HMP - ECOLI - GREMLIN Contacts

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HMP - Flavohemoprotein

UniProt:	P24232	Sequences: MLDAQTIATVKATIPLLVETGPKLTAHFYDRMFTHNPELKEIFNMSNQRNGDQREALFNAIAAYASNIENLPALLPAVEKIAQKHTSFQIKPEQYNIVGEHLLATLDEMFSPGQEVLDAWGKAYGVLANVFINREAEIYNENASKAGGWEGTRDFRIVAKTPRSALITSFELEPVDGGAVAEYRPGQYLGVWLKPEGFPHQEIRQYSLTRKPDGKGYRIAVKREEGGQVSNWLHNHANVGDVVKLVAPAGDFFMAVADDTPVTLISAGVGQTPMLAMLDTLAKAGHTAQVNWFHAAENGDVHAFADEVKELGQSLPRFTAHTWYRQPSEADRAKGQFDSEGLMDLSKLEGAFSDPTMQFYLCGPVGFMQFTAKQLVDLGVKQENIHYECFGPHKVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10456
Length:	396 (352)
Sequences:	5099 (3567)
Seq/√Len:	190.1

ECOLI - HMP CYSJ
BACSU - HMP CYSJ CYPD CYPE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
344_D	377_D	3.457	1.00
209_T	220_A	3.431	1.00
157_I	237_A	3.351	1.00
160_K	168_T	3.246	1.00
120_W	123_A	3.230	1.00
265_I	359_F	3.164	1.00
238_N	241_D	3.156	1.00
279_D	307_E	3.140	1.00
305_A	309_K	3.121	1.00
103_L	113_G	3.030	1.00
302_H	324_Y	2.953	1.00
123_A	127_L	2.742	1.00
189_L	245_L	2.654	1.00
154_D	242_V	2.652	1.00
105_T	109_M	2.622	1.00
156_R	173_E	2.528	1.00
158_V	173_E	2.480	1.00
308_V	320_A	2.472	1.00
299_G	327_P	2.421	1.00
310_E	314_S	2.402	1.00
107_D	113_G	2.325	1.00
117_L	120_W	2.303	1.00
116_V	120_W	2.224	1.00
190_G	205_Q	2.208	1.00
159_A	171_E	2.204	1.00
263_T	357_M	2.172	1.00
105_T	108_E	2.142	1.00
22_P	26_A	2.121	1.00
328_S	331_D	2.099	1.00
169_S	218_R	2.077	1.00
247_A	250_G	2.066	1.00
343_M	378_L	2.037	1.00
154_D	244_K	2.033	1.00
280_T	284_A	1.988	1.00
171_E	218_R	1.984	1.00
97_I	101_H	1.973	1.00
266_S	274_M	1.942	1.00
299_G	305_A	1.884	1.00
190_G	246_V	1.883	1.00
210_R	279_D	1.873	1.00
127_L	135_E	1.869	1.00
116_V	123_A	1.843	1.00
350_G	355_P	1.819	1.00
343_M	348_L	1.813	1.00
129_N	133_N	1.790	1.00
171_E	216_G	1.789	1.00
331_D	337_F	1.786	1.00
116_V	127_L	1.778	1.00
254_M	262_V	1.756	1.00
192_W	244_K	1.755	1.00
264_L	274_M	1.754	1.00
47_N	55_E	1.728	1.00
70_N	73_A	1.713	1.00
155_F	245_L	1.710	1.00
328_S	337_F	1.710	1.00
345_L	382_Q	1.698	1.00
159_A	239_V	1.663	1.00
351_A	357_M	1.661	1.00
261_P	289_Q	1.644	1.00
341_G	344_D	1.638	1.00
263_T	359_F	1.612	1.00
271_Q	308_V	1.606	1.00
124_Y	128_A	1.603	1.00
116_V	119_A	1.601	1.00
173_E	216_G	1.597	1.00
289_Q	355_P	1.580	1.00
223_R	235_N	1.554	1.00
156_R	242_V	1.548	1.00
237_A	241_D	1.544	1.00
123_A	128_A	1.542	1.00
120_W	127_L	1.541	1.00
262_V	290_V	1.538	1.00
372_A	376_V	1.528	1.00
32_M	97_I	1.520	1.00
291_N	321_H	1.517	1.00
114_Q	117_L	1.506	1.00
157_I	172_L	1.490	1.00
27_H	31_R	1.488	1.00
278_L	308_V	1.481	1.00
114_Q	120_W	1.479	1.00
220_A	304_F	1.478	1.00
293_F	343_M	1.466	1.00
156_R	175_V	1.452	1.00
302_H	322_T	1.425	1.00
349_E	379_G	1.421	1.00
337_F	342_L	1.405	1.00
295_A	325_R	1.405	1.00
359_F	375_L	1.404	1.00
120_W	124_Y	1.396	1.00
117_L	123_A	1.381	1.00
225_E	235_N	1.381	1.00
260_T	358_Q	1.376	1.00
172_L	219_I	1.370	1.00
103_L	107_D	1.369	1.00
70_N	98_V	1.368	1.00
254_M	277_M	1.356	1.00
157_I	160_K	1.345	1.00
315_L	318_F	1.329	1.00
293_F	321_H	1.320	1.00
195_P	202_E	1.314	1.00
350_G	354_D	1.303	1.00
119_A	123_A	1.300	1.00
91_K	94_Q	1.295	1.00
223_R	231_N	1.291	1.00
173_E	215_K	1.286	1.00
302_H	309_K	1.286	1.00
271_Q	304_F	1.285	1.00
118_D	121_G	1.282	1.00
221_V	230_S	1.282	1.00
156_R	240_G	1.279	1.00
297_E	325_R	1.278	1.00
170_F	233_L	1.274	1.00
119_A	127_L	1.271	1.00
275_L	307_E	1.270	1.00
271_Q	292_W	1.267	1.00
167_I	269_V	1.264	1.00
264_L	290_V	1.255	1.00
125_G	129_N	1.252	1.00
167_I	303_A	1.252	1.00
162_P	166_L	1.247	1.00
29_Y	41_E	1.247	1.00
221_V	233_L	1.246	1.00
310_E	313_Q	1.246	1.00
104_A	108_E	1.245	1.00
115_E	118_D	1.245	1.00
158_V	216_G	1.234	1.00
27_H	30_D	1.220	1.00
282_A	314_S	1.215	1.00
155_F	172_L	1.209	1.00
364_P	368_M	1.205	1.00
124_Y	127_L	1.205	1.00
260_T	356_T	1.204	1.00
52_D	55_E	1.203	1.00
295_A	343_M	1.201	1.00
312_G	318_F	1.200	1.00
302_H	305_A	1.199	1.00
195_P	198_F	1.196	1.00
103_L	121_G	1.195	1.00
86_T	249_A	1.192	1.00
115_E	123_A	1.189	1.00
44_N	47_N	1.187	1.00
127_L	132_I	1.187	1.00
327_P	331_D	1.179	1.00
124_Y	132_I	1.175	1.00
155_F	174_P	1.174	1.00
96_N	99_G	1.171	1.00
289_Q	319_T	1.166	1.00
367_F	371_T	1.162	1.00
347_K	350_G	1.155	1.00
291_N	348_L	1.150	1.00
175_V	178_G	1.148	1.00
223_R	234_H	1.141	1.00
373_K	377_D	1.132	1.00
370_F	374_Q	1.120	1.00
115_E	120_W	1.120	1.00
125_G	128_A	1.096	1.00
86_T	89_Q	1.092	1.00
346_S	382_Q	1.079	1.00
127_L	139_Y	1.072	1.00
78_V	101_H	1.071	1.00
267_A	367_F	1.071	1.00
164_S	167_I	1.070	1.00
326_Q	338_D	1.069	1.00
154_D	175_V	1.063	1.00
62_A	102_L	1.058	1.00
169_S	304_F	1.041	1.00
267_A	364_P	1.039	1.00
258_D	284_A	1.037	1.00
55_E	58_F	1.036	1.00
39_L	42_I	1.032	1.00
185_P	280_T	1.028	1.00
302_H	320_A	1.026	1.00
223_R	230_S	1.024	1.00
115_E	119_A	1.021	1.00
282_A	311_L	1.016	1.00
119_A	122_K	1.012	1.00
190_G	203_I	1.010	1.00
118_D	122_K	1.009	1.00
193_L	229_V	1.007	1.00
32_M	36_N	1.000	0.99
174_P	217_Y	0.993	0.99
266_S	294_H	0.987	0.99
341_G	370_F	0.986	0.99
172_L	245_L	0.983	0.99
20_T	23_K	0.981	0.99
117_L	121_G	0.974	0.99
231_N	235_N	0.972	0.99
265_I	371_T	0.970	0.99
128_A	135_E	0.968	0.99
63_A	71_L	0.968	0.99
319_T	347_K	0.967	0.99
29_Y	33_F	0.963	0.99
100_E	104_A	0.955	0.99
172_L	243_V	0.953	0.99
184_R	253_F	0.950	0.99
306_D	310_E	0.947	0.99
60_A	102_L	0.944	0.99
266_S	292_W	0.941	0.99
344_D	374_Q	0.933	0.99
161_T	169_S	0.932	0.99
373_K	376_V	0.932	0.99
211_K	280_T	0.931	0.99
78_V	102_L	0.928	0.99
345_L	381_K	0.928	0.99
63_A	77_A	0.927	0.99
60_A	106_L	0.926	0.99
185_P	276_A	0.925	0.99
347_K	351_A	0.924	0.99
307_E	311_L	0.923	0.99
299_G	331_D	0.917	0.99
127_L	131_F	0.917	0.99
262_V	281_L	0.917	0.99
91_K	96_N	0.914	0.99
35_H	101_H	0.909	0.99
281_L	286_H	0.909	0.99
90_I	94_Q	0.905	0.99
29_Y	39_L	0.905	0.99
296_A	301_V	0.901	0.99
281_L	288_A	0.899	0.99
62_A	66_S	0.899	0.99
232_W	244_K	0.895	0.99
274_M	277_M	0.895	0.99
255_A	258_D	0.889	0.99
214_G	279_D	0.885	0.99
352_F	359_F	0.884	0.99
130_V	133_N	0.884	0.99
291_N	319_T	0.881	0.99
119_A	124_Y	0.877	0.99
232_W	237_A	0.877	0.99
63_A	66_S	0.876	0.99
78_V	98_V	0.870	0.99
309_K	312_G	0.865	0.99
43_F	46_S	0.865	0.99
183_Y	210_R	0.864	0.99
265_I	375_L	0.859	0.98
147_G	152_T	0.858	0.98
279_D	311_L	0.858	0.98
161_T	171_E	0.855	0.98
132_I	139_Y	0.855	0.98
188_Y	205_Q	0.852	0.98
374_Q	377_D	0.851	0.98
186_G	207_S	0.849	0.98
97_I	100_E	0.848	0.98
189_L	217_Y	0.843	0.98
126_V	131_F	0.839	0.98
300_D	327_P	0.838	0.98
79_E	134_R	0.837	0.98
118_D	123_A	0.833	0.98
31_R	35_H	0.830	0.98
365_V	368_M	0.826	0.98
123_A	132_I	0.826	0.98
84_K	87_S	0.824	0.98
124_Y	135_E	0.823	0.98
209_T	218_R	0.820	0.98
120_W	128_A	0.817	0.98
128_A	132_I	0.816	0.98
30_D	34_T	0.814	0.98
247_A	251_D	0.811	0.98
327_P	337_F	0.811	0.98
120_W	135_E	0.811	0.98
267_A	274_M	0.809	0.98
278_L	290_V	0.808	0.98
165_A	300_D	0.808	0.98
307_E	310_E	0.807	0.98
352_F	357_M	0.805	0.98
132_I	135_E	0.804	0.98
346_S	350_G	0.801	0.98
175_V	242_V	0.801	0.98
309_K	313_Q	0.800	0.98
278_L	311_L	0.799	0.98
92_P	95_Y	0.797	0.98
287_T	290_V	0.796	0.97
312_G	320_A	0.796	0.97
160_K	170_F	0.796	0.97
321_H	342_L	0.794	0.97
153_R	179_A	0.794	0.97
263_T	291_N	0.793	0.97
92_P	96_N	0.791	0.97
126_V	130_V	0.788	0.97
117_L	127_L	0.788	0.97
62_A	65_A	0.787	0.97
114_Q	123_A	0.784	0.97
96_N	100_E	0.783	0.97
157_I	170_F	0.782	0.97
376_V	382_Q	0.780	0.97
298_N	328_S	0.779	0.97
78_V	105_T	0.778	0.97
220_A	271_Q	0.777	0.97
213_D	280_T	0.777	0.97
275_L	279_D	0.776	0.97
162_P	168_T	0.771	0.97
298_N	327_P	0.770	0.97
157_I	239_V	0.769	0.97
48_Q	51_G	0.767	0.97
184_R	256_V	0.766	0.97
64_Y	68_I	0.765	0.97
282_A	315_L	0.759	0.97
295_A	323_W	0.758	0.97
169_S	220_A	0.754	0.97
160_K	237_A	0.753	0.96
306_D	309_K	0.750	0.96
309_K	322_T	0.747	0.96
148_G	152_T	0.744	0.96
330_A	341_G	0.744	0.96
36_N	39_L	0.742	0.96
135_E	139_Y	0.742	0.96
207_S	276_A	0.739	0.96
204_R	207_S	0.734	0.96
26_A	30_D	0.734	0.96
128_A	131_F	0.733	0.96
338_D	341_G	0.728	0.96
31_R	104_A	0.725	0.96
152_T	246_V	0.725	0.96
64_Y	96_N	0.720	0.95
205_Q	246_V	0.720	0.95
166_L	225_E	0.718	0.95
80_K	84_K	0.717	0.95
58_F	62_A	0.716	0.95
181_A	217_Y	0.715	0.95
120_W	125_G	0.714	0.95
187_Q	253_F	0.713	0.95
281_L	290_V	0.712	0.95
122_K	125_G	0.710	0.95
370_F	373_K	0.709	0.95
377_D	380_V	0.709	0.95
136_A	140_N	0.709	0.95
275_L	304_F	0.708	0.95
163_R	220_A	0.708	0.95
131_F	135_E	0.707	0.95
349_E	352_F	0.706	0.95
31_R	108_E	0.706	0.95
261_P	355_P	0.703	0.95
123_A	139_Y	0.703	0.95
209_T	219_I	0.700	0.95
22_P	25_T	0.698	0.95
344_D	347_K	0.696	0.95
64_Y	127_L	0.695	0.95
213_D	284_A	0.694	0.95
293_F	342_L	0.691	0.94
64_Y	99_G	0.691	0.94
166_L	297_E	0.691	0.94
189_L	208_L	0.690	0.94
125_G	132_I	0.688	0.94
32_M	35_H	0.687	0.94
104_A	107_D	0.687	0.94
282_A	316_P	0.685	0.94
324_Y	327_P	0.685	0.94
114_Q	118_D	0.681	0.94
127_L	130_V	0.681	0.94
265_I	367_F	0.679	0.94
300_D	328_S	0.678	0.94
47_N	50_N	0.677	0.94
345_L	378_L	0.677	0.94
275_L	308_V	0.677	0.94
129_N	132_I	0.677	0.94
27_H	108_E	0.676	0.94
87_S	205_Q	0.675	0.94
194_K	244_K	0.668	0.93
94_Q	97_I	0.668	0.93
122_K	126_V	0.668	0.93
193_L	228_Q	0.668	0.93
51_G	54_R	0.664	0.93
28_F	59_N	0.663	0.93
78_V	82_A	0.660	0.93
53_Q	56_A	0.660	0.93
135_E	138_I	0.658	0.93
32_M	37_P	0.656	0.93
327_P	338_D	0.655	0.93
116_V	121_G	0.653	0.93
57_L	61_I	0.653	0.93
374_Q	378_L	0.648	0.92
302_H	308_V	0.648	0.92
107_D	117_L	0.646	0.92
25_T	36_N	0.645	0.92
90_I	95_Y	0.643	0.92
28_F	32_M	0.641	0.92
262_V	288_A	0.638	0.92
82_A	101_H	0.637	0.92
116_V	128_A	0.637	0.92
23_K	26_A	0.636	0.92
77_A	102_L	0.636	0.92
45_M	73_A	0.636	0.92
53_Q	57_L	0.635	0.91
264_L	288_A	0.634	0.91
325_R	370_F	0.633	0.91
143_A	150_E	0.631	0.91
22_P	55_E	0.631	0.91
219_I	272_T	0.631	0.91
70_N	74_L	0.631	0.91
325_R	338_D	0.630	0.91
293_F	348_L	0.630	0.91
208_L	217_Y	0.627	0.91
267_A	370_F	0.627	0.91
41_E	44_N	0.624	0.91
160_K	238_N	0.623	0.91
255_A	358_Q	0.622	0.91
321_H	339_S	0.621	0.91
84_K	88_F	0.620	0.90
50_N	54_R	0.619	0.90
121_G	125_G	0.619	0.90
25_T	28_F	0.619	0.90
119_A	125_G	0.618	0.90
163_R	169_S	0.617	0.90
101_H	104_A	0.617	0.90
153_R	178_G	0.617	0.90
136_A	150_E	0.616	0.90
361_L	372_A	0.614	0.90
83_Q	86_T	0.614	0.90
321_H	347_K	0.613	0.90
168_T	234_H	0.611	0.90
325_R	342_L	0.610	0.90
297_E	326_Q	0.609	0.90
254_M	258_D	0.608	0.90
24_L	61_I	0.605	0.89
152_T	192_W	0.600	0.89
376_V	379_G	0.599	0.89
99_G	103_L	0.598	0.89
21_G	25_T	0.597	0.89
161_T	306_D	0.597	0.89
46_S	50_N	0.591	0.88
327_P	330_A	0.591	0.88
106_L	111_S	0.590	0.88
357_M	362_C	0.589	0.88
192_W	201_Q	0.588	0.88
30_D	33_F	0.584	0.88
25_T	29_Y	0.583	0.88
62_A	71_L	0.582	0.88
264_L	277_M	0.582	0.88
327_P	340_E	0.581	0.87
291_N	351_A	0.581	0.87
147_G	153_R	0.581	0.87
116_V	132_I	0.578	0.87
331_D	338_D	0.577	0.87
171_E	304_F	0.575	0.87
126_V	129_N	0.575	0.87
98_V	102_L	0.573	0.87
219_I	233_L	0.573	0.87
322_T	338_D	0.573	0.87
147_G	151_G	0.573	0.87
106_L	110_F	0.571	0.87
26_A	54_R	0.570	0.86
312_G	316_P	0.570	0.86
61_I	106_L	0.570	0.86
33_F	39_L	0.569	0.86
117_L	125_G	0.569	0.86
60_A	64_Y	0.567	0.86
140_N	144_S	0.566	0.86
94_Q	99_G	0.566	0.86
312_G	315_L	0.565	0.86
130_V	134_R	0.562	0.86
294_H	303_A	0.561	0.86
163_R	209_T	0.559	0.85
203_I	246_V	0.558	0.85
345_L	351_A	0.557	0.85
132_I	136_A	0.557	0.85
62_A	74_L	0.557	0.85
293_F	323_W	0.556	0.85
209_T	304_F	0.555	0.85
134_R	137_E	0.552	0.85
297_E	338_D	0.552	0.85
103_L	117_L	0.552	0.85
43_F	47_N	0.552	0.85
308_V	311_L	0.550	0.84
366_G	369_Q	0.550	0.84
257_A	260_T	0.547	0.84
133_N	137_E	0.547	0.84
24_L	28_F	0.544	0.84
304_F	307_E	0.544	0.84
165_A	301_V	0.544	0.84
44_N	77_A	0.543	0.84
168_T	223_R	0.543	0.84
43_F	73_A	0.541	0.83
20_T	24_L	0.541	0.83
278_L	282_A	0.541	0.83
73_A	76_P	0.541	0.83
74_L	362_C	0.539	0.83
184_R	280_T	0.535	0.83
115_E	121_G	0.534	0.83
148_G	151_G	0.534	0.83
312_G	319_T	0.533	0.83
41_E	47_N	0.532	0.82
248_P	253_F	0.532	0.82
119_A	135_E	0.531	0.82
225_E	231_N	0.530	0.82
95_Y	119_A	0.530	0.82
35_H	100_E	0.528	0.82
237_A	243_V	0.526	0.82
128_A	137_E	0.526	0.82
191_V	219_I	0.526	0.82
157_I	219_I	0.526	0.82
340_E	343_M	0.521	0.81
21_G	24_L	0.520	0.81
343_M	374_Q	0.520	0.81
26_A	29_Y	0.519	0.81
134_R	138_I	0.517	0.81
40_K	51_G	0.516	0.81
124_Y	131_F	0.516	0.81
183_Y	209_T	0.514	0.80
210_R	213_D	0.514	0.80
278_L	317_R	0.513	0.80
127_L	134_R	0.513	0.80
85_H	88_F	0.513	0.80
202_E	228_Q	0.513	0.80
74_L	77_A	0.512	0.80
82_A	105_T	0.512	0.80
273_P	362_C	0.512	0.80
167_I	222_K	0.512	0.80
202_E	229_V	0.512	0.80
103_L	110_F	0.512	0.80
311_L	315_L	0.511	0.80
276_A	279_D	0.509	0.80
125_G	133_N	0.509	0.80
155_F	180_V	0.507	0.79
159_A	169_S	0.507	0.79
207_S	274_M	0.507	0.79
258_D	358_Q	0.507	0.79
339_S	367_F	0.506	0.79
23_K	27_H	0.506	0.79
114_Q	119_A	0.506	0.79
309_K	320_A	0.505	0.79
93_E	96_N	0.504	0.79
68_I	71_L	0.504	0.79
348_L	351_A	0.503	0.79
252_F	362_C	0.503	0.79
192_W	203_I	0.502	0.79
261_P	357_M	0.502	0.79
147_G	150_E	0.500	0.78
125_G	131_F	0.500	0.78

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
1tllA	2	0.9646	100	0.331	Contact Map
1gvhA	3	1	100	0.36	Contact Map
2bpoA	1	0.9722	100	0.366	Contact Map
3qe2A	1	0.9697	100	0.367	Contact Map
1cqxA	2	0.9899	100	0.371	Contact Map
4g1vA	3	0.952	100	0.406	Contact Map
1ddgA	1	0.6187	100	0.496	Contact Map
1f20A	1	0.6667	100	0.512	Contact Map
2qtlA	1	0.6414	100	0.526	Contact Map
3qfsA	1	0.6717	100	0.533	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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