961	1.00
249_S	252_F	0.958	1.00
128_S	140_C	0.958	1.00
216_S	285_E	0.956	0.99
304_S	308_M	0.954	0.99
330_T	357_S	0.953	0.99
62_A	276_A	0.950	0.99
349_P	357_S	0.948	0.99
58_L	276_A	0.947	0.99
125_V	168_Y	0.947	0.99
69_F	84_V	0.945	0.99
331_V	348_R	0.942	0.99
181_M	347_I	0.938	0.99
87_E	101_A	0.937	0.99
89_L	274_C	0.936	0.99
172_F	201_F	0.935	0.99
279_E	283_I	0.934	0.99
272_A	276_A	0.932	0.99
57_R	60_D	0.931	0.99
175_T	188_L	0.931	0.99
322_V	361_I	0.930	0.99
85_W	274_C	0.929	0.99
86_H	274_C	0.926	0.99
77_R	90_E	0.926	0.99
75_G	79_T	0.926	0.99
270_P	273_S	0.924	0.99
42_T	371_D	0.923	0.99
96_F	281_F	0.923	0.99
239_V	284_I	0.922	0.99
289_E	293_L	0.921	0.99
60_D	63_Q	0.921	0.99
26_M	34_R	0.920	0.99
51_G	366_D	0.915	0.99
55_D	58_L	0.914	0.99
128_S	149_V	0.914	0.99
364_T	367_H	0.911	0.99
185_I	213_L	0.908	0.99
89_L	277_A	0.905	0.99
158_L	191_I	0.899	0.99
293_L	296_S	0.899	0.99
116_L	120_P	0.897	0.99
332_L	335_E	0.897	0.99
210_T	245_F	0.895	0.99
131_L	182_D	0.894	0.99
302_R	315_D	0.894	0.99
203_V	232_I	0.893	0.99
45_S	345_P	0.892	0.99
363_I	372_I	0.891	0.99
134_A	138_D	0.890	0.99
195_A	200_A	0.890	0.99
325_G	357_S	0.883	0.99
82_N	86_H	0.877	0.99
131_L	358_R	0.877	0.99
255_F	259_H	0.877	0.99
61_A	275_A	0.877	0.99
324_I	329_K	0.870	0.99
298_I	320_I	0.869	0.99
293_L	369_M	0.868	0.99
44_W	372_I	0.863	0.99
216_S	288_R	0.863	0.99
186_A	191_I	0.859	0.99
330_T	346_A	0.858	0.99
66_L	272_A	0.857	0.99
32_P	371_D	0.853	0.99
371_D	374_H	0.852	0.99
99_T	231_V	0.852	0.99
214_G	219_G	0.850	0.99
177_G	206_D	0.849	0.99
130_Q	149_V	0.848	0.99
127_L	191_I	0.848	0.99
106_S	242_E	0.844	0.99
127_L	158_L	0.844	0.99
88_K	92_K	0.839	0.99
213_L	317_T	0.839	0.99
116_L	172_F	0.837	0.99
113_V	262_T	0.832	0.99
189_D	223_Y	0.831	0.99
220_T	224_F	0.828	0.99
124_D	169_Q	0.828	0.99
116_L	203_V	0.821	0.98
236_S	244_G	0.821	0.98
230_I	252_F	0.820	0.98
121_E	124_D	0.818	0.98
295_F	299_S	0.818	0.98
178_V	185_I	0.816	0.98
62_A	66_L	0.813	0.98
124_D	172_F	0.811	0.98
242_E	269_I	0.811	0.98
65_A	85_W	0.809	0.98
304_S	377_Q	0.808	0.98
222_E	288_R	0.805	0.98
293_L	368_S	0.805	0.98
150_Y	158_L	0.804	0.98
332_L	336_K	0.803	0.98
123_E	146_D	0.800	0.98
55_D	290_K	0.799	0.98
185_I	223_Y	0.796	0.98
42_T	342_I	0.794	0.98
377_Q	381_S	0.794	0.98
153_I	176_D	0.792	0.98
156_N	190_Q	0.791	0.98
185_I	317_T	0.791	0.98
188_L	204_V	0.790	0.98
155_M	191_I	0.788	0.98
301_I	320_I	0.785	0.98
128_S	147_T	0.784	0.98
132_N	176_D	0.780	0.98
127_L	148_V	0.780	0.98
109_Y	113_V	0.776	0.98
233_G	247_A	0.776	0.98
45_S	80_T	0.775	0.98
61_A	279_E	0.774	0.98
375_L	379_F	0.773	0.98
89_L	278_H	0.771	0.98
122_K	144_K	0.771	0.98
374_H	377_Q	0.770	0.98
62_A	71_T	0.770	0.98
361_I	379_F	0.769	0.98
137_I	141_R	0.768	0.98
340_K	382_I	0.760	0.97
159_E	190_Q	0.756	0.97
66_L	71_T	0.754	0.97
128_S	137_I	0.753	0.97
322_V	379_F	0.752	0.97
85_W	88_K	0.751	0.97
160_N	163_N	0.750	0.97
369_M	372_I	0.749	0.97
338_Q	343_Y	0.749	0.97
246_A	256_L	0.747	0.97
86_H	104_L	0.746	0.97
111_A	232_I	0.745	0.97
103_L	253_I	0.745	0.97
282_N	286_A	0.744	0.97
54_S	59_I	0.743	0.97
77_R	263_F	0.742	0.97
291_R	295_F	0.737	0.97
153_I	184_T	0.737	0.97
377_Q	380_H	0.731	0.97
111_A	115_V	0.731	0.97
193_S	196_K	0.731	0.97
83_S	86_H	0.731	0.97
65_A	69_F	0.730	0.97
103_L	257_L	0.730	0.97
113_V	117_S	0.728	0.97
127_L	165_T	0.726	0.97
27_D	35_N	0.725	0.97
294_L	298_I	0.724	0.97
269_I	274_C	0.724	0.97
313_K	323_V	0.722	0.97
155_M	158_L	0.720	0.96
156_N	159_E	0.719	0.96
296_S	300_M	0.718	0.96
209_A	220_T	0.716	0.96
302_R	320_I	0.715	0.96
52_L	290_K	0.714	0.96
214_G	217_G	0.713	0.96
210_T	233_G	0.712	0.96
49_Y	208_H	0.705	0.96
53_A	240_G	0.704	0.96
290_K	293_L	0.703	0.96
171_R	200_A	0.702	0.96
289_E	292_Q	0.698	0.96
56_R	59_I	0.696	0.96
308_M	377_Q	0.694	0.96
115_V	232_I	0.684	0.95
69_F	85_W	0.683	0.95
329_K	332_L	0.680	0.95
221_S	231_V	0.680	0.95
88_K	282_N	0.679	0.95
42_T	374_H	0.677	0.95
150_Y	153_I	0.676	0.95
57_R	287_S	0.675	0.95
280_A	284_I	0.672	0.95
166_Q	171_R	0.672	0.95
125_V	171_R	0.669	0.95
105_F	114_G	0.668	0.95
105_F	246_A	0.667	0.95
53_A	74_S	0.666	0.95
376_L	380_H	0.666	0.95
333_F	359_I	0.665	0.95
79_T	345_P	0.665	0.95
215_D	288_R	0.664	0.95
310_Y	379_F	0.664	0.95
234_T	244_G	0.661	0.94
178_V	317_T	0.661	0.94
153_I	179_F	0.661	0.94
162_L	198_Y	0.661	0.94
211_G	238_A	0.660	0.94
62_A	275_A	0.659	0.94
120_P	203_V	0.659	0.94
178_V	209_A	0.658	0.94
297_Y	363_I	0.658	0.94
165_T	168_Y	0.656	0.94
102_A	245_F	0.651	0.94
333_F	337_L	0.651	0.94
302_R	314_G	0.650	0.94
129_D	152_H	0.649	0.94
39_E	341_G	0.647	0.94
100_E	249_S	0.646	0.94
306_K	312_V	0.646	0.94
284_I	291_R	0.643	0.94
305_L	361_I	0.643	0.94
203_V	230_I	0.643	0.94
311_V	325_G	0.639	0.93
92_K	281_F	0.638	0.93
242_E	273_S	0.638	0.93
195_A	229_D	0.638	0.93
347_I	351_T	0.637	0.93
79_T	347_I	0.632	0.93
58_L	280_A	0.630	0.93
305_L	379_F	0.628	0.93
97_K	281_F	0.626	0.93
96_F	284_I	0.626	0.93
303_T	306_K	0.626	0.93
130_Q	147_T	0.626	0.93
218_Q	285_E	0.625	0.93
276_A	280_A	0.624	0.93
31_V	34_R	0.622	0.92
103_L	263_F	0.621	0.92
326_D	330_T	0.619	0.92
106_S	110_L	0.618	0.92
98_L	227_C	0.617	0.92
99_T	249_S	0.616	0.92
148_V	164_E	0.614	0.92
215_D	223_Y	0.613	0.92
137_I	149_V	0.612	0.92
304_S	380_H	0.609	0.92
373_D	376_L	0.608	0.92
215_D	292_Q	0.608	0.92
91_K	101_A	0.607	0.91
370_G	374_H	0.606	0.91
73_S	271_P	0.606	0.91
96_F	285_E	0.606	0.91
213_L	223_Y	0.605	0.91
113_V	139_G	0.605	0.91
253_I	257_L	0.604	0.91
223_Y	316_H	0.602	0.91
288_R	291_R	0.601	0.91
77_R	266_Q	0.600	0.91
88_K	91_K	0.599	0.91
107_S	242_E	0.598	0.91
302_R	316_H	0.595	0.91
204_V	221_S	0.594	0.91
128_S	136_M	0.594	0.91
51_G	364_T	0.594	0.91
61_A	64_T	0.594	0.91
97_K	102_A	0.593	0.91
267_T	351_T	0.592	0.90
334_A	346_A	0.592	0.90
189_D	193_S	0.590	0.90
150_Y	173_I	0.588	0.90
208_H	237_K	0.586	0.90
323_V	358_R	0.586	0.90
124_D	143_S	0.585	0.90
324_I	330_T	0.585	0.90
31_V	54_S	0.585	0.90
48_N	53_A	0.583	0.90
97_K	245_F	0.581	0.90
130_Q	356_E	0.580	0.90
217_G	291_R	0.579	0.89
293_L	365_S	0.579	0.89
116_L	136_M	0.579	0.89
302_R	306_K	0.579	0.89
162_L	171_R	0.577	0.89
290_K	297_Y	0.576	0.89
124_D	170_R	0.576	0.89
213_L	220_T	0.574	0.89
300_M	376_L	0.574	0.89
86_H	268_A	0.573	0.89
25_S	84_V	0.573	0.89
178_V	213_L	0.572	0.89
168_Y	171_R	0.572	0.89
33_E	374_H	0.572	0.89
192_I	195_A	0.572	0.89
236_S	267_T	0.571	0.89
70_G	272_A	0.571	0.89
138_D	141_R	0.570	0.89
132_N	179_F	0.569	0.89
170_R	201_F	0.569	0.89
221_S	227_C	0.568	0.89
126_I	143_S	0.568	0.89
29_A	54_S	0.565	0.88
92_K	95_S	0.564	0.88
34_R	43_V	0.564	0.88
301_I	375_L	0.563	0.88
376_L	379_F	0.561	0.88
334_A	338_Q	0.558	0.88
133_H	237_K	0.557	0.88
42_T	375_L	0.556	0.87
212_V	294_L	0.556	0.87
153_I	175_T	0.556	0.87
151_R	160_N	0.554	0.87
62_A	65_A	0.553	0.87
241_A	273_S	0.552	0.87
68_Q	88_K	0.552	0.87
132_N	140_C	0.551	0.87
106_S	269_I	0.551	0.87
155_M	159_E	0.550	0.87
177_G	213_L	0.546	0.87
120_P	145_A	0.545	0.86
62_A	272_A	0.545	0.86
305_L	376_L	0.544	0.86
65_A	68_Q	0.542	0.86
230_I	248_G	0.542	0.86
241_A	276_A	0.542	0.86
171_R	199_H	0.541	0.86
331_V	335_E	0.539	0.86
283_I	290_K	0.538	0.86
232_I	244_G	0.538	0.86
184_T	358_R	0.537	0.86
185_I	220_T	0.534	0.85
114_G	118_S	0.533	0.85
52_L	283_I	0.533	0.85
337_L	344_A	0.533	0.85
348_R	351_T	0.532	0.85
106_S	244_G	0.531	0.85
41_Q	343_Y	0.531	0.85
64_T	279_E	0.530	0.85
71_T	272_A	0.530	0.85
213_L	295_F	0.529	0.85
162_L	173_I	0.529	0.85
301_I	304_S	0.527	0.85
96_F	210_T	0.526	0.84
192_I	226_V	0.525	0.84
206_D	231_V	0.524	0.84
76_S	108_G	0.523	0.84
373_D	377_Q	0.521	0.84
133_H	180_S	0.519	0.84
298_I	318_P	0.518	0.84
329_K	333_F	0.517	0.83
150_Y	176_D	0.516	0.83
99_T	221_S	0.515	0.83
52_L	58_L	0.513	0.83
239_V	280_A	0.512	0.83
146_D	169_Q	0.512	0.83
296_S	299_S	0.512	0.83
201_F	252_F	0.511	0.83
207_A	234_T	0.511	0.83
370_G	373_D	0.510	0.83
97_K	231_V	0.509	0.83
133_H	208_H	0.508	0.82
265_F	351_T	0.506	0.82
206_D	221_S	0.505	0.82
333_F	336_K	0.505	0.82
175_T	202_V	0.505	0.82
136_M	203_V	0.504	0.82
33_E	42_T	0.504	0.82
35_N	38_G	0.504	0.82
290_K	365_S	0.504	0.82
283_I	286_A	0.504	0.82
39_E	339_G	0.500	0.81

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
2w8tA	2	1	100	0.455	Contact Map
3wy7A	2	0.946	100	0.468	Contact Map
2bwnA	2	0.9897	100	0.504	Contact Map
1bs0A	2	0.9769	100	0.508	Contact Map
3kkiA	2	0.9692	100	0.511	Contact Map
1fc4A	2	1	100	0.511	Contact Map
3tqxA	2	1	100	0.528	Contact Map
3a2bA	2	0.9923	100	0.54	Contact Map
4iw7A	2	0.8483	100	0.568	Contact Map
1vefA	2	0.91	100	0.648	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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