YKRP - BACSU - GREMLIN Contacts

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YKRP - Putative membrane-bound acyltransferase YkrP

UniProt:	O31660	Sequences: MSKSRDSYFDNAKFLLIFLVVFGHILRSFINDNHFMLYLYKFIYTFHMPAFILVSGYFAKGFKRAGYVKKLAVKLIIPYLIFQIIYSVFYYIMQDESMANVNPIDPQWSLWFLVSLFFWNLLLYPFSKLSKQWALFVSCGIAVLIGYLDFVSSTLSLSRTFVFLPMFLVGFYLNKHHFDLLRSKRGKQIALGVLAAVFVICWGIDFDYSFLFGSKPYSSFGDVTLVSGLSRIGWYVLAFGATFSFLALVPQKRYFFTKWGTRTFYVYLLHGFIIKTLRQVGLEDWLTDYQSLVILLLLTAALTSVLSSNFVKTVAQPFIELRMTSLLQFVRGTGKNAYLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	340 (298)
Sequences:	15156 (13317)
Seq/√Len:	771.4

ECOLI - OPGC YCFT YIAH
BACSU - YKRP YFIQ YRHL

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
258_K	262_R	3.605	1.00
5_R	10_D	3.558	1.00
304_S	308_S	3.383	1.00
21_V	266_V	3.269	1.00
16_L	50_A	3.194	1.00
269_L	306_L	3.189	1.00
311_V	314_V	3.075	1.00
60_K	171_F	3.040	1.00
72_A	76_I	3.029	1.00
10_D	261_T	2.668	1.00
299_T	303_T	2.656	1.00
68_V	124_Y	2.627	1.00
14_F	260_G	2.475	1.00
262_R	304_S	2.413	1.00
112_F	116_L	2.385	1.00
258_K	304_S	2.339	1.00
79_Y	110_L	2.317	1.00
25_I	274_I	2.161	1.00
82_F	269_L	2.151	1.00
76_I	80_L	2.149	1.00
49_P	166_M	2.127	1.00
308_S	312_K	2.010	1.00
61_G	174_N	1.999	1.00
311_V	315_A	1.937	1.00
44_Y	47_H	1.926	1.00
57_Y	177_H	1.902	1.00
58_F	61_G	1.897	1.00
11_N	252_K	1.874	1.00
14_F	263_T	1.842	1.00
258_K	308_S	1.827	1.00
10_D	257_T	1.799	1.00
69_K	73_V	1.783	1.00
52_I	115_S	1.777	1.00
14_F	259_W	1.773	1.00
199_V	203_G	1.739	1.00
305_V	309_N	1.723	1.00
108_W	271_G	1.705	1.00
227_S	231_R	1.700	1.00
17_I	266_V	1.687	1.00
193_V	197_V	1.676	1.00
12_A	50_A	1.663	1.00
313_T	316_Q	1.642	1.00
142_A	146_G	1.640	1.00
184_K	187_K	1.627	1.00
313_T	317_P	1.627	1.00
82_F	268_L	1.626	1.00
60_K	123_L	1.611	1.00
200_I	204_I	1.603	1.00
53_L	173_L	1.596	1.00
78_P	268_L	1.583	1.00
23_G	44_Y	1.578	1.00
20_V	48_M	1.565	1.00
62_F	65_A	1.562	1.00
239_F	243_F	1.553	1.00
9_F	58_F	1.524	1.00
142_A	145_I	1.517	1.00
197_V	201_C	1.504	1.00
146_G	149_D	1.501	1.00
190_A	194_L	1.481	1.00
163_F	166_M	1.476	1.00
258_K	261_T	1.475	1.00
9_F	54_V	1.469	1.00
194_L	198_F	1.462	1.00
257_T	261_T	1.423	1.00
266_V	299_T	1.397	1.00
58_F	62_F	1.396	1.00
141_I	145_I	1.392	1.00
63_K	123_L	1.390	1.00
235_Y	238_A	1.385	1.00
248_L	251_Q	1.383	1.00
133_W	136_F	1.370	1.00
55_S	116_L	1.369	1.00
238_A	242_T	1.344	1.00
266_V	303_T	1.343	1.00
308_S	313_T	1.338	1.00
114_V	118_F	1.331	1.00
315_A	318_F	1.324	1.00
265_Y	306_L	1.314	1.00
66_G	70_K	1.312	1.00
297_L	301_A	1.311	1.00
59_A	123_L	1.308	1.00
253_R	256_F	1.304	1.00
314_V	317_P	1.302	1.00
236_V	239_F	1.294	1.00
123_L	167_F	1.293	1.00
262_R	266_V	1.288	1.00
235_Y	239_F	1.284	1.00
265_Y	307_S	1.282	1.00
14_F	18_F	1.277	1.00
138_S	142_A	1.276	1.00
237_L	240_G	1.276	1.00
16_L	47_H	1.262	1.00
161_F	165_P	1.262	1.00
61_G	64_R	1.260	1.00
107_Q	110_L	1.260	1.00
71_L	120_N	1.256	1.00
57_Y	174_N	1.255	1.00
192_G	196_A	1.251	1.00
236_V	240_G	1.248	1.00
262_R	265_Y	1.247	1.00
143_V	146_G	1.245	1.00
255_F	259_W	1.242	1.00
86_Y	272_F	1.236	1.00
228_G	231_R	1.232	1.00
191_L	195_A	1.229	1.00
6_D	57_Y	1.219	1.00
303_T	307_S	1.215	1.00
116_L	120_N	1.209	1.00
59_A	120_N	1.209	1.00
270_H	274_I	1.205	1.00
60_K	175_K	1.195	1.00
262_R	303_T	1.190	1.00
237_L	241_A	1.186	1.00
145_I	149_D	1.168	1.00
68_V	117_F	1.162	1.00
279_Q	283_E	1.162	1.00
277_L	281_G	1.160	1.00
301_A	305_V	1.159	1.00
52_I	116_L	1.158	1.00
85_I	269_L	1.156	1.00
254_Y	258_K	1.147	1.00
312_K	316_Q	1.146	1.00
273_I	302_L	1.140	1.00
77_I	81_I	1.138	1.00
76_I	117_F	1.137	1.00
78_P	306_L	1.134	1.00
19_L	47_H	1.125	1.00
109_S	271_G	1.118	1.00
312_K	315_A	1.118	1.00
82_F	110_L	1.116	1.00
119_W	167_F	1.116	1.00
121_L	124_Y	1.115	1.00
240_G	244_S	1.113	1.00
82_F	86_Y	1.112	1.00
11_N	256_F	1.109	1.00
66_G	69_K	1.100	1.00
187_K	191_L	1.095	1.00
247_A	250_P	1.090	1.00
65_A	70_K	1.090	1.00
295_L	299_T	1.090	1.00
14_F	256_F	1.083	1.00
239_F	242_T	1.083	1.00
149_D	152_S	1.082	1.00
201_C	204_I	1.081	1.00
73_V	76_I	1.077	1.00
67_Y	120_N	1.070	1.00
286_L	289_Y	1.067	1.00
159_R	162_V	1.062	1.00
179_D	183_S	1.061	1.00
60_K	174_N	1.061	1.00
140_G	144_L	1.061	1.00
234_W	238_A	1.056	1.00
84_I	88_V	1.054	1.00
135_L	138_S	1.048	1.00
145_I	148_L	1.026	1.00
155_L	159_R	1.023	1.00
274_I	295_L	1.018	1.00
59_A	62_F	1.018	1.00
134_A	137_V	1.016	1.00
264_F	268_L	1.011	1.00
246_L	250_P	1.010	1.00
49_P	163_F	1.007	1.00
231_R	235_Y	1.006	1.00
293_V	297_L	1.005	1.00
226_V	230_S	1.000	1.00
228_G	232_I	0.998	1.00
277_L	295_L	0.997	1.00
289_Y	293_V	0.989	1.00
72_A	117_F	0.988	1.00
111_W	115_S	0.988	1.00
147_Y	150_F	0.981	1.00
180_L	183_S	0.978	1.00
123_L	171_F	0.967	1.00
88_V	92_I	0.963	1.00
17_I	112_F	0.961	1.00
269_L	272_F	0.960	1.00
179_D	182_R	0.958	1.00
198_F	202_W	0.957	1.00
44_Y	48_M	0.956	1.00
302_L	306_L	0.949	1.00
11_N	253_R	0.943	1.00
79_Y	264_F	0.941	1.00
115_S	163_F	0.941	1.00
307_S	311_V	0.937	1.00
185_R	188_Q	0.934	1.00
165_P	168_L	0.934	1.00
78_P	265_Y	0.932	1.00
109_S	267_Y	0.929	1.00
252_K	255_F	0.917	1.00
23_G	45_T	0.913	1.00
146_G	150_F	0.907	1.00
134_A	138_S	0.905	1.00
254_Y	257_T	0.903	1.00
75_L	120_N	0.903	1.00
34_H	37_L	0.902	1.00
167_F	171_F	0.896	1.00
300_A	303_T	0.895	1.00
229_L	233_G	0.893	1.00
21_V	270_H	0.885	1.00
168_L	171_F	0.884	1.00
110_L	268_L	0.884	1.00
113_L	268_L	0.882	1.00
20_V	47_H	0.881	1.00
14_F	17_I	0.878	1.00
231_R	243_F	0.872	1.00
200_I	203_G	0.868	1.00
8_Y	11_N	0.867	1.00
148_L	151_V	0.865	1.00
10_D	260_G	0.863	1.00
259_W	300_A	0.862	1.00
79_Y	83_Q	0.861	1.00
67_Y	71_L	0.858	1.00
273_I	277_L	0.857	1.00
55_S	167_F	0.854	1.00
10_D	13_K	0.854	1.00
238_A	241_A	0.853	1.00
245_F	248_L	0.851	1.00
195_A	199_V	0.850	1.00
306_L	309_N	0.848	1.00
234_W	237_L	0.848	1.00
307_S	312_K	0.844	1.00
187_K	190_A	0.841	1.00
6_D	61_G	0.837	1.00
17_I	51_F	0.834	1.00
230_S	234_W	0.831	1.00
124_Y	128_K	0.831	1.00
33_N	37_L	0.828	1.00
292_L	295_L	0.826	1.00
191_L	194_L	0.824	1.00
125_P	129_L	0.822	1.00
247_A	251_Q	0.822	1.00
88_V	91_Y	0.817	1.00
115_S	119_W	0.817	1.00
52_I	112_F	0.815	1.00
188_Q	192_G	0.815	1.00
139_C	146_G	0.808	1.00
13_K	54_V	0.807	1.00
231_R	234_W	0.807	1.00
23_G	47_H	0.805	1.00
253_R	257_T	0.805	1.00
157_L	163_F	0.800	1.00
13_K	112_F	0.799	1.00
19_L	46_F	0.796	1.00
11_N	257_T	0.793	1.00
83_Q	87_S	0.793	1.00
256_F	260_G	0.792	1.00
226_V	231_R	0.792	1.00
53_L	166_M	0.791	1.00
34_H	38_Y	0.787	1.00
196_A	200_I	0.783	1.00
305_V	308_S	0.782	1.00
133_W	137_V	0.776	1.00
95_D	98_M	0.776	1.00
136_F	140_G	0.771	1.00
233_G	236_V	0.764	1.00
18_F	22_F	0.763	1.00
188_Q	191_L	0.759	1.00
252_K	257_T	0.757	1.00
311_V	317_P	0.756	1.00
292_L	296_L	0.753	1.00
21_V	299_T	0.749	1.00
137_V	141_I	0.744	1.00
230_S	241_A	0.742	1.00
17_I	259_W	0.742	1.00
48_M	51_F	0.740	1.00
82_F	107_Q	0.739	1.00
229_L	232_I	0.736	1.00
143_V	147_Y	0.734	1.00
153_S	156_S	0.728	1.00
86_Y	109_S	0.727	1.00
311_V	316_Q	0.726	1.00
314_V	318_F	0.724	1.00
194_L	201_C	0.721	1.00
59_A	167_F	0.720	1.00
109_S	270_H	0.720	1.00
266_V	300_A	0.720	1.00
286_L	290_Q	0.719	1.00
11_N	14_F	0.719	1.00
117_F	121_L	0.718	1.00
21_V	296_L	0.716	1.00
91_Y	95_D	0.716	1.00
185_R	190_A	0.707	1.00
270_H	299_T	0.706	1.00
134_A	142_A	0.705	1.00
15_L	19_L	0.705	1.00
287_T	290_Q	0.700	1.00
174_N	177_H	0.700	1.00
79_Y	107_Q	0.699	1.00
128_K	132_Q	0.698	1.00
231_R	242_T	0.698	1.00
71_L	74_K	0.697	1.00
56_G	171_F	0.697	1.00
19_L	23_G	0.692	1.00
257_T	260_G	0.692	1.00
52_I	163_F	0.687	1.00
109_S	272_F	0.685	1.00
226_V	233_G	0.685	1.00
184_K	188_Q	0.683	1.00
81_I	311_V	0.681	1.00
254_Y	261_T	0.679	1.00
262_R	307_S	0.679	1.00
225_L	228_G	0.679	1.00
273_I	276_T	0.678	1.00
63_K	127_S	0.677	1.00
12_A	54_V	0.676	1.00
196_A	199_V	0.676	1.00
186_G	189_I	0.674	1.00
49_P	162_V	0.673	1.00
115_S	160_T	0.673	1.00
276_T	279_Q	0.671	1.00
86_Y	107_Q	0.670	1.00
174_N	178_F	0.670	1.00
275_K	279_Q	0.669	1.00
89_F	93_M	0.667	1.00
273_I	295_L	0.667	1.00
5_R	257_T	0.665	1.00
301_A	304_S	0.665	1.00
147_Y	151_V	0.665	1.00
74_K	116_L	0.662	1.00
67_Y	124_Y	0.657	1.00
182_R	185_R	0.657	1.00
226_V	229_L	0.657	1.00
55_S	59_A	0.655	1.00
198_F	201_C	0.654	1.00
144_L	148_L	0.653	1.00
148_L	152_S	0.653	1.00
255_F	258_K	0.651	1.00
269_L	302_L	0.650	1.00
139_C	143_V	0.650	1.00
197_V	200_I	0.650	1.00
9_F	57_Y	0.647	1.00
227_S	230_S	0.645	1.00
192_G	195_A	0.644	1.00
119_W	163_F	0.641	1.00
277_L	280_V	0.640	1.00
213_G	216_P	0.639	1.00
191_L	197_V	0.634	1.00
119_W	124_Y	0.633	1.00
13_K	116_L	0.629	1.00
86_Y	90_Y	0.628	1.00
191_L	202_W	0.628	1.00
75_L	117_F	0.627	1.00
183_S	186_G	0.626	1.00
290_Q	293_V	0.626	1.00
186_G	191_L	0.626	1.00
85_I	89_F	0.626	1.00
156_S	160_T	0.625	1.00
262_R	308_S	0.625	1.00
17_I	21_V	0.624	1.00
71_L	116_L	0.623	1.00
59_A	67_Y	0.621	1.00
175_K	178_F	0.619	1.00
92_I	95_D	0.619	1.00
280_V	283_E	0.618	1.00
232_I	235_Y	0.616	1.00
75_L	264_F	0.616	1.00
7_S	10_D	0.613	1.00
75_L	116_L	0.612	1.00
87_S	90_Y	0.612	1.00
136_F	139_C	0.610	1.00
5_R	261_T	0.610	1.00
119_W	123_L	0.609	1.00
168_L	172_Y	0.609	1.00
225_L	229_L	0.608	1.00
273_I	298_L	0.605	1.00
25_I	295_L	0.604	1.00
271_G	274_I	0.601	1.00
172_Y	176_H	0.601	1.00
47_H	119_W	0.600	1.00
110_L	114_V	0.600	1.00
155_L	161_F	0.600	1.00
233_G	237_L	0.600	1.00
7_S	257_T	0.598	1.00
277_L	291_S	0.598	1.00
189_I	192_G	0.595	1.00
230_S	233_G	0.594	1.00
96_E	99_A	0.591	1.00
235_Y	241_A	0.589	1.00
81_I	85_I	0.587	1.00
7_S	252_K	0.587	1.00
106_P	110_L	0.586	1.00
232_I	239_F	0.584	1.00
17_I	263_T	0.582	1.00
231_R	239_F	0.582	1.00
160_T	163_F	0.582	1.00
159_R	163_F	0.581	1.00
141_I	146_G	0.580	1.00
116_L	264_F	0.580	1.00
45_T	49_P	0.579	1.00
23_G	49_P	0.579	1.00
82_F	272_F	0.578	1.00
194_L	197_V	0.578	1.00
231_R	236_V	0.575	1.00
231_R	244_S	0.573	1.00
80_L	117_F	0.572	1.00
171_F	175_K	0.565	1.00
142_A	149_D	0.562	1.00
259_W	266_V	0.562	1.00
261_T	271_G	0.561	1.00
196_A	201_C	0.558	1.00
87_S	91_Y	0.555	1.00
190_A	193_V	0.555	1.00
118_F	122_L	0.553	1.00
35_F	39_L	0.552	1.00
135_L	139_C	0.550	1.00
276_T	280_V	0.549	1.00
90_Y	94_Q	0.548	1.00
84_I	87_S	0.548	1.00
135_L	146_G	0.548	1.00
157_L	160_T	0.547	1.00
172_Y	175_K	0.546	1.00
76_I	79_Y	0.544	1.00
19_L	43_I	0.544	1.00
199_V	202_W	0.544	1.00
74_K	77_I	0.542	1.00
285_W	288_D	0.542	1.00
272_F	276_T	0.541	1.00
298_L	301_A	0.539	1.00
191_L	201_C	0.537	1.00
269_L	303_T	0.536	1.00
227_S	232_I	0.532	1.00
291_S	295_L	0.532	1.00
52_I	111_W	0.531	1.00
71_L	112_F	0.531	1.00
230_S	236_V	0.530	1.00
182_R	187_K	0.530	1.00
18_F	259_W	0.529	1.00
300_A	304_S	0.529	1.00
81_I	306_L	0.528	1.00
238_A	246_L	0.527	1.00
288_D	291_S	0.526	1.00
17_I	47_H	0.520	1.00
71_L	77_I	0.519	1.00
20_V	112_F	0.515	1.00
241_A	245_F	0.514	1.00
269_L	299_T	0.513	1.00
236_V	243_F	0.511	1.00
27_R	30_I	0.510	1.00
20_V	24_H	0.509	1.00
59_A	116_L	0.508	1.00
189_I	193_V	0.505	1.00
187_K	192_G	0.503	1.00
115_S	118_F	0.502	1.00
117_F	167_F	0.502	1.00
162_V	166_M	0.502	1.00
173_L	177_H	0.501	1.00
25_I	299_T	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
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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
3udcA	3	0.1618	4.3	0.959	Contact Map
4i0uA	4	0.1853	3.9	0.959	Contact Map
4ldsA	2	0.5588	3.9	0.96	Contact Map
2kncA	1	0.1588	3.9	0.96	Contact Map
4ev6A	3	0.1912	3.8	0.96	Contact Map
4j72A	2	0.1147	3.5	0.96	Contact Map
2kncB	1	0.1765	3.3	0.961	Contact Map
1dh3A	2	0.0735	3.2	0.961	Contact Map
2cfqA	1	0.6265	2.5	0.963	Contact Map
4i6nA	1	0.1618	2.3	0.964	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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