YFKC - BACSU - GREMLIN Contacts

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YFKC - Uncharacterized MscS family protein YfkC

UniProt:	O35043	Sequences: MRMKETLTEIFQNKIVDILLVAVILWIGVFIINRLVQLFFKRTDFIEEKKEKTIESLVRSVTQYTATIGFIFYVISLFVHDFGKILAGAGVAGIVIGFGAQSLIKDVLAGVFLIYERQLHKGDYVTVNNLFNGTVEEIGLRSLQIREWSGKLLTISNGEVRQIENYNIDFMRITESFLISFKEDPDRVYSVLEEACDMLNEELRDSLKRDEFGNPTEPFQIHGITALNKINRGVEFTVKGMVKDDDYFSASLAVRRVLVRQLYQNNVQMLEEAVRIERTQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	280 (243)
Sequences:	11371 (8413)
Seq/√Len:	539.7

ECOLI - YBIO MSCM MSCK MSCS YNAI YBDG
BACSU - YFKC YHDY YKUT
HALSA - Q9HQH2 Q9HNG6 Q9HQ04
SULSO - Q97V66 Q7LXV0 Q97V08 Q97V46

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
259_V	263_Y	3.723	1.00
126_T	132_N	3.333	1.00
186_D	260_R	3.287	1.00
25_L	70_F	3.156	1.00
136_E	146_R	3.129	1.00
189_Y	256_R	2.924	1.00
226_A	235_E	2.912	1.00
261_Q	264_Q	2.824	1.00
193_E	197_D	2.706	1.00
261_Q	265_N	2.687	1.00
187_R	265_N	2.610	1.00
124_Y	132_N	2.526	1.00
184_D	187_R	2.516	1.00
190_S	194_E	2.482	1.00
178_L	233_G	2.331	1.00
225_T	237_T	2.317	1.00
194_E	261_Q	2.304	1.00
228_N	235_E	2.292	1.00
101_Q	105_K	2.273	1.00
199_L	253_A	2.238	1.00
176_S	237_T	2.172	1.00
187_R	190_S	2.168	1.00
187_R	191_V	1.983	1.00
137_E	144_Q	1.982	1.00
124_Y	134_T	1.977	1.00
176_S	235_E	1.958	1.00
251_S	255_R	1.910	1.00
180_S	268_Q	1.869	1.00
257_V	260_R	1.849	1.00
189_Y	193_E	1.792	1.00
191_V	261_Q	1.784	1.00
179_I	188_V	1.758	1.00
194_E	198_M	1.745	1.00
126_T	166_Y	1.711	1.00
116_E	141_R	1.707	1.00
253_A	257_V	1.706	1.00
240_G	254_V	1.702	1.00
183_E	268_Q	1.694	1.00
136_E	152_L	1.690	1.00
178_L	235_E	1.678	1.00
198_M	257_V	1.668	1.00
128_N	162_Q	1.659	1.00
126_T	164_E	1.650	1.00
25_L	29_V	1.643	1.00
147_E	153_L	1.624	1.00
224_I	234_V	1.618	1.00
260_R	264_Q	1.586	1.00
174_T	237_T	1.579	1.00
191_V	265_N	1.573	1.00
159_E	162_Q	1.558	1.00
102_S	105_K	1.522	1.00
14_K	17_D	1.513	1.00
126_T	129_N	1.513	1.00
203_L	216_T	1.506	1.00
243_K	246_D	1.486	1.00
186_D	256_R	1.474	1.00
124_Y	148_W	1.463	1.00
198_M	261_Q	1.460	1.00
195_A	261_Q	1.441	1.00
119_L	143_L	1.425	1.00
143_L	157_N	1.405	1.00
262_L	267_V	1.371	1.00
94_I	97_G	1.354	1.00
144_Q	152_L	1.353	1.00
123_D	168_I	1.343	1.00
246_D	249_S	1.341	1.00
27_I	31_I	1.327	1.00
133_G	145_I	1.321	1.00
256_R	260_R	1.316	1.00
153_L	164_E	1.315	1.00
199_L	257_V	1.308	1.00
186_D	190_S	1.306	1.00
192_L	258_L	1.305	1.00
125_V	135_V	1.303	1.00
22_A	26_W	1.277	1.00
247_Y	251_S	1.276	1.00
249_S	253_A	1.275	1.00
26_W	30_F	1.269	1.00
191_V	194_E	1.261	1.00
66_A	70_F	1.261	1.00
196_C	238_V	1.248	1.00
173_I	240_G	1.245	1.00
33_N	63_Q	1.241	1.00
177_F	258_L	1.238	1.00
37_Q	59_R	1.237	1.00
191_V	195_A	1.236	1.00
242_V	250_A	1.234	1.00
74_V	78_F	1.213	1.00
257_V	261_Q	1.206	1.00
29_V	33_N	1.205	1.00
120_H	168_I	1.203	1.00
151_K	164_E	1.200	1.00
18_I	78_F	1.198	1.00
127_V	130_L	1.190	1.00
188_V	236_F	1.172	1.00
22_A	25_L	1.167	1.00
171_M	247_Y	1.165	1.00
186_D	189_Y	1.165	1.00
63_Q	67_T	1.139	1.00
194_E	265_N	1.135	1.00
147_E	151_K	1.134	1.00
190_S	193_E	1.129	1.00
127_V	160_V	1.118	1.00
182_K	259_V	1.114	1.00
182_K	271_E	1.106	1.00
88_G	91_V	1.104	1.00
183_E	188_V	1.091	1.00
182_K	268_Q	1.083	1.00
180_S	183_E	1.081	1.00
195_A	257_V	1.075	1.00
194_E	197_D	1.069	1.00
18_I	22_A	1.053	1.00
178_L	228_N	1.049	1.00
152_L	168_I	1.036	1.00
226_A	255_R	1.034	1.00
75_I	80_H	1.023	1.00
179_I	183_E	1.021	1.00
21_V	25_L	1.020	1.00
178_L	230_I	1.015	1.00
222_H	238_V	1.015	1.00
84_K	87_A	1.005	1.00
196_C	200_N	1.001	1.00
229_K	235_E	0.999	1.00
195_A	198_M	0.998	1.00
201_E	253_A	0.994	1.00
139_G	144_Q	0.978	1.00
172_R	241_M	0.977	1.00
193_E	222_H	0.977	1.00
176_S	225_T	0.966	1.00
18_I	74_V	0.962	1.00
14_K	18_I	0.960	1.00
173_I	251_S	0.960	1.00
30_F	34_R	0.955	1.00
176_S	226_A	0.953	1.00
185_P	236_F	0.946	1.00
183_E	187_R	0.938	1.00
86_L	90_G	0.933	1.00
225_T	235_E	0.924	1.00
185_P	189_Y	0.920	1.00
142_S	154_T	0.918	1.00
230_I	271_E	0.908	1.00
100_A	108_L	0.908	1.00
37_Q	41_K	0.907	1.00
125_V	145_I	0.902	1.00
70_F	74_V	0.900	1.00
150_G	241_M	0.900	1.00
223_G	252_L	0.897	1.00
92_A	96_I	0.896	1.00
99_G	104_I	0.891	1.00
184_D	188_V	0.890	1.00
192_L	262_L	0.886	1.00
174_T	239_K	0.885	1.00
105_K	158_G	0.872	1.00
179_I	236_F	0.867	1.00
181_F	227_L	0.866	1.00
254_V	258_L	0.866	1.00
181_F	269_M	0.863	1.00
13_N	16_V	0.859	1.00
17_D	77_L	0.857	1.00
248_F	252_L	0.854	1.00
33_N	37_Q	0.847	1.00
52_K	56_S	0.845	1.00
192_L	238_V	0.844	1.00
262_L	269_M	0.842	1.00
195_A	199_L	0.841	1.00
216_T	219_F	0.840	1.00
201_E	246_D	0.840	1.00
230_I	233_G	0.835	1.00
128_N	159_E	0.831	1.00
88_G	92_A	0.826	1.00
135_V	145_I	0.820	1.00
191_V	267_V	0.819	1.00
268_Q	273_A	0.818	1.00
196_C	240_G	0.818	1.00
180_S	270_L	0.816	1.00
179_I	262_L	0.814	1.00
178_L	229_K	0.812	1.00
152_L	169_D	0.810	1.00
185_P	259_V	0.810	1.00
199_L	254_V	0.806	1.00
91_V	100_A	0.804	1.00
116_E	142_S	0.803	1.00
146_R	152_L	0.802	1.00
225_T	251_S	0.802	1.00
103_L	109_A	0.801	1.00
252_L	256_R	0.800	1.00
117_R	120_H	0.799	1.00
16_V	20_L	0.794	1.00
199_L	202_E	0.792	1.00
188_V	192_L	0.791	1.00
227_L	234_V	0.789	1.00
229_K	272_E	0.788	1.00
181_F	271_E	0.785	1.00
39_F	43_T	0.785	1.00
92_A	95_V	0.784	1.00
179_I	267_V	0.783	1.00
190_S	265_N	0.770	1.00
76_S	81_D	0.765	1.00
253_A	256_R	0.764	1.00
198_M	202_E	0.761	1.00
229_K	233_G	0.760	1.00
86_L	95_V	0.752	1.00
201_E	250_A	0.752	1.00
67_T	71_I	0.748	1.00
33_N	59_R	0.746	1.00
21_V	70_F	0.743	1.00
193_E	220_Q	0.741	1.00
56_S	60_S	0.741	1.00
32_I	62_T	0.740	1.00
230_I	273_A	0.740	1.00
40_F	44_D	0.740	1.00
59_R	63_Q	0.740	1.00
146_R	150_G	0.737	1.00
195_A	254_V	0.732	1.00
190_S	197_D	0.730	1.00
134_T	146_R	0.729	1.00
73_Y	77_L	0.723	1.00
227_L	255_R	0.720	1.00
224_I	255_R	0.719	1.00
35_L	39_F	0.718	1.00
175_E	255_R	0.717	1.00
173_I	242_V	0.716	1.00
18_I	25_L	0.714	1.00
18_I	29_V	0.709	1.00
21_V	26_W	0.708	1.00
119_L	160_V	0.708	1.00
172_R	239_K	0.707	1.00
223_G	237_T	0.705	1.00
177_F	192_L	0.705	1.00
30_F	33_N	0.705	1.00
31_I	35_L	0.703	1.00
185_P	234_V	0.701	1.00
53_T	57_L	0.700	1.00
189_Y	252_L	0.700	1.00
89_A	93_G	0.699	1.00
70_F	73_Y	0.698	1.00
175_E	240_G	0.698	1.00
178_L	181_F	0.695	1.00
21_V	77_L	0.694	1.00
187_R	194_E	0.690	1.00
178_L	271_E	0.688	1.00
115_Y	118_Q	0.684	1.00
106_D	158_G	0.684	1.00
248_F	251_S	0.684	1.00
52_K	55_E	0.679	1.00
96_I	104_I	0.678	1.00
146_R	169_D	0.677	1.00
15_I	18_I	0.670	1.00
116_E	144_Q	0.668	1.00
87_A	90_G	0.667	1.00
127_V	155_I	0.664	1.00
25_L	28_G	0.663	1.00
139_G	142_S	0.661	1.00
234_V	259_V	0.660	1.00
16_V	19_L	0.653	1.00
27_I	30_F	0.648	1.00
29_V	63_Q	0.648	1.00
188_V	191_V	0.648	1.00
185_P	260_R	0.645	1.00
88_G	93_G	0.644	1.00
119_L	125_V	0.641	1.00
226_A	251_S	0.640	1.00
51_E	54_I	0.634	1.00
228_N	233_G	0.632	1.00
238_V	258_L	0.632	1.00
53_T	56_S	0.631	1.00
227_L	259_V	0.631	1.00
68_I	72_F	0.631	1.00
109_A	158_G	0.623	1.00
149_S	172_R	0.622	1.00
173_I	247_Y	0.622	1.00
14_K	21_V	0.620	1.00
25_L	66_A	0.619	1.00
132_N	166_Y	0.619	1.00
81_D	84_K	0.619	1.00
180_S	269_M	0.618	1.00
20_L	23_V	0.615	1.00
181_F	234_V	0.614	1.00
192_L	195_A	0.613	1.00
91_V	95_V	0.613	1.00
202_E	257_V	0.612	1.00
144_Q	154_T	0.610	1.00
102_S	158_G	0.609	1.00
29_V	66_A	0.609	1.00
54_I	57_L	0.609	1.00
195_A	265_N	0.608	1.00
101_Q	158_G	0.603	1.00
96_I	108_L	0.603	1.00
38_L	42_R	0.602	1.00
20_L	24_I	0.600	1.00
90_G	93_G	0.598	1.00
192_L	196_C	0.595	1.00
197_D	216_T	0.594	1.00
130_L	164_E	0.594	1.00
221_I	239_K	0.591	1.00
193_E	196_C	0.590	1.00
83_G	87_A	0.587	0.99
119_L	163_I	0.582	0.99
60_S	63_Q	0.582	0.99
113_L	119_L	0.580	0.99
230_I	272_E	0.580	0.99
196_C	254_V	0.576	0.99
17_D	21_V	0.574	0.99
134_T	148_W	0.569	0.99
191_V	198_M	0.568	0.99
134_T	245_D	0.566	0.99
183_E	234_V	0.565	0.99
125_V	160_V	0.562	0.99
23_V	27_I	0.562	0.99
36_V	39_F	0.560	0.99
13_N	17_D	0.558	0.99
29_V	67_T	0.557	0.99
40_F	43_T	0.553	0.99
98_F	103_L	0.552	0.99
224_I	227_L	0.551	0.99
180_S	273_A	0.551	0.99
104_I	108_L	0.551	0.99
201_E	249_S	0.550	0.99
189_Y	236_F	0.550	0.99
103_L	112_F	0.549	0.99
181_F	230_I	0.548	0.99
93_G	99_G	0.546	0.99
233_G	271_E	0.545	0.99
255_R	258_L	0.544	0.99
180_S	271_E	0.543	0.99
227_L	258_L	0.540	0.99
53_T	114_I	0.540	0.99
15_I	19_L	0.539	0.99
221_I	225_T	0.536	0.99
184_D	190_S	0.532	0.99
177_F	227_L	0.530	0.99
60_S	64_Y	0.527	0.99
98_F	101_Q	0.526	0.99
132_N	148_W	0.525	0.99
151_K	166_Y	0.525	0.99
262_L	265_N	0.523	0.99
90_G	101_Q	0.522	0.99
260_R	263_Y	0.521	0.99
55_E	59_R	0.520	0.99
94_I	102_S	0.520	0.99
33_N	38_L	0.520	0.99
36_V	42_R	0.520	0.99
196_C	222_H	0.519	0.99
185_P	224_I	0.518	0.99
196_C	202_E	0.518	0.99
136_E	144_Q	0.518	0.99
184_D	260_R	0.518	0.99
259_V	269_M	0.518	0.99
51_E	120_H	0.517	0.99
269_M	273_A	0.514	0.99
64_Y	68_I	0.512	0.99
26_W	29_V	0.511	0.99
32_I	35_L	0.510	0.99
203_L	218_P	0.510	0.99
90_G	94_I	0.510	0.99
177_F	236_F	0.508	0.99
88_G	95_V	0.507	0.99
185_P	188_V	0.506	0.99
188_V	195_A	0.506	0.99
56_S	137_E	0.503	0.98
22_A	74_V	0.503	0.98
189_Y	222_H	0.502	0.98
237_T	252_L	0.501	0.98
217_E	220_Q	0.500	0.98

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
3udcA	3	0.9286	100	0.168	Contact Map
5ajiA	3	0.9071	100	0.175	Contact Map
4hw9A	3	0.8857	100	0.183	Contact Map
1nz9A	1	0.175	38.5	0.939	Contact Map
2e6zA	1	0.1857	24.7	0.945	Contact Map
4l5gA	1	0.5	23.1	0.946	Contact Map
2mi6A	1	0.1857	21.6	0.946	Contact Map
3mlqE	1	0.1429	17.5	0.949	Contact Map
1mwwA	3	0.3536	14.4	0.95	Contact Map
2aalA	3	0.3357	12.3	0.952	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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