DCUP - BACSU - GREMLIN Contacts

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DCUP - Uroporphyrinogen decarboxylase

UniProt:	P32395	Sequences: MSKRETFNETFLKAARGEKADHTPVWYMRQAGRSQPEYRKLKEKYGLFEITHQPELCAYVTRLPVEQYGVDAAILYKDIMTPLPSIGVDVEIKNGIGPVIDQPIRSLADIEKLGQIDPEQDVPYVLETIKLLVNEQLNVPLIGFSGAPFTLASYMIEGGPSKNYNKTKAFMYSMPDAWNLLMSKLADMIIVYVKAQIEAGAKAIQIFDSWVGALNQADYRTYIKPVMNRIFSELAKENVPLIMFGVGASHLAGDWHDLPLDVVGLDWRLGIDEARSKGITKTVQGNLDPSILLAPWEVIEQKTKEILDQGMESDGFIFNLGHGVFPDVSPEVLKKLTAFVHEYSQNKKMGQYS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	353 (330)
Sequences:	3887 (2554)
Seq/√Len:	140.6

ECOLI - DCUP
BACSU - DCUP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
10_T	21_D	4.891	1.00
13_K	18_E	3.957	1.00
183_S	229_R	3.666	1.00
190_I	233_E	3.421	1.00
179_N	221_T	3.363	1.00
302_K	305_E	3.280	1.00
300_E	342_E	3.138	1.00
220_R	254_D	3.134	1.00
106_S	109_D	3.098	1.00
179_N	226_V	2.971	1.00
174_M	177_A	2.737	1.00
15_A	262_V	2.726	1.00
58_A	131_L	2.619	1.00
89_D	101_D	2.545	1.00
133_V	202_K	2.486	1.00
303_T	336_L	2.474	1.00
304_K	339_F	2.469	1.00
10_T	22_H	2.463	1.00
253_G	277_K	2.460	1.00
329_S	332_V	2.312	1.00
296_W	335_K	2.259	1.00
197_I	204_I	2.232	1.00
305_E	309_Q	2.226	1.00
187_D	229_R	2.200	1.00
11_F	203_A	2.180	1.00
195_A	198_E	2.176	1.00
273_E	276_S	2.176	1.00
228_N	232_S	2.149	1.00
156_I	170_F	2.098	1.00
300_E	339_F	2.092	1.00
66_E	138_N	2.088	1.00
107_L	174_M	2.082	1.00
335_K	339_F	2.068	1.00
126_L	195_A	2.062	1.00
300_E	335_K	2.035	1.00
40_K	43_E	2.033	1.00
304_K	308_D	2.026	1.00
190_I	229_R	2.018	1.00
295_P	298_V	2.014	1.00
297_E	301_Q	2.009	1.00
186_A	190_I	1.917	1.00
194_K	233_E	1.905	1.00
270_G	309_Q	1.900	1.00
145_S	189_I	1.864	1.00
235_A	261_D	1.860	1.00
255_W	263_V	1.859	1.00
17_G	315_G	1.857	1.00
296_W	332_V	1.857	1.00
272_D	309_Q	1.846	1.00
27_Y	336_L	1.817	1.00
110_I	177_A	1.810	1.00
111_E	180_L	1.804	1.00
179_N	222_Y	1.797	1.00
318_F	340_V	1.769	1.00
9_E	13_K	1.762	1.00
303_T	339_F	1.735	1.00
220_R	257_D	1.708	1.00
123_P	127_E	1.707	1.00
46_G	49_E	1.701	1.00
186_A	230_I	1.667	1.00
109_D	112_K	1.658	1.00
334_K	338_A	1.645	1.00
170_F	177_A	1.607	1.00
219_Y	227_M	1.607	1.00
180_L	184_K	1.597	1.00
127_E	130_K	1.591	1.00
272_D	276_S	1.573	1.00
105_R	166_K	1.552	1.00
13_K	21_D	1.545	1.00
190_I	230_I	1.544	1.00
131_L	135_E	1.519	1.00
231_F	241_L	1.518	1.00
308_D	343_Y	1.511	1.00
299_I	335_K	1.489	1.00
183_S	187_D	1.462	1.00
27_Y	333_L	1.459	1.00
197_I	239_V	1.454	1.00
107_L	177_A	1.435	1.00
167_T	178_W	1.418	1.00
304_K	343_Y	1.416	1.00
183_S	226_V	1.406	1.00
55_E	131_L	1.406	1.00
235_A	241_L	1.400	1.00
14_A	282_T	1.396	1.00
299_I	332_V	1.392	1.00
17_G	282_T	1.381	1.00
338_A	342_E	1.368	1.00
14_A	24_P	1.342	1.00
13_K	20_A	1.341	1.00
11_F	242_I	1.328	1.00
307_L	343_Y	1.328	1.00
16_R	240_P	1.324	1.00
68_Y	330_P	1.322	1.00
75_L	132_L	1.317	1.00
282_T	315_G	1.315	1.00
339_F	342_E	1.307	1.00
224_K	228_N	1.305	1.00
67_Q	334_K	1.303	1.00
296_W	300_E	1.278	1.00
231_F	260_L	1.272	1.00
194_K	198_E	1.269	1.00
50_I	60_V	1.268	1.00
215_N	218_D	1.267	1.00
332_V	335_K	1.266	1.00
294_A	298_V	1.263	1.00
131_L	134_N	1.260	1.00
49_E	53_Q	1.256	1.00
273_E	277_K	1.253	1.00
335_K	338_A	1.250	1.00
128_T	132_L	1.245	1.00
224_K	257_D	1.240	1.00
300_E	304_K	1.219	1.00
68_Y	334_K	1.212	1.00
107_L	180_L	1.210	1.00
259_P	281_K	1.204	1.00
298_V	301_Q	1.202	1.00
194_K	236_K	1.189	1.00
194_K	237_E	1.179	1.00
187_D	190_I	1.178	1.00
10_T	20_A	1.171	1.00
175_P	221_T	1.169	1.00
63_L	67_Q	1.161	0.99
108_A	111_E	1.159	0.99
107_L	111_E	1.159	0.99
130_K	199_A	1.155	0.99
216_Q	220_R	1.151	0.99
191_V	194_K	1.143	0.99
287_L	318_F	1.141	0.99
91_E	101_D	1.137	0.99
186_A	229_R	1.131	0.99
62_R	66_E	1.128	0.99
23_T	307_L	1.124	0.99
216_Q	254_D	1.124	0.99
169_A	173_S	1.123	0.99
58_A	132_L	1.122	0.99
130_K	134_N	1.121	0.99
270_G	273_E	1.115	0.99
220_R	224_K	1.103	0.99
187_D	191_V	1.101	0.99
22_H	341_H	1.062	0.99
194_K	234_L	1.062	0.99
289_P	321_G	1.060	0.99
53_Q	56_L	1.052	0.99
331_E	334_K	1.048	0.99
287_L	336_L	1.043	0.99
11_F	15_A	1.043	0.99
25_V	337_T	1.043	0.99
19_K	314_D	1.038	0.99
23_T	316_F	1.035	0.99
111_E	184_K	1.034	0.99
228_N	257_D	1.033	0.99
324_V	328_V	1.033	0.99
19_K	313_S	1.032	0.99
117_D	120_Q	1.031	0.99
69_G	341_H	1.031	0.99
14_A	20_A	1.027	0.99
93_K	96_I	1.025	0.99
291_I	299_I	1.024	0.99
291_I	302_K	1.024	0.99
69_G	139_V	1.020	0.99
52_H	84_P	1.017	0.99
324_V	333_L	1.013	0.99
189_I	230_I	1.009	0.99
325_F	328_V	1.006	0.99
179_N	183_S	0.999	0.98
300_E	338_A	0.991	0.98
297_E	300_E	0.990	0.98
177_A	180_L	0.990	0.98
232_S	236_K	0.989	0.98
257_D	280_T	0.985	0.98
293_L	327_D	0.980	0.98
306_I	318_F	0.978	0.98
15_A	317_I	0.964	0.98
318_F	336_L	0.963	0.98
118_P	126_L	0.946	0.98
227_M	243_M	0.941	0.98
228_N	259_P	0.936	0.98
34_S	68_Y	0.935	0.98
171_M	178_W	0.931	0.98
55_E	58_A	0.930	0.98
252_A	274_A	0.914	0.97
206_I	230_I	0.914	0.97
306_I	316_F	0.913	0.97
296_W	299_I	0.908	0.97
292_L	328_V	0.907	0.97
254_D	257_D	0.901	0.97
205_Q	264_G	0.898	0.97
224_K	258_L	0.898	0.97
224_K	254_D	0.894	0.97
127_E	131_L	0.891	0.97
166_K	169_A	0.890	0.97
39_R	43_E	0.889	0.97
10_T	13_K	0.886	0.97
40_K	44_K	0.886	0.97
190_I	194_K	0.881	0.97
301_Q	305_E	0.880	0.97
152_A	181_L	0.877	0.96
206_I	231_F	0.876	0.96
105_R	109_D	0.873	0.96
108_A	112_K	0.869	0.96
300_E	303_T	0.869	0.96
45_Y	56_L	0.868	0.96
296_W	331_E	0.863	0.96
119_E	195_A	0.863	0.96
311_M	314_D	0.863	0.96
54_P	58_A	0.861	0.96
110_I	170_F	0.858	0.96
240_P	261_D	0.856	0.96
229_R	233_E	0.853	0.96
206_I	227_M	0.853	0.96
77_K	81_T	0.852	0.96
303_T	307_L	0.848	0.96
243_M	260_L	0.846	0.96
232_S	235_A	0.845	0.96
23_T	318_F	0.845	0.96
75_L	129_I	0.842	0.96
70_V	337_T	0.841	0.95
170_F	174_M	0.840	0.95
65_V	139_V	0.838	0.95
241_L	261_D	0.836	0.95
178_W	182_M	0.833	0.95
249_S	273_E	0.828	0.95
110_I	184_K	0.826	0.95
115_Q	187_D	0.825	0.95
198_E	237_E	0.824	0.95
57_C	128_T	0.821	0.95
45_Y	50_I	0.820	0.95
151_L	189_I	0.818	0.95
55_E	127_E	0.818	0.95
182_M	226_V	0.818	0.95
145_S	193_V	0.817	0.95
20_A	23_T	0.815	0.95
46_G	50_I	0.813	0.95
193_V	234_L	0.813	0.95
256_H	281_K	0.812	0.95
275_R	283_V	0.810	0.94
278_G	281_K	0.806	0.94
293_L	325_F	0.803	0.94
203_A	242_I	0.802	0.94
50_I	56_L	0.800	0.94
269_L	274_A	0.800	0.94
153_S	167_T	0.799	0.94
171_M	218_D	0.797	0.94
187_D	233_E	0.797	0.94
129_I	199_A	0.797	0.94
27_Y	70_V	0.795	0.94
104_I	109_D	0.795	0.94
45_Y	53_Q	0.794	0.94
232_S	259_P	0.791	0.94
243_M	258_L	0.787	0.94
110_I	181_L	0.786	0.94
88_V	155_M	0.786	0.94
58_A	62_R	0.783	0.93
233_E	236_K	0.780	0.93
12_L	16_R	0.779	0.93
274_A	283_V	0.776	0.93
331_E	335_K	0.776	0.93
339_F	343_Y	0.775	0.93
172_Y	218_D	0.775	0.93
217_A	221_T	0.775	0.93
330_P	334_K	0.775	0.93
62_R	135_E	0.772	0.93
66_E	135_E	0.768	0.93
296_W	339_F	0.767	0.93
197_I	237_E	0.765	0.93
278_G	314_D	0.765	0.93
226_V	229_R	0.764	0.93
54_P	131_L	0.764	0.93
299_I	339_F	0.762	0.92
83_L	155_M	0.760	0.92
245_G	248_A	0.757	0.92
298_V	302_K	0.756	0.92
20_A	314_D	0.754	0.92
137_L	140_P	0.754	0.92
65_V	69_G	0.753	0.92
299_I	303_T	0.747	0.92
176_D	183_S	0.747	0.92
143_G	196_Q	0.744	0.92
262_V	317_I	0.743	0.92
186_A	226_V	0.743	0.92
265_L	274_A	0.742	0.91
152_A	178_W	0.741	0.91
110_I	180_L	0.736	0.91
295_P	332_V	0.736	0.91
293_L	328_V	0.735	0.91
54_P	127_E	0.735	0.91
256_H	280_T	0.734	0.91
58_A	135_E	0.730	0.91
223_I	227_M	0.727	0.91
217_A	220_R	0.723	0.90
188_M	191_V	0.720	0.90
304_K	307_L	0.720	0.90
75_L	128_T	0.716	0.90
59_Y	63_L	0.712	0.90
59_Y	66_E	0.711	0.90
223_I	226_V	0.709	0.90
41_L	45_Y	0.707	0.89
211_V	223_I	0.705	0.89
145_S	206_I	0.702	0.89
88_V	100_I	0.701	0.89
305_E	308_D	0.698	0.89
129_I	201_A	0.697	0.89
142_I	203_A	0.693	0.88
250_H	277_K	0.692	0.88
186_A	233_E	0.691	0.88
193_V	204_I	0.690	0.88
41_L	56_L	0.689	0.88
294_A	332_V	0.689	0.88
303_T	335_K	0.688	0.88
82_P	188_M	0.687	0.88
55_E	59_Y	0.685	0.88
150_T	207_F	0.682	0.88
234_L	241_L	0.679	0.87
164_Y	209_S	0.679	0.87
253_G	280_T	0.678	0.87
8_N	202_K	0.674	0.87
14_A	315_G	0.674	0.87
114_G	184_K	0.671	0.87
287_L	302_K	0.671	0.87
275_R	313_S	0.671	0.87
303_T	318_F	0.670	0.87
115_Q	184_K	0.668	0.87
165_N	169_A	0.667	0.86
126_L	130_K	0.667	0.86
235_A	238_N	0.667	0.86
250_H	269_L	0.666	0.86
65_V	70_V	0.665	0.86
119_E	191_V	0.664	0.86
136_Q	139_V	0.661	0.86
292_L	320_L	0.661	0.86
251_L	255_W	0.661	0.86
337_T	341_H	0.661	0.86
89_D	102_Q	0.659	0.86
262_V	282_T	0.654	0.85
45_Y	49_E	0.654	0.85
102_Q	112_K	0.654	0.85
307_L	340_V	0.653	0.85
308_D	311_M	0.652	0.85
9_E	202_K	0.651	0.85
123_P	126_L	0.650	0.85
126_L	192_Y	0.642	0.84
30_Q	33_R	0.642	0.84
47_L	50_I	0.638	0.84
244_F	322_H	0.638	0.84
176_D	180_L	0.637	0.84
209_S	212_G	0.636	0.84
275_R	278_G	0.636	0.84
307_L	311_M	0.634	0.84
299_I	336_L	0.632	0.83
301_Q	304_K	0.632	0.83
149_F	153_S	0.631	0.83
272_D	305_E	0.630	0.83
271_I	286_N	0.629	0.83
249_S	252_A	0.629	0.83
301_Q	308_D	0.628	0.83
225_P	229_R	0.628	0.83
180_L	183_S	0.627	0.83
156_I	167_T	0.627	0.83
204_I	234_L	0.627	0.83
11_F	72_A	0.622	0.82
331_E	338_A	0.621	0.82
265_L	271_I	0.621	0.82
152_A	185_L	0.619	0.82
207_F	323_G	0.618	0.82
218_D	221_T	0.618	0.82
25_V	340_V	0.617	0.82
142_I	242_I	0.617	0.82
214_L	223_I	0.616	0.82
303_T	342_E	0.615	0.82
249_S	269_L	0.615	0.82
49_E	56_L	0.613	0.82
216_Q	250_H	0.612	0.81
67_Q	330_P	0.609	0.81
118_P	195_A	0.609	0.81
275_R	314_D	0.609	0.81
255_W	258_L	0.606	0.81
294_A	299_I	0.606	0.81
41_L	60_V	0.605	0.81
287_L	306_I	0.603	0.80
193_V	200_G	0.602	0.80
118_P	191_V	0.602	0.80
218_D	222_Y	0.601	0.80
52_H	124_Y	0.601	0.80
269_L	273_E	0.601	0.80
183_S	186_A	0.601	0.80
243_M	255_W	0.600	0.80
284_Q	319_N	0.599	0.80
266_D	321_G	0.598	0.80
209_S	322_H	0.596	0.80
260_L	263_V	0.596	0.80
115_Q	191_V	0.595	0.80
163_N	166_K	0.591	0.79
38_Y	42_K	0.590	0.79
57_C	60_V	0.590	0.79
190_I	234_L	0.589	0.79
288_D	291_I	0.588	0.79
216_Q	251_L	0.587	0.79
172_Y	291_I	0.586	0.79
244_F	264_G	0.583	0.78
74_I	144_F	0.582	0.78
216_Q	253_G	0.578	0.78
175_P	222_Y	0.576	0.77
126_L	199_A	0.576	0.77
245_G	255_W	0.575	0.77
119_E	130_K	0.575	0.77
128_T	131_L	0.574	0.77
198_E	235_A	0.573	0.77
194_K	197_I	0.573	0.77
29_R	33_R	0.572	0.77
91_E	99_V	0.571	0.77
275_R	312_E	0.571	0.77
276_S	301_Q	0.570	0.77
182_M	186_A	0.569	0.77
29_R	32_G	0.569	0.77
328_V	333_L	0.569	0.77
292_L	299_I	0.569	0.77
300_E	343_Y	0.568	0.76
246_V	322_H	0.565	0.76
147_A	208_D	0.564	0.76
16_R	238_N	0.563	0.76
290_S	293_L	0.563	0.76
65_V	341_H	0.561	0.76
296_W	338_A	0.560	0.75
83_L	88_V	0.559	0.75
287_L	303_T	0.559	0.75
162_K	165_N	0.559	0.75
15_A	242_I	0.559	0.75
147_A	223_I	0.558	0.75
166_K	170_F	0.558	0.75
69_G	337_T	0.557	0.75
173_S	295_P	0.557	0.75
35_Q	63_L	0.555	0.75
209_S	246_V	0.554	0.75
201_A	204_I	0.554	0.75
64_P	79_I	0.552	0.74
227_M	231_F	0.552	0.74
177_A	181_L	0.552	0.74
99_V	103_P	0.551	0.74
250_H	255_W	0.551	0.74
176_D	221_T	0.548	0.74
219_Y	224_K	0.547	0.74
118_P	123_P	0.547	0.74
204_I	241_L	0.546	0.74
227_M	255_W	0.544	0.73
168_K	213_A	0.542	0.73
291_I	294_A	0.542	0.73
266_D	286_N	0.541	0.73
176_D	179_N	0.539	0.73
165_N	327_D	0.539	0.73
82_P	122_V	0.539	0.73
171_M	222_Y	0.537	0.72
47_L	51_T	0.536	0.72
151_L	185_L	0.535	0.72
16_R	20_A	0.532	0.72
290_S	325_F	0.531	0.72
110_I	152_A	0.529	0.71
182_M	222_Y	0.529	0.71
252_A	269_L	0.528	0.71
169_A	327_D	0.528	0.71
191_V	195_A	0.527	0.71
170_F	173_S	0.527	0.71
271_I	306_I	0.527	0.71
181_L	185_L	0.527	0.71
271_I	309_Q	0.526	0.71
217_A	305_E	0.526	0.71
69_G	334_K	0.525	0.71
132_L	135_E	0.525	0.71
79_I	323_G	0.524	0.71
36_P	40_K	0.523	0.70
183_S	190_I	0.521	0.70
227_M	230_I	0.521	0.70
170_F	178_W	0.521	0.70
35_Q	67_Q	0.520	0.70
195_A	199_A	0.517	0.70
231_F	258_L	0.517	0.70
172_Y	222_Y	0.517	0.70
279_I	282_T	0.516	0.69
26_W	323_G	0.516	0.69
228_N	258_L	0.515	0.69
14_A	17_G	0.513	0.69
150_T	154_Y	0.513	0.69
27_Y	337_T	0.512	0.69
320_L	323_G	0.511	0.69
208_D	212_G	0.511	0.69
264_G	322_H	0.511	0.69
245_G	322_H	0.511	0.69
216_Q	270_G	0.511	0.69
221_T	225_P	0.509	0.68
275_R	309_Q	0.508	0.68
220_R	225_P	0.507	0.68
41_L	44_K	0.506	0.68
245_G	251_L	0.504	0.68
333_L	336_L	0.504	0.68
173_S	217_A	0.502	0.67
114_G	121_D	0.500	0.67

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
2infA	2	0.9717	100	0.178	Contact Map
1r3sA	2	0.9773	100	0.203	Contact Map
4zr8A	2	0.9773	100	0.216	Contact Map
4exqA	2	0.9717	100	0.234	Contact Map
1j93A	2	0.9547	100	0.236	Contact Map
4wshA	2	0.9745	100	0.237	Contact Map
2ejaA	2	0.9462	100	0.243	Contact Map
4ay7A	1	0.915	100	0.305	Contact Map
1u1jA	1	0.8924	99.9	0.712	Contact Map
3rpdA	1	0.8782	99.9	0.72	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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