UVRX - BACSU - GREMLIN Contacts

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UVRX - Putative UV-damage repair protein UvrX

UniProt:	O31990	Sequences: MIDYSQFPRKNILCVDMKSFYASVSAVTMGLNPLTCYLAVVGNTDRQGSVVLAASPALKKDFGIKTGSRLFEIPEDPRIHIVNPQMKLFIRVSTEITKLFYRFVPEKCVHTYSIDESFLDAGKEDPEEMAKAIQSSMWREFGLMCTVGIGDNMLLSKLALDLESKKTKSGIARWRYEDVPNKLWKVRPLSKMWGIGGRMERNLNRMGISTIGQLAKFPLELLEKKFGIMGNQLYYHAHGIDLSEIGAPLMQGQISFGKSQILLRDYTRSEEIKAVLLEICEEVARRARTHNKVGRTISLGIGYSKDELGGGFHRSKTIDLPTSITMDIYRCCLMLFNKFYSGKTVRSVSVTLSNIEDDVNQQLSLFEVDNEKRRKLGFVMDGIRSKYGSKAILRAVSYTPAGTALQRAGLTGGHKS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	416 (356)
Sequences:	8748 (6159)
Seq/√Len:	326.4

ECOLI - UMUC DPO4
BACSU - UVRX DPO42 DPO41
HALSA - DPO4
SULSO - DPO4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
102_R	136_S	3.946	1.00
136_S	140_E	2.965	1.00
190_S	200_E	2.924	1.00
273_K	333_L	2.913	1.00
102_R	140_E	2.842	1.00
268_R	271_E	2.815	1.00
40_V	79_I	2.732	1.00
294_G	352_L	2.643	1.00
28_T	88_L	2.580	1.00
204_N	209_S	2.392	1.00
92_V	95_E	2.346	1.00
257_G	351_T	2.344	1.00
17_M	145_C	2.338	1.00
70_L	81_I	2.308	1.00
138_W	169_S	2.301	1.00
273_K	337_N	2.246	1.00
85_Q	88_L	2.230	1.00
135_S	139_R	2.225	1.00
132_A	136_S	2.163	1.00
209_S	213_Q	2.157	1.00
190_S	204_N	2.151	1.00
36_C	57_A	2.140	1.00
103_F	136_S	2.112	1.00
206_M	225_K	2.100	1.00
110_H	153_M	2.096	1.00
26_A	55_S	2.054	1.00
212_G	216_K	2.022	1.00
137_M	145_C	2.022	1.00
104_V	119_L	2.017	1.00
235_Y	240_I	2.000	1.00
234_Y	238_H	1.993	1.00
208_I	214_L	1.992	1.00
37_Y	80_H	1.965	1.00
223_E	231_N	1.965	1.00
269_S	337_N	1.932	1.00
184_W	215_A	1.924	1.00
184_W	212_G	1.905	1.00
17_M	96_I	1.900	1.00
208_I	217_F	1.892	1.00
283_V	352_L	1.887	1.00
28_T	85_Q	1.875	1.00
13_L	121_A	1.868	1.00
134_Q	169_S	1.859	1.00
17_M	143_L	1.836	1.00
287_A	352_L	1.804	1.00
97_T	117_S	1.762	1.00
175_R	178_D	1.755	1.00
296_T	354_N	1.752	1.00
219_L	231_N	1.742	1.00
232_Q	236_H	1.715	1.00
101_Y	109_V	1.654	1.00
277_L	329_Y	1.649	1.00
324_I	327_D	1.640	1.00
364_S	367_E	1.629	1.00
180_P	184_W	1.621	1.00
298_S	353_S	1.619	1.00
88_L	91_R	1.608	1.00
40_V	51_V	1.592	1.00
316_K	334_M	1.574	1.00
127_E	131_K	1.573	1.00
300_G	349_S	1.573	1.00
112_Y	118_F	1.561	1.00
280_C	328_I	1.559	1.00
27_V	92_V	1.554	1.00
323_S	358_D	1.545	1.00
57_A	61_D	1.541	1.00
134_Q	171_I	1.526	1.00
155_L	174_W	1.524	1.00
22_A	39_A	1.524	1.00
200_E	204_N	1.515	1.00
125_D	128_E	1.513	1.00
178_D	181_N	1.504	1.00
316_K	338_K	1.499	1.00
258_K	283_V	1.482	1.00
151_D	179_V	1.474	1.00
266_Y	272_I	1.471	1.00
210_T	213_Q	1.457	1.00
217_F	221_L	1.456	1.00
91_R	95_E	1.456	1.00
296_T	353_S	1.456	1.00
206_M	226_F	1.455	1.00
129_M	133_I	1.451	1.00
201_R	205_R	1.447	1.00
15_V	145_C	1.433	1.00
40_V	64_I	1.418	1.00
13_L	147_V	1.412	1.00
40_V	81_I	1.402	1.00
131_K	135_S	1.402	1.00
103_F	132_A	1.401	1.00
31_L	34_L	1.401	1.00
230_G	234_Y	1.400	1.00
284_A	325_T	1.391	1.00
25_S	89_F	1.389	1.00
332_C	350_V	1.384	1.00
231_N	235_Y	1.382	1.00
24_V	88_L	1.380	1.00
219_L	235_Y	1.373	1.00
130_A	147_V	1.368	1.00
26_A	35_T	1.363	1.00
69_R	72_E	1.362	1.00
280_C	350_V	1.359	1.00
130_A	149_I	1.354	1.00
62_F	78_R	1.344	1.00
281_E	325_T	1.343	1.00
149_I	171_I	1.338	1.00
264_R	271_E	1.332	1.00
287_A	294_G	1.329	1.00
100_F	119_L	1.325	1.00
293_V	356_E	1.322	1.00
219_L	234_Y	1.321	1.00
217_F	222_L	1.317	1.00
222_L	234_Y	1.307	1.00
284_A	328_I	1.304	1.00
24_V	92_V	1.304	1.00
19_S	23_S	1.303	1.00
295_R	354_N	1.301	1.00
127_E	173_R	1.298	1.00
259_S	349_S	1.292	1.00
269_S	273_K	1.291	1.00
99_L	140_E	1.287	1.00
318_I	331_C	1.282	1.00
13_L	130_A	1.280	1.00
131_K	134_Q	1.279	1.00
98_K	101_Y	1.267	1.00
180_P	215_A	1.257	1.00
267_T	344_T	1.256	1.00
118_F	193_W	1.249	1.00
288_R	381_D	1.245	1.00
302_G	311_G	1.245	1.00
22_A	26_A	1.245	1.00
258_K	286_R	1.243	1.00
72_E	75_E	1.241	1.00
256_F	290_H	1.235	1.00
331_C	334_M	1.227	1.00
150_G	155_L	1.226	1.00
329_Y	333_L	1.216	1.00
262_L	275_V	1.211	1.00
159_A	174_W	1.210	1.00
34_L	39_A	1.207	1.00
26_A	57_A	1.205	1.00
15_V	100_F	1.202	1.00
25_S	85_Q	1.199	1.00
202_N	225_K	1.185	1.00
62_F	76_D	1.182	1.00
198_R	201_R	1.179	1.00
88_L	92_V	1.176	1.00
258_K	282_E	1.176	1.00
99_L	136_S	1.175	1.00
327_D	331_C	1.169	1.00
56_P	61_D	1.168	1.00
213_Q	216_K	1.164	1.00
87_K	91_R	1.160	1.00
99_L	141_F	1.154	1.00
298_S	315_S	1.150	1.00
219_L	223_E	1.148	1.00
266_Y	271_E	1.146	1.00
316_K	331_C	1.143	1.00
218_P	221_L	1.140	1.00
280_C	284_A	1.132	1.00
31_L	82_V	1.132	1.00
333_L	337_N	1.130	1.00
100_F	117_S	1.128	1.00
221_L	225_K	1.128	1.00
262_L	266_Y	1.126	1.00
27_V	88_L	1.125	1.00
39_A	82_V	1.123	1.00
162_L	172_A	1.115	1.00
302_G	347_S	1.113	1.00
265_D	304_S	1.112	1.00
318_I	322_T	1.108	1.00
14_C	160_L	1.107	1.00
330_R	334_M	1.106	1.00
108_C	247_A	1.102	1.00
121_A	129_M	1.093	1.00
296_T	315_S	1.084	1.00
51_V	54_A	1.080	1.00
51_V	64_I	1.078	1.00
259_S	300_G	1.073	1.00
272_I	336_F	1.070	1.00
376_L	379_V	1.057	1.00
51_V	73_I	1.056	1.00
280_C	329_Y	1.050	1.00
192_M	211_I	1.050	1.00
362_Q	365_L	1.049	1.00
47_Q	74_P	1.049	1.00
26_A	36_C	1.048	1.00
215_A	238_H	1.047	1.00
97_T	111_T	1.046	1.00
103_F	133_I	1.044	1.00
54_A	66_T	1.037	1.00
295_R	356_E	1.032	1.00
371_E	375_K	1.030	1.00
150_G	156_S	1.026	1.00
27_V	142_G	1.025	1.00
275_V	278_E	1.023	1.00
296_T	317_T	1.020	1.00
322_T	327_D	1.014	1.00
128_E	132_A	1.006	1.00
295_R	321_P	1.001	1.00
284_A	288_R	0.999	1.00
15_V	119_L	0.998	1.00
52_L	84_P	0.995	1.00
201_R	204_N	0.994	1.00
161_D	191_K	0.983	1.00
265_D	346_R	0.982	1.00
299_L	335_L	0.982	1.00
227_G	230_G	0.982	1.00
124_E	129_M	0.979	1.00
71_F	75_E	0.977	1.00
292_K	357_D	0.977	1.00
163_E	172_A	0.975	1.00
96_I	141_F	0.975	1.00
293_V	323_S	0.974	1.00
19_S	56_P	0.973	1.00
22_A	53_A	0.970	1.00
158_L	186_V	0.969	1.00
28_T	92_V	0.959	1.00
295_R	317_T	0.957	1.00
280_C	332_C	0.949	1.00
334_M	338_K	0.947	1.00
288_R	323_S	0.946	1.00
20_F	24_V	0.946	1.00
64_I	79_I	0.945	1.00
42_G	70_L	0.941	1.00
317_T	354_N	0.941	1.00
112_Y	193_W	0.936	1.00
11_N	126_P	0.934	1.00
303_Y	343_K	0.934	1.00
86_M	90_I	0.931	1.00
68_S	72_E	0.930	1.00
260_Q	275_V	0.924	1.00
325_T	377_G	0.924	1.00
326_M	330_R	0.922	1.00
226_F	230_G	0.921	1.00
298_S	351_T	0.916	1.00
131_K	171_I	0.914	1.00
97_T	101_Y	0.905	1.00
130_A	171_I	0.903	1.00
301_I	348_V	0.902	1.00
265_D	344_T	0.901	1.00
105_P	108_C	0.897	1.00
276_L	299_L	0.897	1.00
276_L	348_V	0.888	1.00
138_W	142_G	0.885	1.00
229_M	232_Q	0.880	1.00
65_K	68_S	0.877	1.00
214_L	222_L	0.875	1.00
202_N	205_R	0.872	1.00
100_F	133_I	0.870	1.00
293_V	358_D	0.865	1.00
42_G	49_S	0.863	1.00
26_A	39_A	0.858	1.00
19_S	26_A	0.857	1.00
21_Y	86_M	0.856	1.00
276_L	336_F	0.855	1.00
276_L	332_C	0.855	1.00
379_V	383_I	0.853	1.00
283_V	350_V	0.851	1.00
221_L	224_K	0.850	1.00
185_K	212_G	0.849	1.00
95_E	98_K	0.849	1.00
154_L	236_H	0.842	1.00
215_A	237_A	0.839	1.00
40_V	76_D	0.834	1.00
222_L	226_F	0.832	1.00
90_I	94_T	0.830	1.00
189_L	204_N	0.827	1.00
153_M	245_I	0.822	1.00
358_D	374_R	0.818	1.00
138_W	144_M	0.817	1.00
178_D	182_K	0.816	1.00
297_I	331_C	0.816	1.00
321_P	356_E	0.816	1.00
374_R	378_F	0.815	1.00
325_T	329_Y	0.815	1.00
208_I	213_Q	0.813	1.00
259_S	347_S	0.812	1.00
37_Y	78_R	0.810	1.00
298_S	313_H	0.809	1.00
326_M	373_R	0.809	1.00
68_S	73_I	0.807	1.00
375_K	378_F	0.807	1.00
110_H	245_I	0.806	1.00
292_K	355_I	0.806	1.00
195_I	230_G	0.805	1.00
235_Y	242_L	0.804	1.00
132_A	135_S	0.803	1.00
168_K	172_A	0.801	1.00
220_E	224_K	0.797	1.00
188_P	204_N	0.796	1.00
316_K	335_L	0.793	1.00
276_L	329_Y	0.788	1.00
199_M	202_N	0.785	1.00
314_R	339_F	0.783	1.00
149_I	173_R	0.778	1.00
202_N	226_F	0.778	1.00
331_C	335_L	0.777	1.00
109_V	117_S	0.776	1.00
126_P	130_A	0.774	1.00
152_N	155_L	0.772	1.00
212_G	215_A	0.771	1.00
97_T	109_V	0.769	1.00
280_C	325_T	0.769	1.00
182_K	186_V	0.769	1.00
99_L	137_M	0.763	1.00
314_R	338_K	0.759	0.99
312_F	339_F	0.759	0.99
303_Y	312_F	0.758	0.99
104_V	109_V	0.758	0.99
54_A	64_I	0.758	0.99
188_P	191_K	0.757	0.99
95_E	141_F	0.756	0.99
76_D	79_I	0.755	0.99
121_A	130_A	0.754	0.99
378_F	382_G	0.754	0.99
314_R	335_L	0.752	0.99
93_S	97_T	0.751	0.99
127_E	171_I	0.748	0.99
274_A	278_E	0.748	0.99
277_L	333_L	0.741	0.99
269_S	336_F	0.735	0.99
301_I	339_F	0.734	0.99
58_L	79_I	0.728	0.99
286_R	290_H	0.728	0.99
199_M	226_F	0.725	0.99
189_L	208_I	0.725	0.99
174_W	182_K	0.722	0.99
99_L	103_F	0.720	0.99
111_T	114_I	0.718	0.99
206_M	217_F	0.717	0.99
218_P	238_H	0.716	0.99
38_L	76_D	0.714	0.99
17_M	20_F	0.714	0.99
147_V	171_I	0.713	0.99
74_P	81_I	0.712	0.99
195_I	233_L	0.711	0.99
43_N	49_S	0.711	0.99
51_V	81_I	0.710	0.99
52_L	66_T	0.710	0.99
273_K	277_L	0.709	0.99
22_A	55_S	0.709	0.99
41_V	82_V	0.709	0.99
270_E	273_K	0.709	0.99
54_A	60_K	0.706	0.99
42_G	81_I	0.705	0.99
99_L	102_R	0.705	0.99
214_L	234_Y	0.705	0.99
282_E	285_R	0.705	0.99
281_E	285_R	0.704	0.99
241_D	244_E	0.704	0.99
297_I	328_I	0.703	0.99
260_Q	282_E	0.703	0.99
118_F	153_M	0.702	0.99
108_C	120_D	0.700	0.99
108_C	244_E	0.700	0.99
136_S	139_R	0.700	0.99
73_I	76_D	0.699	0.99
12_I	245_I	0.697	0.99
328_I	332_C	0.697	0.99
21_Y	84_P	0.696	0.99
53_A	60_K	0.696	0.99
103_F	129_M	0.693	0.99
272_I	348_V	0.689	0.99
320_L	327_D	0.689	0.99
34_L	80_H	0.687	0.99
21_Y	114_I	0.686	0.99
12_I	120_D	0.682	0.99
44_T	83_N	0.682	0.99
134_Q	147_V	0.681	0.99
56_P	60_K	0.681	0.99
135_S	138_W	0.674	0.99
44_T	47_Q	0.674	0.99
18_K	146_T	0.673	0.99
92_V	141_F	0.673	0.99
128_E	131_K	0.672	0.99
266_Y	275_V	0.671	0.99
325_T	381_D	0.666	0.99
92_V	143_L	0.666	0.99
206_M	221_L	0.664	0.99
180_P	216_K	0.663	0.99
322_T	328_I	0.662	0.99
37_Y	57_A	0.661	0.99
274_A	277_L	0.660	0.99
226_F	233_L	0.658	0.99
87_K	90_I	0.654	0.99
36_C	55_S	0.653	0.98
71_F	74_P	0.653	0.98
189_L	203_L	0.652	0.98
279_I	348_V	0.652	0.98
98_K	102_R	0.652	0.98
129_M	132_A	0.651	0.98
253_Q	290_H	0.650	0.98
108_C	123_K	0.650	0.98
43_N	83_N	0.649	0.98
257_G	349_S	0.642	0.98
375_K	379_V	0.641	0.98
288_R	325_T	0.639	0.98
371_E	374_R	0.639	0.98
32_N	35_T	0.639	0.98
74_P	79_I	0.635	0.98
181_N	184_W	0.635	0.98
151_D	155_L	0.635	0.98
277_L	281_E	0.632	0.98
74_P	77_P	0.631	0.98
293_V	355_I	0.630	0.98
121_A	124_E	0.629	0.98
219_L	230_G	0.629	0.98
73_I	79_I	0.629	0.98
160_L	163_E	0.626	0.98
328_I	352_L	0.626	0.98
327_D	330_R	0.624	0.98
256_F	286_R	0.623	0.98
186_V	191_K	0.616	0.98
261_I	347_S	0.615	0.98
269_S	340_Y	0.614	0.98
40_V	70_L	0.610	0.98
301_I	345_V	0.609	0.98
50_V	66_T	0.607	0.98
155_L	179_V	0.606	0.98
271_E	274_A	0.606	0.98
256_F	292_K	0.606	0.98
367_E	370_N	0.606	0.98
357_D	360_N	0.606	0.98
285_R	289_T	0.605	0.98
272_I	345_V	0.604	0.98
189_L	200_E	0.603	0.97
303_Y	307_E	0.603	0.97
144_M	163_E	0.603	0.97
95_E	140_E	0.603	0.97
283_V	297_I	0.602	0.97
179_V	182_K	0.602	0.97
300_G	313_H	0.601	0.97
336_F	340_Y	0.600	0.97
223_E	230_G	0.600	0.97
84_P	89_F	0.599	0.97
318_I	321_P	0.598	0.97
270_E	274_A	0.598	0.97
214_L	226_F	0.596	0.97
303_Y	345_V	0.595	0.97
185_K	210_T	0.593	0.97
25_S	31_L	0.591	0.97
304_S	343_K	0.589	0.97
193_W	236_H	0.589	0.97
276_L	333_L	0.588	0.97
34_L	82_V	0.587	0.97
163_E	170_G	0.586	0.97
25_S	28_T	0.586	0.97
352_L	355_I	0.586	0.97
277_L	325_T	0.583	0.97
197_G	201_R	0.582	0.97
236_H	241_D	0.581	0.97
312_F	315_S	0.578	0.97
316_K	319_D	0.578	0.97
324_I	373_R	0.575	0.97
24_V	28_T	0.574	0.97
100_F	109_V	0.574	0.97
23_S	53_A	0.574	0.97
223_E	228_I	0.573	0.97
275_V	348_V	0.572	0.97
18_K	163_E	0.570	0.96
126_P	129_M	0.567	0.96
113_S	116_E	0.565	0.96
104_V	129_M	0.562	0.96
233_L	236_H	0.561	0.96
90_I	114_I	0.560	0.96
179_V	183_L	0.560	0.96
24_V	27_V	0.560	0.96
304_S	346_R	0.557	0.96
291_N	358_D	0.555	0.96
327_D	370_N	0.554	0.96
180_P	238_H	0.553	0.96
116_E	157_K	0.553	0.96
214_L	237_A	0.550	0.96
158_L	193_W	0.547	0.96
184_W	216_K	0.547	0.96
284_A	332_C	0.547	0.96
53_A	66_T	0.545	0.95
294_G	355_I	0.543	0.95
154_L	233_L	0.543	0.95
27_V	95_E	0.543	0.95
94_T	98_K	0.543	0.95
362_Q	366_F	0.543	0.95
19_S	60_K	0.543	0.95
294_G	297_I	0.543	0.95
70_L	76_D	0.542	0.95
13_L	149_I	0.539	0.95
70_L	74_P	0.539	0.95
211_I	237_A	0.538	0.95
137_M	141_F	0.537	0.95
104_V	108_C	0.536	0.95
219_L	238_H	0.536	0.95
15_V	147_V	0.535	0.95
18_K	56_P	0.535	0.95
152_N	241_D	0.534	0.95
54_A	68_S	0.534	0.95
231_N	234_Y	0.534	0.95
326_M	329_Y	0.533	0.95
58_L	76_D	0.532	0.95
202_N	227_G	0.531	0.95
301_I	336_F	0.531	0.95
100_F	104_V	0.527	0.95
324_I	377_G	0.525	0.94
271_E	275_V	0.522	0.94
51_V	79_I	0.521	0.94
162_L	191_K	0.520	0.94
100_F	111_T	0.518	0.94
13_L	126_P	0.517	0.94
235_Y	238_H	0.516	0.94
256_F	287_A	0.516	0.94
52_L	86_M	0.515	0.94
228_I	232_Q	0.513	0.94
258_K	279_I	0.512	0.94
299_L	336_F	0.512	0.94
181_N	185_K	0.511	0.94
154_L	158_L	0.510	0.94
134_Q	145_C	0.510	0.94
86_M	114_I	0.509	0.94
195_I	214_L	0.508	0.93
336_F	339_F	0.508	0.93
17_M	24_V	0.507	0.93
38_L	42_G	0.507	0.93
97_T	100_F	0.506	0.93
60_K	66_T	0.506	0.93
273_K	329_Y	0.506	0.93
230_G	233_L	0.506	0.93
43_N	47_Q	0.505	0.93
373_R	376_L	0.505	0.93
26_A	31_L	0.503	0.93
210_T	215_A	0.503	0.93
356_E	359_V	0.503	0.93
20_F	96_I	0.501	0.93
65_K	72_E	0.500	0.93
144_M	169_S	0.500	0.93
261_I	265_D	0.500	0.93

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
4f50A	1	0.7861	100	0.178	Contact Map
4dezA	2	0.5457	100	0.186	Contact Map
3gqcA	3	0.8197	100	0.199	Contact Map
4q45F	1	0.8029	100	0.199	Contact Map
3pzpA	1	0.8149	100	0.204	Contact Map
4tqrA	1	0.7933	100	0.208	Contact Map
1t94A	1	0.8005	100	0.209	Contact Map
3osnA	1	0.8029	100	0.217	Contact Map
4ecqA	1	0.8221	100	0.221	Contact Map
2aq4A	1	0.8365	100	0.223	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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