UBII - ECOLI - GREMLIN Contacts

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UBII - 2-octaprenylphenol hydroxylase

UniProt:	P25535	Sequences: MQSVDVAIVGGGMVGLAVACGLQGSGLRVAVLEQRVQEPLAANAPPQLRVSAINAASEKLLTRLGVWQDILSRRASCYHGMEVWDKDSFGHISFDDQSMGYSHLGHIVENSVIHYALWNKAHQSSDITLLAPAELQQVAWGENETFLTLKDGSMLTARLVIGADGANSWLRNKADIPLTFWDYQHHALVATIRTEEPHDAVARQVFHGEGILAFLPLSDPHLCSIVWSLSPEEAQRMQQASEDEFNRALNIAFDNRLGLCKVESARQVFPLTGRYARQFASHRLALVGDAAHTIHPLAGQGVNLGFMDAAELIAELKRLHRQGKDIGQYIYLRRYERSRKHSAALMLAGMQGFRDLFSGTNPAKKLLRDIGLKLADTLPGVKPQLIRQAMGLNDLPEWLR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11333
Length:	400 (343)
Sequences:	26807 (20411)
Seq/√Len:	1102.1

ECOLI - UBII UBIH UBIF MHPA FIXC YDIS YGCN CBRA
BACSU - YHJG YETM
HALSA - Q9HS01 Q9HQE5 Q9HMA0 Q9HS24
SULSO - Q97V18 Q97V59 Q97ZK8 Q97W83 Q97W89

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
30_A	130_L	4.264	1.00
34_Q	134_E	3.621	1.00
14_V	305_G	3.602	1.00
7_A	157_A	3.503	1.00
5_D	28_R	3.469	1.00
5_D	158_R	3.284	1.00
336_E	340_K	3.078	1.00
137_Q	173_K	2.709	1.00
134_E	150_K	2.708	1.00
32_L	155_L	2.635	1.00
120_K	123_Q	2.623	1.00
18_V	161_I	2.599	1.00
146_F	154_M	2.511	1.00
133_A	151_D	2.500	1.00
21_G	313_I	2.445	1.00
69_D	119_N	2.407	1.00
7_A	32_L	2.405	1.00
25_S	317_K	2.397	1.00
137_Q	148_T	2.378	1.00
115_Y	119_N	2.355	1.00
139_A	146_F	2.346	1.00
146_F	156_T	2.339	1.00
7_A	147_L	2.293	1.00
148_T	154_M	2.293	1.00
17_A	306_F	2.165	1.00
14_V	287_V	2.147	1.00
162_G	170_L	2.134	1.00
130_L	133_A	2.126	1.00
136_Q	150_K	2.111	1.00
62_T	67_W	2.073	1.00
133_A	149_L	2.012	1.00
241_S	244_E	1.979	1.00
315_E	338_S	1.962	1.00
6_V	27_L	1.948	1.00
28_R	128_T	1.933	1.00
139_A	148_T	1.926	1.00
36_V	132_P	1.920	1.00
247_R	251_I	1.903	1.00
20_C	120_K	1.873	1.00
69_D	120_K	1.870	1.00
5_D	30_A	1.863	1.00
141_G	146_F	1.846	1.00
32_L	149_L	1.826	1.00
162_G	286_L	1.816	1.00
60_L	310_A	1.811	1.00
280_A	333_R	1.807	1.00
149_L	155_L	1.783	1.00
340_K	344_A	1.767	1.00
315_E	334_R	1.761	1.00
309_A	313_I	1.758	1.00
57_S	303_N	1.750	1.00
278_Q	281_S	1.748	1.00
6_V	22_L	1.739	1.00
27_L	317_K	1.715	1.00
163_A	287_V	1.709	1.00
141_G	144_E	1.706	1.00
135_L	147_L	1.698	1.00
23_Q	127_I	1.698	1.00
121_A	127_I	1.696	1.00
140_W	281_S	1.685	1.00
246_N	250_N	1.674	1.00
141_G	156_T	1.672	1.00
63_R	310_A	1.665	1.00
68_Q	72_S	1.661	1.00
69_D	123_Q	1.620	1.00
164_D	168_S	1.619	1.00
138_V	160_V	1.611	1.00
327_G	330_I	1.591	1.00
280_A	285_A	1.584	1.00
30_A	155_L	1.564	1.00
69_D	72_S	1.562	1.00
311_E	315_E	1.561	1.00
169_W	173_K	1.555	1.00
118_W	131_A	1.550	1.00
19_A	31_V	1.542	1.00
7_A	155_L	1.536	1.00
144_E	156_T	1.518	1.00
20_C	24_G	1.515	1.00
18_V	309_A	1.509	1.00
244_E	247_R	1.486	1.00
118_W	122_H	1.451	1.00
174_A	284_L	1.445	1.00
159_L	332_L	1.441	1.00
311_E	338_S	1.440	1.00
9_V	135_L	1.436	1.00
90_G	93_S	1.432	1.00
279_F	343_A	1.424	1.00
263_E	266_R	1.407	1.00
21_G	64_L	1.406	1.00
67_W	71_L	1.405	1.00
13_M	302_V	1.397	1.00
278_Q	336_E	1.396	1.00
285_A	312_L	1.392	1.00
193_R	262_V	1.391	1.00
243_D	247_R	1.386	1.00
308_D	339_R	1.383	1.00
307_M	342_S	1.382	1.00
279_F	336_E	1.351	1.00
85_D	88_S	1.342	1.00
242_E	246_N	1.331	1.00
161_I	287_V	1.327	1.00
314_A	338_S	1.320	1.00
315_E	331_Y	1.320	1.00
169_W	172_N	1.307	1.00
9_V	164_D	1.307	1.00
273_G	351_Q	1.305	1.00
8_I	18_V	1.293	1.00
130_L	155_L	1.290	1.00
20_C	121_A	1.279	1.00
57_S	306_F	1.278	1.00
247_R	250_N	1.277	1.00
136_Q	148_T	1.269	1.00
74_R	112_V	1.268	1.00
135_L	170_L	1.259	1.00
120_K	125_S	1.258	1.00
119_N	122_H	1.253	1.00
139_A	154_M	1.249	1.00
18_V	22_L	1.229	1.00
30_A	128_T	1.224	1.00
292_H	308_D	1.224	1.00
7_A	30_A	1.212	1.00
135_L	138_V	1.202	1.00
240_A	244_E	1.195	1.00
315_E	318_R	1.189	1.00
68_Q	71_L	1.183	1.00
23_Q	126_D	1.182	1.00
177_P	277_R	1.179	1.00
253_F	256_R	1.176	1.00
17_A	64_L	1.175	1.00
31_V	129_L	1.175	1.00
179_T	277_R	1.174	1.00
9_V	170_L	1.166	1.00
280_A	336_E	1.160	1.00
193_R	222_L	1.158	1.00
140_W	283_R	1.157	1.00
286_L	290_A	1.156	1.00
248_A	252_A	1.151	1.00
5_D	27_L	1.150	1.00
147_L	157_A	1.148	1.00
51_S	302_V	1.134	1.00
138_V	173_K	1.133	1.00
161_I	285_A	1.133	1.00
254_D	257_L	1.125	1.00
166_A	293_T	1.119	1.00
32_L	130_L	1.117	1.00
133_A	153_S	1.115	1.00
145_T	283_R	1.109	1.00
140_W	145_T	1.109	1.00
112_V	115_Y	1.109	1.00
109_E	112_V	1.099	1.00
248_A	251_I	1.092	1.00
294_I	304_L	1.091	1.00
18_V	287_V	1.087	1.00
69_D	116_A	1.082	1.00
11_G	16_L	1.080	1.00
24_G	120_K	1.079	1.00
8_I	19_A	1.063	1.00
344_A	348_A	1.062	1.00
157_A	160_V	1.056	1.00
118_W	129_L	1.050	1.00
58_E	67_W	1.050	1.00
149_L	152_G	1.045	1.00
63_R	314_A	1.042	1.00
8_I	29_V	1.029	1.00
287_V	335_Y	1.029	1.00
89_F	93_S	1.028	1.00
16_L	121_A	1.020	1.00
19_A	29_V	1.018	1.00
29_V	127_I	1.010	1.00
280_A	329_Y	1.005	1.00
119_N	123_Q	1.005	1.00
245_F	253_F	1.001	1.00
37_Q	131_A	0.998	1.00
20_C	125_S	0.995	1.00
32_L	133_A	0.986	1.00
17_A	21_G	0.978	1.00
9_V	160_V	0.977	1.00
162_G	284_L	0.977	1.00
333_R	337_R	0.977	1.00
242_E	266_R	0.972	1.00
334_R	337_R	0.971	1.00
233_E	236_R	0.968	1.00
294_I	347_L	0.963	1.00
243_D	246_N	0.963	1.00
66_V	120_K	0.963	1.00
351_Q	355_D	0.961	1.00
138_V	174_A	0.958	1.00
135_L	169_W	0.956	1.00
276_A	286_L	0.947	1.00
135_L	173_K	0.945	1.00
249_L	253_F	0.945	1.00
311_E	314_A	0.931	1.00
193_R	261_K	0.931	1.00
240_A	245_F	0.929	1.00
56_A	307_M	0.925	1.00
13_M	306_F	0.924	1.00
24_G	125_S	0.924	1.00
244_E	248_A	0.923	1.00
318_R	334_R	0.918	1.00
20_C	64_L	0.918	1.00
59_K	62_T	0.915	1.00
51_S	110_N	0.915	1.00
252_A	256_R	0.914	1.00
285_A	335_Y	0.911	1.00
30_A	157_A	0.906	1.00
27_L	320_H	0.901	1.00
116_A	120_K	0.901	1.00
80_G	201_V	0.900	1.00
16_L	118_W	0.899	1.00
22_L	27_L	0.898	1.00
274_R	293_T	0.896	1.00
5_D	157_A	0.894	1.00
70_I	116_A	0.894	1.00
66_V	116_A	0.891	1.00
70_I	113_I	0.887	1.00
145_T	160_V	0.886	1.00
280_A	332_L	0.885	1.00
56_A	300_Q	0.883	1.00
116_A	119_N	0.879	1.00
38_E	118_W	0.877	1.00
138_V	170_L	0.873	1.00
170_L	284_L	0.871	1.00
122_H	128_T	0.870	1.00
245_F	250_N	0.870	1.00
194_T	197_P	0.867	1.00
176_I	276_A	0.865	1.00
23_Q	29_V	0.864	1.00
49_R	110_N	0.863	1.00
11_G	33_E	0.861	1.00
52_A	105_G	0.857	1.00
21_G	25_S	0.853	1.00
328_Q	331_Y	0.850	1.00
147_L	160_V	0.849	1.00
75_A	106_H	0.849	1.00
33_E	131_A	0.848	1.00
32_L	157_A	0.847	1.00
223_C	226_V	0.847	1.00
26_G	29_V	0.846	1.00
58_E	106_H	0.845	1.00
328_Q	332_L	0.844	1.00
213_A	226_V	0.843	1.00
48_L	51_S	0.843	1.00
140_W	282_H	0.842	1.00
286_L	291_A	0.841	1.00
174_A	281_S	0.840	1.00
176_I	281_S	0.839	1.00
23_Q	121_A	0.838	1.00
319_L	334_R	0.837	1.00
80_G	93_S	0.837	1.00
138_V	284_L	0.832	1.00
329_Y	333_R	0.826	1.00
62_T	71_L	0.826	1.00
23_Q	122_H	0.823	1.00
16_L	114_H	0.814	1.00
279_F	291_A	0.812	1.00
74_R	115_Y	0.811	1.00
52_A	107_I	0.809	1.00
249_L	252_A	0.806	1.00
190_A	225_I	0.803	1.00
56_A	59_K	0.802	1.00
91_H	94_F	0.800	1.00
313_I	317_K	0.797	1.00
91_H	95_D	0.796	1.00
89_F	94_F	0.795	1.00
310_A	314_A	0.790	1.00
255_N	258_G	0.788	1.00
93_S	96_D	0.786	1.00
334_R	338_S	0.784	1.00
317_K	321_R	0.783	1.00
294_I	298_A	0.782	1.00
5_D	155_L	0.778	1.00
22_L	313_I	0.778	1.00
266_R	269_F	0.776	1.00
203_R	206_F	0.776	1.00
279_F	340_K	0.775	1.00
77_C	104_L	0.773	1.00
245_F	249_L	0.763	1.00
21_G	60_L	0.761	1.00
82_E	201_V	0.760	1.00
114_H	118_W	0.758	1.00
251_I	254_D	0.758	1.00
23_Q	128_T	0.757	1.00
159_L	285_A	0.757	1.00
22_L	316_L	0.756	1.00
110_N	114_H	0.755	1.00
21_G	24_G	0.755	1.00
122_H	126_D	0.751	1.00
93_S	97_Q	0.749	1.00
254_D	258_G	0.749	1.00
19_A	127_I	0.746	1.00
122_H	127_I	0.745	1.00
161_I	312_L	0.744	1.00
32_L	147_L	0.744	1.00
121_A	126_D	0.739	1.00
341_H	345_L	0.738	1.00
175_D	178_L	0.737	1.00
61_L	66_V	0.735	1.00
61_L	306_F	0.734	1.00
19_A	121_A	0.732	1.00
202_A	205_V	0.732	1.00
193_R	220_P	0.731	1.00
112_V	218_S	0.731	1.00
338_S	341_H	0.726	1.00
298_A	350_M	0.726	1.00
275_Y	344_A	0.724	1.00
257_L	260_C	0.719	1.00
187_A	191_T	0.719	1.00
224_S	228_S	0.719	1.00
281_S	284_L	0.718	1.00
17_A	117_L	0.716	1.00
130_L	153_S	0.715	1.00
58_E	62_T	0.714	1.00
201_V	204_Q	0.712	1.00
162_G	168_S	0.711	1.00
343_A	347_L	0.710	1.00
253_F	257_L	0.710	1.00
108_V	113_I	0.709	1.00
276_A	279_F	0.707	1.00
109_E	218_S	0.705	1.00
293_T	308_D	0.702	1.00
256_R	259_L	0.701	1.00
18_V	313_I	0.700	1.00
84_W	203_R	0.695	1.00
271_L	295_H	0.694	1.00
300_Q	304_L	0.693	1.00
304_L	346_M	0.692	1.00
69_D	74_R	0.692	1.00
145_T	149_L	0.689	1.00
60_L	64_L	0.688	1.00
180_F	183_Y	0.688	1.00
25_S	313_I	0.687	1.00
302_V	306_F	0.687	1.00
304_L	343_A	0.686	1.00
275_Y	279_F	0.686	1.00
121_A	129_L	0.686	1.00
6_V	159_L	0.685	1.00
194_T	223_C	0.685	1.00
168_S	171_R	0.683	1.00
89_F	96_D	0.679	1.00
171_R	286_L	0.679	1.00
188_L	191_T	0.675	1.00
16_L	31_V	0.674	1.00
134_E	169_W	0.672	1.00
57_S	60_L	0.671	1.00
319_L	327_G	0.671	1.00
330_I	334_R	0.670	1.00
140_W	144_E	0.668	1.00
202_A	206_F	0.667	1.00
282_H	329_Y	0.667	1.00
224_S	229_L	0.666	1.00
74_R	116_A	0.665	1.00
21_G	310_A	0.664	1.00
23_Q	125_S	0.660	1.00
20_C	23_Q	0.656	1.00
170_L	173_K	0.655	1.00
29_V	121_A	0.654	1.00
133_A	150_K	0.653	1.00
253_F	258_G	0.650	1.00
297_L	354_R	0.650	1.00
56_A	342_S	0.648	1.00
249_L	259_L	0.647	1.00
250_N	257_L	0.646	1.00
275_Y	340_K	0.646	1.00
160_V	284_L	0.645	1.00
84_W	88_S	0.644	1.00
250_N	255_N	0.642	1.00
302_V	305_G	0.640	1.00
359_G	362_P	0.638	1.00
159_L	320_H	0.637	1.00
11_G	31_V	0.634	1.00
54_N	303_N	0.633	1.00
35_R	45_P	0.631	1.00
294_I	350_M	0.630	1.00
253_F	259_L	0.629	1.00
240_A	248_A	0.627	1.00
162_G	169_W	0.625	1.00
178_L	274_R	0.624	1.00
333_R	336_E	0.623	1.00
17_A	61_L	0.621	1.00
159_L	316_L	0.621	1.00
135_L	149_L	0.621	1.00
6_V	18_V	0.621	1.00
187_A	190_A	0.618	1.00
285_A	332_L	0.618	1.00
162_G	174_A	0.618	1.00
90_G	94_F	0.617	1.00
246_N	249_L	0.614	1.00
250_N	254_D	0.613	1.00
353_F	356_L	0.613	1.00
345_L	348_A	0.612	1.00
230_S	233_E	0.611	1.00
149_L	153_S	0.609	1.00
287_V	309_A	0.608	1.00
327_G	331_Y	0.608	1.00
319_L	331_Y	0.604	1.00
172_N	177_P	0.601	1.00
300_Q	303_N	0.601	1.00
20_C	127_I	0.600	1.00
159_L	328_Q	0.600	1.00
267_Q	271_L	0.599	1.00
295_H	298_A	0.597	1.00
38_E	131_A	0.596	1.00
268_V	271_L	0.595	1.00
74_R	77_C	0.595	1.00
70_I	106_H	0.593	1.00
241_S	245_F	0.591	1.00
267_Q	270_P	0.587	1.00
16_L	129_L	0.586	1.00
28_R	158_R	0.584	1.00
29_V	126_D	0.582	1.00
314_A	318_R	0.582	1.00
62_T	103_H	0.582	1.00
337_R	341_H	0.581	1.00
164_D	286_L	0.581	1.00
186_H	231_P	0.580	1.00
348_A	352_G	0.580	1.00
352_G	355_D	0.577	1.00
218_S	222_L	0.576	1.00
59_K	63_R	0.576	1.00
319_L	330_I	0.574	1.00
67_W	70_I	0.573	1.00
62_T	68_Q	0.572	1.00
183_Y	351_Q	0.570	1.00
53_I	57_S	0.570	1.00
27_L	321_R	0.569	1.00
307_M	339_R	0.568	1.00
289_D	305_G	0.567	1.00
351_Q	354_R	0.565	1.00
292_H	339_R	0.562	1.00
180_F	274_R	0.562	1.00
191_T	222_L	0.562	1.00
18_V	163_A	0.562	1.00
250_N	259_L	0.561	1.00
89_F	92_I	0.559	1.00
215_L	224_S	0.559	1.00
14_V	161_I	0.558	1.00
29_V	128_T	0.558	1.00
285_A	336_E	0.556	1.00
61_L	113_I	0.556	1.00
60_L	63_R	0.556	1.00
176_I	181_W	0.556	1.00
250_N	256_R	0.555	1.00
225_I	228_S	0.555	1.00
185_H	189_V	0.555	1.00
185_H	297_L	0.554	1.00
190_A	194_T	0.553	1.00
271_L	274_R	0.551	1.00
256_R	260_C	0.551	1.00
91_H	96_D	0.551	1.00
82_E	91_H	0.550	1.00
211_I	215_L	0.550	1.00
85_D	89_F	0.549	1.00
37_Q	45_P	0.547	1.00
249_L	256_R	0.547	1.00
158_R	283_R	0.545	1.00
311_E	335_Y	0.545	1.00
184_Q	189_V	0.545	1.00
219_D	222_L	0.545	1.00
92_I	96_D	0.544	1.00
20_C	66_V	0.544	1.00
298_A	353_F	0.544	1.00
10_G	15_G	0.542	1.00
61_L	70_I	0.541	1.00
158_R	320_H	0.540	1.00
139_A	142_E	0.539	1.00
18_V	316_L	0.538	1.00
210_G	217_L	0.537	1.00
330_I	333_R	0.536	1.00
112_V	116_A	0.536	1.00
167_N	172_N	0.535	1.00
18_V	21_G	0.534	1.00
213_A	217_L	0.533	1.00
307_M	311_E	0.533	1.00
90_G	95_D	0.532	1.00
21_G	309_A	0.530	1.00
160_V	170_L	0.530	1.00
147_L	155_L	0.530	1.00
315_E	319_L	0.528	1.00
253_F	260_C	0.527	1.00
109_E	222_L	0.527	1.00
144_E	158_R	0.527	1.00
345_L	349_G	0.527	1.00
24_G	63_R	0.527	1.00
305_G	309_A	0.526	1.00
246_N	257_L	0.525	1.00
36_V	131_A	0.525	1.00
79_H	200_A	0.524	1.00
160_V	283_R	0.524	1.00
89_F	95_D	0.524	1.00
96_D	99_M	0.523	1.00
269_F	272_T	0.520	1.00
91_H	97_Q	0.520	1.00
54_N	57_S	0.518	1.00
92_I	95_D	0.518	1.00
352_G	356_L	0.517	1.00
122_H	131_A	0.517	1.00
215_L	218_S	0.517	1.00
94_F	97_Q	0.517	1.00
186_H	189_V	0.515	1.00
11_G	129_L	0.512	1.00
176_I	183_Y	0.510	1.00
186_H	268_V	0.508	1.00
335_Y	339_R	0.507	1.00
217_L	220_P	0.507	1.00
225_I	229_L	0.506	1.00
164_D	171_R	0.504	1.00
74_R	108_V	0.504	1.00
229_L	233_E	0.503	1.00
254_D	259_L	0.502	1.00
132_P	151_D	0.501	1.00
287_V	305_G	0.501	1.00
186_H	190_A	0.501	1.00
252_A	257_L	0.500	1.00
222_L	225_I	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
4n9xA	5	0.9275	100	0.25	Contact Map
2qa1A	2	0.9325	100	0.292	Contact Map
2qa2A	2	0.9425	100	0.295	Contact Map
4k22A	4	0.89	100	0.302	Contact Map
4k5sA	2	0.945	100	0.303	Contact Map
1pn0A	3	0.96	100	0.307	Contact Map
4k2xA	2	0.93	100	0.319	Contact Map
2x3nA	1	0.875	100	0.325	Contact Map
2dkhA	2	0.9025	100	0.327	Contact Map
1k0iA	2	0.955	100	0.328	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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