PYRC - SULSO - GREMLIN Contacts

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PYRC - Dihydroorotase

UniProt:	Q9UX05	Sequences: MMILWIMGKAYLSKEIRDVCINFDRRIKEIKSICKPDIALPKGTLILPGAIDLHTHIRGLKLAYKEDVVSGTSEASYGGITLIGDMPNSVPFVNTMETITAKLREFEYYSRVDYFVYSGVTKDLKKVDKFPIAGYKIFPEDLEKEETLEVLKSMKLKILHPEVPLALRGNRKLRLNIWYEIGALYYVKGYQNVHITHATNIRTVRLAKELGFTVDITPHHLLVDREKECLTKVNPPIRDTNERLWLLQAINEVDTVVSDHAPHASFEKQQPYEICPPGIAALSFTVPFILTLVSKGIISIDRAVELISTNPARILNIPYGEIKENNYANFTIIQFKDWRYSTKYSKVIETPLDGFPLRASIYMTIIQGKVGSLEGEVFPVKGINPFGENK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	390 (349)
Sequences:	21496 (16682)
Seq/√Len:	892.9

ECOLI - ALLB PHYDA SSNA CODA GUAD YAHJ IADA PHNM NAGA
BACSU - ALLB PYRC HUTI YTCJ NAGA
HALSA - PYRC MTAD Q9HQE0 HUTI Q9HNZ2
SULSO - PYRC Q97WS6 Q97VT3 Q7LXN1 Q97V65 Q97W09 Q97XD4 Q980B7 Q97VF3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
365_I	370_V	4.919	1.00
321_E	326_N	4.886	1.00
22_N	28_K	4.815	1.00
363_M	370_V	4.195	1.00
44_T	362_Y	4.153	1.00
6_I	38_I	4.075	1.00
5_W	41_P	4.043	1.00
299_S	302_R	3.864	1.00
41_P	332_I	3.481	1.00
323_K	326_N	3.415	1.00
47_L	333_I	3.216	1.00
8_G	41_P	3.161	1.00
29_E	324_E	2.910	1.00
319_Y	327_Y	2.908	1.00
305_E	309_T	2.898	1.00
49_G	81_T	2.762	1.00
302_R	305_E	2.585	1.00
327_Y	367_Q	2.563	1.00
47_L	331_T	2.540	1.00
4_L	20_C	2.462	1.00
305_E	310_N	2.394	1.00
25_R	327_Y	2.380	1.00
19_V	46_I	2.297	1.00
21_I	330_F	2.236	1.00
7_M	40_L	2.186	1.00
26_R	327_Y	2.173	1.00
3_I	365_I	2.143	1.00
31_K	34_C	2.138	1.00
46_I	332_I	2.118	1.00
310_N	313_R	2.109	1.00
322_I	330_F	2.047	1.00
18_D	34_C	2.019	1.00
240_T	244_L	2.018	1.00
20_C	36_P	2.011	1.00
217_T	220_H	1.978	1.00
10_A	17_R	1.963	1.00
19_V	322_I	1.951	1.00
8_G	46_I	1.946	1.00
309_T	313_R	1.924	1.00
309_T	321_E	1.902	1.00
47_L	50_A	1.900	1.00
185_Y	210_L	1.878	1.00
20_C	29_E	1.825	1.00
44_T	334_Q	1.825	1.00
145_E	149_E	1.786	1.00
6_I	18_D	1.768	1.00
17_R	32_S	1.755	1.00
46_I	330_F	1.752	1.00
44_T	332_I	1.736	1.00
206_L	209_E	1.734	1.00
240_T	243_R	1.721	1.00
150_V	153_S	1.717	1.00
25_R	367_Q	1.706	1.00
318_P	326_N	1.658	1.00
144_K	147_T	1.637	1.00
313_R	321_E	1.616	1.00
3_I	37_D	1.612	1.00
10_A	19_V	1.608	1.00
30_I	324_E	1.605	1.00
245_W	249_A	1.567	1.00
100_T	104_R	1.566	1.00
330_F	365_I	1.563	1.00
53_L	315_L	1.552	1.00
27_I	322_I	1.534	1.00
20_C	28_K	1.530	1.00
47_L	304_V	1.480	1.00
142_L	145_E	1.467	1.00
216_I	220_H	1.453	1.00
206_L	210_L	1.446	1.00
342_T	353_D	1.440	1.00
5_W	21_I	1.440	1.00
75_A	83_I	1.436	1.00
253_V	256_V	1.427	1.00
254_D	257_V	1.426	1.00
19_V	330_F	1.423	1.00
3_I	21_I	1.417	1.00
334_Q	362_Y	1.405	1.00
193_V	196_T	1.403	1.00
18_D	33_I	1.397	1.00
51_I	82_L	1.370	1.00
245_W	248_Q	1.366	1.00
286_V	290_L	1.358	1.00
304_V	308_S	1.355	1.00
53_L	311_P	1.343	1.00
254_D	259_D	1.341	1.00
14_K	323_K	1.332	1.00
143_E	146_E	1.327	1.00
4_L	18_D	1.312	1.00
243_R	247_L	1.309	1.00
239_D	242_E	1.292	1.00
232_K	235_P	1.287	1.00
146_E	149_E	1.287	1.00
45_L	335_F	1.286	1.00
136_K	139_P	1.281	1.00
51_I	319_Y	1.276	1.00
101_A	104_R	1.263	1.00
51_I	311_P	1.253	1.00
203_T	206_L	1.252	1.00
18_D	31_K	1.250	1.00
192_N	195_I	1.241	1.00
202_R	206_L	1.239	1.00
5_W	330_F	1.235	1.00
215_D	218_P	1.234	1.00
41_P	46_I	1.229	1.00
247_L	250_I	1.227	1.00
101_A	105_E	1.221	1.00
7_M	42_K	1.221	1.00
118_S	121_T	1.209	1.00
205_R	209_E	1.209	1.00
255_T	314_I	1.199	1.00
278_G	281_A	1.198	1.00
246_L	249_A	1.189	1.00
144_K	151_L	1.189	1.00
113_D	367_Q	1.185	1.00
84_G	315_L	1.179	1.00
275_C	278_G	1.175	1.00
17_R	31_K	1.170	1.00
138_F	141_D	1.165	1.00
6_I	40_L	1.148	1.00
178_W	182_G	1.146	1.00
331_T	361_I	1.144	1.00
82_L	319_Y	1.140	1.00
243_R	249_A	1.139	1.00
244_L	248_Q	1.137	1.00
298_I	306_L	1.137	1.00
243_R	246_L	1.132	1.00
215_D	219_H	1.125	1.00
31_K	35_K	1.124	1.00
235_P	238_R	1.119	1.00
294_S	358_R	1.111	1.00
104_R	108_Y	1.109	1.00
115_F	118_S	1.107	1.00
182_G	186_Y	1.104	1.00
191_Q	194_H	1.102	1.00
158_I	193_V	1.101	1.00
212_F	215_D	1.098	1.00
144_K	148_L	1.097	1.00
219_H	222_L	1.096	1.00
29_E	35_K	1.095	1.00
115_F	119_G	1.093	1.00
9_K	45_L	1.093	1.00
105_E	108_Y	1.089	1.00
240_T	245_W	1.089	1.00
27_I	330_F	1.087	1.00
7_M	43_G	1.084	1.00
119_G	122_K	1.082	1.00
242_E	245_W	1.080	1.00
17_R	30_I	1.079	1.00
338_W	360_S	1.078	1.00
276_P	280_A	1.075	1.00
231_T	234_N	1.070	1.00
12_L	15_E	1.068	1.00
5_W	365_I	1.054	1.00
69_V	73_S	1.048	1.00
136_K	141_D	1.048	1.00
202_R	205_R	1.046	1.00
252_E	259_D	1.046	1.00
241_N	245_W	1.045	1.00
115_F	120_V	1.044	1.00
39_A	363_M	1.034	1.00
253_V	313_R	1.033	1.00
241_N	244_L	1.028	1.00
114_Y	117_Y	1.018	1.00
113_D	117_Y	1.002	1.00
142_L	146_E	1.000	1.00
287_P	290_L	0.999	1.00
148_L	151_L	0.999	1.00
11_Y	45_L	0.998	1.00
53_L	255_T	0.997	1.00
182_G	185_Y	0.990	1.00
190_Y	193_V	0.989	1.00
18_D	35_K	0.987	1.00
13_S	309_T	0.985	1.00
8_G	332_I	0.983	1.00
123_D	126_K	0.976	1.00
306_L	310_N	0.974	1.00
332_I	363_M	0.973	1.00
234_N	238_R	0.973	1.00
283_S	286_V	0.971	1.00
21_I	365_I	0.969	1.00
280_A	283_S	0.968	1.00
76_S	366_I	0.966	1.00
244_L	247_L	0.951	1.00
117_Y	120_V	0.950	1.00
99_I	102_K	0.950	1.00
57_I	83_I	0.943	1.00
254_D	258_S	0.942	1.00
128_D	131_P	0.940	1.00
252_E	255_T	0.932	1.00
285_T	289_I	0.932	1.00
39_A	365_I	0.926	1.00
143_E	147_T	0.923	1.00
224_D	227_K	0.923	1.00
272_Y	275_C	0.922	1.00
178_W	203_T	0.915	1.00
191_Q	213_T	0.914	1.00
14_K	321_E	0.914	1.00
6_I	33_I	0.913	1.00
88_N	91_P	0.910	1.00
5_W	39_A	0.909	1.00
228_E	232_K	0.908	1.00
98_T	101_A	0.908	1.00
283_S	287_P	0.908	1.00
132_I	136_K	0.906	1.00
28_K	324_E	0.902	1.00
281_A	285_T	0.900	1.00
341_S	353_D	0.897	1.00
179_Y	183_A	0.894	1.00
301_D	305_E	0.892	1.00
181_I	185_Y	0.891	1.00
293_V	303_A	0.882	1.00
337_D	358_R	0.880	1.00
239_D	243_R	0.874	1.00
103_L	107_E	0.872	1.00
214_V	217_T	0.871	1.00
288_F	291_T	0.870	1.00
96_M	100_T	0.870	1.00
246_L	250_I	0.868	1.00
255_T	259_D	0.866	1.00
146_E	150_V	0.862	1.00
117_Y	122_K	0.861	1.00
143_E	151_L	0.860	1.00
16_I	301_D	0.858	1.00
17_R	33_I	0.857	1.00
255_T	258_S	0.855	1.00
319_Y	329_N	0.853	1.00
3_I	39_A	0.853	1.00
137_I	140_E	0.853	1.00
147_T	151_L	0.851	1.00
229_C	234_N	0.850	1.00
284_F	289_I	0.850	1.00
242_E	246_L	0.850	1.00
117_Y	121_T	0.850	1.00
256_V	260_H	0.845	1.00
197_H	200_N	0.843	1.00
165_L	169_G	0.838	1.00
220_H	224_D	0.834	1.00
76_S	112_V	0.832	1.00
7_M	41_P	0.831	1.00
128_D	132_I	0.821	1.00
95_T	98_T	0.820	1.00
262_P	266_F	0.820	1.00
51_I	312_A	0.819	1.00
245_W	250_I	0.819	1.00
55_T	75_A	0.816	1.00
332_I	365_I	0.811	1.00
203_T	207_A	0.811	1.00
115_F	121_T	0.808	1.00
51_I	315_L	0.807	1.00
20_C	31_K	0.804	1.00
69_V	72_T	0.804	1.00
253_V	259_D	0.799	1.00
276_P	281_A	0.792	1.00
110_S	113_D	0.791	1.00
160_H	164_P	0.789	1.00
220_H	225_R	0.786	1.00
100_T	103_L	0.786	1.00
259_D	262_P	0.785	1.00
50_A	80_I	0.783	1.00
4_L	36_P	0.782	1.00
37_D	370_V	0.782	1.00
103_L	106_F	0.782	1.00
361_I	364_T	0.779	1.00
274_I	278_G	0.779	1.00
5_W	46_I	0.775	1.00
242_E	247_L	0.774	1.00
302_R	306_L	0.768	1.00
278_G	283_S	0.768	1.00
11_Y	16_I	0.765	1.00
111_R	115_F	0.763	1.00
219_H	223_V	0.761	1.00
97_E	101_A	0.759	1.00
282_L	285_T	0.757	1.00
218_P	221_L	0.755	1.00
219_H	224_D	0.755	1.00
145_E	186_Y	0.750	1.00
11_Y	304_V	0.750	1.00
126_K	129_K	0.749	1.00
88_N	93_V	0.749	1.00
102_K	105_E	0.746	1.00
274_I	277_P	0.746	1.00
22_N	25_R	0.745	1.00
3_I	36_P	0.745	1.00
177_I	180_E	0.742	1.00
243_R	248_Q	0.742	1.00
273_E	276_P	0.740	1.00
50_A	307_I	0.740	1.00
74_E	78_G	0.739	1.00
163_V	166_A	0.738	1.00
73_S	77_Y	0.737	1.00
286_V	289_I	0.737	1.00
253_V	258_S	0.735	1.00
150_V	154_M	0.735	1.00
201_I	205_R	0.733	1.00
82_L	115_F	0.728	1.00
32_S	35_K	0.728	1.00
265_S	269_Q	0.728	1.00
189_G	194_H	0.727	1.00
13_S	301_D	0.724	1.00
222_L	227_K	0.723	1.00
219_H	225_R	0.720	1.00
239_D	245_W	0.720	1.00
147_T	150_V	0.719	1.00
355_F	358_R	0.718	1.00
285_T	290_L	0.716	1.00
13_S	305_E	0.715	1.00
192_N	196_T	0.712	1.00
284_F	287_P	0.710	1.00
8_G	330_F	0.709	1.00
217_T	221_L	0.708	1.00
168_R	171_R	0.708	1.00
131_P	134_G	0.707	1.00
276_P	279_I	0.706	1.00
213_T	216_I	0.706	1.00
115_F	122_K	0.706	1.00
135_Y	138_F	0.705	1.00
201_I	206_L	0.703	1.00
198_A	241_N	0.703	1.00
41_P	44_T	0.703	1.00
205_R	208_K	0.701	1.00
116_V	120_V	0.699	1.00
263_H	268_K	0.695	1.00
217_T	222_L	0.695	1.00
66_E	71_G	0.694	1.00
8_G	43_G	0.692	1.00
124_L	127_V	0.692	1.00
108_Y	111_R	0.692	1.00
177_I	181_I	0.691	1.00
285_T	288_F	0.688	1.00
222_L	225_R	0.685	1.00
215_D	220_H	0.685	1.00
284_F	290_L	0.684	1.00
160_H	163_V	0.683	1.00
11_Y	301_D	0.683	1.00
13_S	16_I	0.680	1.00
180_E	184_L	0.680	1.00
287_P	291_T	0.680	1.00
74_E	77_Y	0.679	1.00
213_T	219_H	0.678	1.00
264_A	267_E	0.675	1.00
283_S	290_L	0.674	1.00
165_L	168_R	0.674	1.00
132_I	139_P	0.672	1.00
45_L	300_I	0.671	1.00
164_P	168_R	0.670	1.00
255_T	260_H	0.669	1.00
9_K	336_K	0.668	1.00
160_H	166_A	0.668	1.00
309_T	326_N	0.667	1.00
191_Q	195_I	0.666	1.00
20_C	34_C	0.665	1.00
113_D	119_G	0.665	1.00
265_S	268_K	0.665	1.00
244_L	250_I	0.665	1.00
260_H	263_H	0.664	1.00
215_D	221_L	0.663	1.00
89_S	92_F	0.661	1.00
257_V	260_H	0.660	1.00
162_E	166_A	0.660	1.00
114_Y	118_S	0.660	1.00
230_L	233_V	0.655	1.00
97_E	100_T	0.653	1.00
240_T	246_L	0.652	1.00
291_T	294_S	0.646	1.00
4_L	38_I	0.646	1.00
177_I	200_N	0.643	1.00
184_L	190_Y	0.642	1.00
201_I	204_V	0.640	1.00
251_N	259_D	0.640	1.00
17_R	322_I	0.639	1.00
331_T	364_T	0.638	1.00
110_S	114_Y	0.636	1.00
72_T	76_S	0.635	1.00
244_L	249_A	0.634	1.00
44_T	363_M	0.633	1.00
207_A	210_L	0.633	1.00
68_V	72_T	0.633	1.00
158_I	162_E	0.633	1.00
333_I	361_I	0.631	1.00
137_I	141_D	0.631	1.00
312_A	320_G	0.630	1.00
231_T	235_P	0.628	1.00
194_H	198_A	0.627	1.00
159_L	162_E	0.626	1.00
161_P	167_L	0.625	1.00
131_P	141_D	0.624	1.00
196_T	199_T	0.624	1.00
64_Y	67_D	0.624	1.00
53_L	314_I	0.623	1.00
283_S	289_I	0.622	1.00
75_A	80_I	0.622	1.00
66_E	69_V	0.622	1.00
321_E	324_E	0.621	1.00
131_P	135_Y	0.620	1.00
157_K	160_H	0.619	1.00
256_V	259_D	0.618	1.00
216_I	221_L	0.618	1.00
241_N	246_L	0.618	1.00
156_L	316_N	0.617	1.00
136_K	140_E	0.617	1.00
251_N	254_D	0.617	1.00
242_E	249_A	0.617	1.00
233_V	236_P	0.613	1.00
221_L	226_E	0.613	1.00
162_E	165_L	0.612	1.00
258_S	261_A	0.611	1.00
279_I	282_L	0.611	1.00
131_P	139_P	0.611	1.00
92_F	95_T	0.611	1.00
339_R	360_S	0.609	1.00
162_E	167_L	0.608	1.00
181_I	184_L	0.608	1.00
82_L	329_N	0.607	1.00
281_A	284_F	0.607	1.00
262_P	265_S	0.606	1.00
279_I	283_S	0.605	1.00
179_Y	182_G	0.605	1.00
275_C	279_I	0.604	1.00
59_G	63_A	0.604	1.00
102_K	106_F	0.603	1.00
133_A	138_F	0.603	1.00
289_I	303_A	0.602	1.00
133_A	136_K	0.601	1.00
149_E	153_S	0.601	1.00
278_G	282_L	0.600	1.00
113_D	120_V	0.599	1.00
113_D	329_N	0.599	1.00
13_S	321_E	0.597	1.00
113_D	116_V	0.597	1.00
131_P	136_K	0.596	1.00
145_E	150_V	0.595	1.00
132_I	135_Y	0.593	1.00
229_C	235_P	0.593	1.00
234_N	237_I	0.593	1.00
104_R	107_E	0.593	1.00
89_S	93_V	0.591	1.00
67_D	70_S	0.589	1.00
232_K	236_P	0.589	1.00
183_A	186_Y	0.589	1.00
178_W	206_L	0.587	1.00
167_L	170_N	0.584	1.00
111_R	114_Y	0.584	1.00
116_V	119_G	0.581	1.00
300_I	338_W	0.581	1.00
236_P	239_D	0.580	1.00
113_D	118_S	0.579	1.00
221_L	225_R	0.577	1.00
13_S	304_V	0.576	1.00
261_A	264_A	0.575	1.00
135_Y	139_P	0.574	1.00
76_S	364_T	0.574	1.00
204_V	207_A	0.572	1.00
68_V	71_G	0.568	1.00
134_G	138_F	0.567	1.00
98_T	102_K	0.566	1.00
220_H	223_V	0.562	1.00
66_E	70_S	0.560	1.00
151_L	157_K	0.560	1.00
193_V	198_A	0.559	1.00
158_I	161_P	0.559	1.00
130_F	140_E	0.558	1.00
148_L	157_K	0.557	1.00
132_I	138_F	0.557	1.00
283_S	288_F	0.555	1.00
193_V	197_H	0.554	1.00
251_N	260_H	0.554	1.00
59_G	72_T	0.554	1.00
229_C	232_K	0.554	1.00
256_V	306_L	0.553	1.00
80_I	285_T	0.553	1.00
145_E	148_L	0.550	1.00
191_Q	196_T	0.550	1.00
69_V	109_Y	0.549	1.00
166_A	171_R	0.548	1.00
253_V	257_V	0.547	1.00
228_E	231_T	0.546	1.00
19_V	30_I	0.543	1.00
52_D	55_T	0.542	1.00
19_V	27_I	0.541	1.00
337_D	340_Y	0.540	1.00
280_A	284_F	0.539	1.00
241_N	247_L	0.537	1.00
167_L	171_R	0.536	1.00
262_P	267_E	0.535	1.00
235_P	239_D	0.534	1.00
5_W	332_I	0.531	1.00
258_S	262_P	0.530	1.00
62_L	65_K	0.528	1.00
161_P	164_P	0.528	1.00
12_L	16_I	0.528	1.00
112_V	115_F	0.527	1.00
208_K	254_D	0.526	1.00
277_P	280_A	0.526	1.00
239_D	246_L	0.526	1.00
302_R	310_N	0.526	1.00
233_V	237_I	0.525	1.00
45_L	333_I	0.525	1.00
65_K	69_V	0.525	1.00
88_N	95_T	0.524	1.00
204_V	208_K	0.524	1.00
199_T	202_R	0.524	1.00
262_P	268_K	0.521	1.00
229_C	233_V	0.518	1.00
84_G	115_F	0.518	1.00
178_W	181_I	0.517	1.00
281_A	286_V	0.517	1.00
166_A	170_N	0.516	1.00
221_L	224_D	0.515	1.00
253_V	260_H	0.514	1.00
216_I	219_H	0.513	1.00
161_P	166_A	0.512	1.00
307_I	311_P	0.512	1.00
208_K	211_G	0.512	1.00
335_F	359_A	0.508	1.00
128_D	154_M	0.506	1.00
190_Y	196_T	0.506	1.00
252_E	257_V	0.505	1.00
298_I	302_R	0.503	1.00
298_I	303_A	0.503	1.00
29_E	34_C	0.502	1.00
102_K	107_E	0.500	1.00
263_H	267_E	0.500	1.00
114_Y	119_G	0.500	1.00
123_D	127_V	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
2ftyA	3	0.9974	100	0.289	Contact Map
3dc8A	3	0.9897	100	0.289	Contact Map
1gkrA	3	0.9949	100	0.298	Contact Map
1nfgA	3	0.9974	100	0.303	Contact Map
3e74A	3	0.9795	100	0.304	Contact Map
1gkpA	4	0.9949	100	0.304	Contact Map
2ftwA	3	0.9974	100	0.305	Contact Map
4lcqA	3	0.9974	100	0.307	Contact Map
3sfwA	3	0.9974	100	0.308	Contact Map
2vm8A	3	0.9974	100	0.323	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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