YCXC - BACSU - GREMLIN Contacts

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YCXC - Uncharacterized transporter YcxC

UniProt:	Q08794	Sequences: MVKHQQTPAYIAAILYSFIIGLSFLFVKIALQTAEPFDILAHRFTIAFAAATVPILFGWVKLSIRVKDVIDILPLALLYPALFFSFQAFGLVYSSSSEAGIIQAAIPIFTMVFAAYVLKERPTWTQKGFTVLSVAGVMFIFVMKGVDVESASLKGSLLILLSALSSAMYNTAARKMTQRFKLTELTYIMSAIGFVVFNAIALVRHGAAGTVGTYFLPFREPGFVLAIVYLGVLSSLVTSFLSNYTLSRIEAFKMSAFNHVSTIVTMIAGFVILNESLAWYHLAGAVCIMIGVVGSNINLEKKTKRPGMPAKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	312 (276)
Sequences:	39371 (28641)
Seq/√Len:	1724.0

ECOLI - YICL YEDA YHBE YTFF YIJE RARD EAMA RHTA YDDG YIGM
BACSU - YCXC YDED YBFH YVBV YRDR YCBK YETK YDFC YXXF YOAV YYAM YWFM YOJE YDEK
HALSA - Q9HHP6 Q9HQ34 Q9HPI0
SULSO - Q97UX3 Q97X73 Q97UE8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
90_G	159_I	3.192	1.00
12_A	244_Y	2.967	1.00
98_E	156_S	2.818	1.00
244_Y	248_R	2.804	1.00
269_G	275_E	2.682	1.00
89_F	158_L	2.516	1.00
48_F	191_A	2.468	1.00
41_A	198_N	2.461	1.00
26_F	229_Y	2.413	1.00
86_F	161_L	2.327	1.00
244_Y	247_S	2.325	1.00
65_R	68_D	2.296	1.00
129_F	291_G	2.245	1.00
100_G	265_T	2.177	1.00
109_F	163_A	2.160	1.00
46_I	231_G	2.154	1.00
86_F	158_L	2.136	1.00
221_P	225_L	2.129	1.00
120_E	174_R	2.116	1.00
113_F	171_T	2.072	1.00
13_A	245_T	2.063	1.00
27_V	88_A	1.956	1.00
28_K	275_E	1.956	1.00
21_G	264_V	1.927	1.00
45_T	194_F	1.902	1.00
123_T	126_Q	1.868	1.00
115_A	122_P	1.824	1.00
52_T	187_Y	1.815	1.00
111_M	130_T	1.801	1.00
181_K	184_E	1.779	1.00
105_A	109_F	1.765	1.00
114_A	120_E	1.756	1.00
93_Y	154_K	1.744	1.00
195_V	199_A	1.743	1.00
110_T	255_S	1.713	1.00
220_E	223_F	1.700	1.00
250_E	253_K	1.697	1.00
94_S	155_G	1.685	1.00
21_G	268_A	1.683	1.00
94_S	156_S	1.669	1.00
68_D	179_R	1.655	1.00
293_V	297_I	1.652	1.00
157_L	161_L	1.637	1.00
133_S	259_H	1.616	1.00
33_T	223_F	1.603	1.00
199_A	202_L	1.599	1.00
278_A	281_H	1.586	1.00
22_L	229_Y	1.585	1.00
89_F	93_Y	1.573	1.00
86_F	165_S	1.551	1.00
34_A	223_F	1.549	1.00
109_F	167_A	1.545	1.00
18_F	264_V	1.544	1.00
231_G	236_L	1.531	1.00
129_F	295_S	1.515	1.00
41_A	194_F	1.486	1.00
48_F	194_F	1.482	1.00
53_V	56_L	1.480	1.00
99_A	159_I	1.469	1.00
77_L	80_P	1.467	1.00
89_F	92_V	1.441	1.00
173_A	243_N	1.430	1.00
153_L	156_S	1.407	1.00
109_F	164_L	1.406	1.00
30_A	39_I	1.402	1.00
52_T	56_L	1.402	1.00
129_F	294_G	1.374	1.00
222_G	226_A	1.368	1.00
47_A	190_S	1.367	1.00
29_I	226_A	1.360	1.00
113_F	117_V	1.353	1.00
66_V	69_V	1.339	1.00
114_A	118_L	1.321	1.00
67_K	71_D	1.318	1.00
66_V	70_I	1.315	1.00
39_I	230_L	1.308	1.00
53_V	57_F	1.302	1.00
67_K	70_I	1.302	1.00
12_A	241_L	1.297	1.00
20_I	238_T	1.297	1.00
71_D	172_A	1.291	1.00
70_I	74_P	1.283	1.00
133_S	291_G	1.275	1.00
196_V	199_A	1.274	1.00
268_A	272_I	1.274	1.00
16_Y	245_T	1.273	1.00
124_W	128_G	1.271	1.00
279_W	283_A	1.256	1.00
222_G	225_L	1.249	1.00
28_K	32_Q	1.242	1.00
25_L	268_A	1.239	1.00
10_Y	257_F	1.237	1.00
93_Y	158_L	1.236	1.00
49_A	53_V	1.234	1.00
96_S	269_G	1.228	1.00
97_S	266_M	1.228	1.00
139_F	287_C	1.223	1.00
221_P	224_V	1.223	1.00
95_S	98_E	1.222	1.00
154_K	158_L	1.212	1.00
136_G	284_G	1.211	1.00
153_L	157_L	1.200	1.00
264_V	268_A	1.197	1.00
282_L	286_V	1.195	1.00
50_A	236_L	1.193	1.00
37_F	200_I	1.181	1.00
35_E	38_D	1.179	1.00
286_V	290_I	1.176	1.00
125_T	294_G	1.172	1.00
260_V	264_V	1.171	1.00
139_F	280_Y	1.170	1.00
127_K	131_V	1.168	1.00
225_L	229_Y	1.168	1.00
136_G	288_I	1.156	1.00
60_V	181_K	1.156	1.00
94_S	98_E	1.154	1.00
41_A	201_A	1.153	1.00
54_P	58_G	1.150	1.00
101_I	285_A	1.144	1.00
16_Y	241_L	1.142	1.00
167_A	171_T	1.141	1.00
76_A	80_P	1.134	1.00
91_L	99_A	1.131	1.00
174_R	178_Q	1.130	1.00
277_L	282_L	1.118	1.00
94_S	159_I	1.111	1.00
68_D	71_D	1.110	1.00
93_Y	155_G	1.109	1.00
115_A	121_R	1.109	1.00
131_V	135_A	1.109	1.00
26_F	226_A	1.107	1.00
93_Y	152_S	1.104	1.00
246_L	254_M	1.102	1.00
110_T	251_A	1.096	1.00
140_I	284_G	1.096	1.00
124_W	127_K	1.092	1.00
175_K	178_Q	1.088	1.00
87_Q	91_L	1.086	1.00
15_L	241_L	1.084	1.00
154_K	157_L	1.080	1.00
200_I	204_R	1.079	1.00
174_R	250_E	1.077	1.00
19_I	241_L	1.075	1.00
22_L	268_A	1.069	1.00
113_F	168_M	1.060	1.00
125_T	298_N	1.060	1.00
118_L	171_T	1.058	1.00
9_A	248_R	1.054	1.00
132_L	291_G	1.051	1.00
110_T	170_N	1.050	1.00
74_P	172_A	1.048	1.00
174_R	251_A	1.048	1.00
43_R	235_S	1.045	1.00
41_A	45_T	1.044	1.00
16_Y	20_I	1.044	1.00
48_F	187_Y	1.026	1.00
33_T	220_E	1.024	1.00
11_I	15_L	1.019	1.00
9_A	245_T	1.016	1.00
19_I	233_L	1.011	1.00
199_A	203_V	0.999	1.00
45_T	198_N	0.997	1.00
44_F	193_G	0.994	1.00
113_F	167_A	0.991	1.00
79_Y	169_Y	0.989	1.00
37_F	85_S	0.988	1.00
73_L	192_I	0.986	1.00
96_S	273_L	0.982	1.00
77_L	196_V	0.981	1.00
40_L	88_A	0.979	1.00
138_M	142_V	0.975	1.00
102_I	156_S	0.974	1.00
142_V	278_A	0.964	1.00
110_T	167_A	0.962	1.00
27_V	91_L	0.961	1.00
56_L	60_V	0.961	1.00
111_M	122_P	0.960	1.00
30_A	226_A	0.958	1.00
279_W	282_L	0.958	1.00
20_I	242_S	0.957	1.00
120_E	126_Q	0.950	1.00
71_D	176_M	0.950	1.00
105_A	137_V	0.948	1.00
225_L	228_V	0.945	1.00
102_I	163_A	0.941	1.00
123_T	127_K	0.940	1.00
155_G	159_I	0.937	1.00
163_A	167_A	0.926	1.00
68_D	180_F	0.924	1.00
125_T	297_I	0.924	1.00
113_F	116_Y	0.924	1.00
30_A	223_F	0.924	1.00
228_V	231_G	0.920	1.00
36_P	40_L	0.918	1.00
38_D	201_A	0.916	1.00
122_P	127_K	0.910	1.00
85_S	89_F	0.895	1.00
17_S	21_G	0.893	1.00
71_D	75_L	0.886	1.00
75_L	79_Y	0.885	1.00
152_S	156_S	0.883	1.00
250_E	254_M	0.879	1.00
59_W	62_L	0.878	1.00
219_R	224_V	0.876	1.00
25_L	272_I	0.875	1.00
249_I	254_M	0.875	1.00
70_I	73_L	0.868	1.00
249_I	253_K	0.860	1.00
220_E	224_V	0.859	1.00
113_F	164_L	0.856	1.00
224_V	228_V	0.855	1.00
200_I	203_V	0.855	1.00
202_L	205_H	0.854	1.00
42_H	46_I	0.851	1.00
102_I	159_I	0.846	1.00
76_A	192_I	0.841	1.00
101_I	138_M	0.841	1.00
116_Y	119_K	0.838	1.00
69_V	192_I	0.831	1.00
203_V	206_G	0.827	1.00
17_S	264_V	0.826	1.00
52_T	191_A	0.825	1.00
246_L	250_E	0.824	1.00
69_V	73_L	0.819	1.00
50_A	232_V	0.819	1.00
219_R	223_F	0.800	1.00
10_Y	253_K	0.798	1.00
71_D	175_K	0.795	1.00
159_I	163_A	0.794	1.00
78_L	168_M	0.794	1.00
121_R	125_T	0.792	1.00
266_M	277_L	0.792	1.00
78_L	165_S	0.789	1.00
245_T	254_M	0.782	1.00
150_S	153_L	0.779	1.00
270_F	277_L	0.774	1.00
191_A	195_V	0.773	1.00
96_S	275_E	0.770	1.00
227_I	231_G	0.766	1.00
168_M	172_A	0.766	1.00
266_M	285_A	0.765	1.00
27_V	31_L	0.765	1.00
48_F	52_T	0.763	1.00
263_I	285_A	0.761	1.00
135_A	287_C	0.761	1.00
270_F	276_S	0.754	1.00
121_R	124_W	0.753	1.00
137_V	141_F	0.753	1.00
73_L	77_L	0.750	1.00
139_F	283_A	0.750	1.00
40_L	197_F	0.749	1.00
285_A	289_M	0.744	1.00
280_Y	283_A	0.742	1.00
38_D	42_H	0.741	1.00
180_F	185_L	0.740	1.00
25_L	269_G	0.737	1.00
58_G	61_K	0.736	1.00
83_F	165_S	0.736	1.00
50_A	53_V	0.734	1.00
112_V	116_Y	0.734	1.00
74_P	77_L	0.731	1.00
220_E	225_L	0.727	1.00
188_I	192_I	0.727	1.00
71_D	74_P	0.726	1.00
13_A	257_F	0.725	1.00
142_V	145_G	0.721	1.00
65_R	69_V	0.718	1.00
187_Y	191_A	0.717	1.00
194_F	198_N	0.713	1.00
25_L	96_S	0.710	1.00
115_A	119_K	0.710	1.00
51_A	236_L	0.706	1.00
17_S	260_V	0.706	1.00
136_G	291_G	0.706	1.00
55_I	187_Y	0.702	1.00
111_M	126_Q	0.701	1.00
56_L	59_W	0.700	1.00
240_F	244_Y	0.696	1.00
228_V	232_V	0.695	1.00
56_L	61_K	0.694	1.00
260_V	263_I	0.694	1.00
186_T	189_M	0.689	1.00
201_A	205_H	0.688	1.00
54_P	183_T	0.688	1.00
14_I	264_V	0.685	1.00
135_A	139_F	0.685	1.00
256_A	295_S	0.684	1.00
223_F	226_A	0.683	1.00
105_A	108_I	0.683	1.00
73_L	76_A	0.681	1.00
237_V	241_L	0.681	1.00
122_P	126_Q	0.680	1.00
57_F	60_V	0.677	1.00
283_A	287_C	0.677	1.00
108_I	133_S	0.677	1.00
110_T	171_T	0.675	1.00
166_S	170_N	0.672	1.00
192_I	196_V	0.672	1.00
24_F	87_Q	0.671	1.00
29_I	273_L	0.669	1.00
83_F	169_Y	0.669	1.00
45_T	49_A	0.668	1.00
269_G	273_L	0.665	1.00
277_L	281_H	0.662	1.00
128_G	132_L	0.660	1.00
94_S	99_A	0.659	1.00
72_I	180_F	0.657	1.00
290_I	294_G	0.657	1.00
192_I	195_V	0.656	1.00
34_A	39_I	0.655	1.00
266_M	270_F	0.653	1.00
111_M	115_A	0.652	1.00
15_L	19_I	0.651	1.00
78_L	172_A	0.650	1.00
226_A	229_Y	0.650	1.00
118_L	175_K	0.643	1.00
72_I	76_A	0.639	1.00
102_I	160_L	0.639	1.00
90_G	155_G	0.637	1.00
202_L	206_G	0.631	1.00
229_Y	233_L	0.631	1.00
291_G	295_S	0.630	1.00
184_E	188_I	0.626	1.00
276_S	280_Y	0.625	1.00
13_A	249_I	0.624	1.00
126_Q	250_E	0.624	1.00
166_S	242_S	0.619	1.00
88_A	92_V	0.619	1.00
120_E	252_F	0.618	1.00
195_V	198_N	0.616	1.00
24_F	100_G	0.613	1.00
81_A	165_S	0.612	1.00
281_H	285_A	0.611	1.00
50_A	231_G	0.610	1.00
151_A	154_K	0.608	1.00
104_A	137_V	0.606	1.00
188_I	191_A	0.606	1.00
47_A	236_L	0.605	1.00
63_S	66_V	0.602	1.00
87_Q	162_S	0.600	1.00
29_I	33_T	0.596	1.00
57_F	61_K	0.595	1.00
69_V	188_I	0.595	1.00
49_A	52_T	0.594	1.00
158_L	161_L	0.594	1.00
87_Q	99_A	0.593	1.00
267_I	271_V	0.591	1.00
9_A	249_I	0.589	1.00
37_F	204_R	0.589	1.00
186_T	243_N	0.588	1.00
101_I	140_I	0.586	1.00
233_L	237_V	0.586	1.00
292_V	295_S	0.586	1.00
19_I	238_T	0.581	1.00
34_A	38_D	0.580	1.00
117_V	168_M	0.579	1.00
169_Y	243_N	0.576	1.00
156_S	160_L	0.573	1.00
268_A	271_V	0.570	1.00
193_G	197_F	0.570	1.00
141_F	156_S	0.569	1.00
191_A	194_F	0.568	1.00
105_A	163_A	0.568	1.00
80_P	193_G	0.568	1.00
72_I	185_L	0.568	1.00
69_V	72_I	0.567	1.00
42_H	227_I	0.567	1.00
46_I	50_A	0.567	1.00
104_A	107_P	0.566	1.00
136_G	287_C	0.565	1.00
132_L	294_G	0.565	1.00
259_H	292_V	0.564	1.00
76_A	79_Y	0.557	1.00
175_K	179_R	0.553	1.00
215_F	219_R	0.551	1.00
150_S	154_K	0.551	1.00
55_I	184_E	0.548	1.00
196_V	200_I	0.548	1.00
170_N	242_S	0.547	1.00
90_G	99_A	0.546	1.00
100_G	104_A	0.545	1.00
258_N	261_S	0.544	1.00
169_Y	173_A	0.543	1.00
24_F	28_K	0.542	1.00
35_E	204_R	0.542	1.00
278_A	282_L	0.539	1.00
75_L	80_P	0.538	1.00
143_M	280_Y	0.535	1.00
10_Y	14_I	0.532	1.00
73_L	196_V	0.527	1.00
229_Y	232_V	0.525	1.00
31_L	92_V	0.524	1.00
38_D	205_H	0.523	1.00
107_P	259_H	0.522	1.00
31_L	91_L	0.521	1.00
114_A	252_F	0.521	1.00
17_S	261_S	0.519	1.00
294_G	298_N	0.518	1.00
83_F	87_Q	0.517	1.00
46_I	49_A	0.514	1.00
118_L	174_R	0.513	1.00
14_I	17_S	0.513	1.00
180_F	184_E	0.512	1.00
33_T	222_G	0.511	1.00
68_D	72_I	0.510	1.00
13_A	242_S	0.510	1.00
40_L	85_S	0.508	1.00
164_L	168_M	0.507	1.00
23_S	27_V	0.506	1.00
109_F	160_L	0.505	1.00
123_T	298_N	0.504	1.00
276_S	281_H	0.504	1.00
134_V	259_H	0.503	1.00
19_I	237_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
2i68A	2	0.2468	98.7	0.765	Contact Map
3b5dA	2	0.3237	98.3	0.793	Contact Map
1pw4A	1	0.9487	53.9	0.919	Contact Map
3wdoA	1	0.9295	53.6	0.919	Contact Map
4pypA	1	0.9135	47.5	0.922	Contact Map
4he8J	1	0.5032	45.9	0.923	Contact Map
2cfqA	1	0.5897	40.7	0.925	Contact Map
4j05A	3	0.9263	38.3	0.926	Contact Map
4xnjA	1	0.7276	20.8	0.935	Contact Map
4zw9A	1	0.9551	19.5	0.936	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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