YXXF - BACSU - GREMLIN Contacts

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YXXF - Uncharacterized transporter YxxF

UniProt:	Q07835	Sequences: MQQDPSISSKQKSTAVIKMVISMVIFGSIGFFSEHTNLPSFELVFVRCLCATLFLGFCWLASGQYKTEKWSKRDVLQTLACGFFLVFNWVFLFKSFEETSVTIAISVYHLAPVLVLLLGSFFYREKLNVISVSSIIICFLGTALISGINGSTSLTQLMGSGIIWAVLAALFYAFTTLLGKGIHNLSPYTTTFLQTGLGVIILIPFIHFGAFADLSQGNWIMVVSTGIIHTGIVYLLFFDSLRFLSTKFISIIVFLDPAVAIVLDTVFTGFRPDLYQTLGIVMIFAGMALTLVRRQGKANVTAEGTDIEQIQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	311 (275)
Sequences:	38645 (28322)
Seq/√Len:	1707.9

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
95_S	165_A	3.266	1.00
18_K	239_D	2.811	1.00
103_I	162_I	2.761	1.00
239_D	243_F	2.659	1.00
264_D	270_F	2.653	1.00
45_F	203_I	2.507	1.00
94_K	164_W	2.450	1.00
52_T	196_G	2.441	1.00
91_F	167_L	2.322	1.00
134_S	286_G	2.320	1.00
32_F	224_S	2.253	1.00
239_D	242_R	2.237	1.00
114_L	169_A	2.203	1.00
125_E	180_K	2.169	1.00
118_L	177_L	2.091	1.00
71_S	74_D	2.075	1.00
91_F	164_W	2.034	1.00
105_I	260_A	2.015	1.00
34_E	270_F	1.991	1.00
50_C	226_G	1.978	1.00
19_M	240_S	1.956	1.00
27_G	259_V	1.940	1.00
120_S	127_L	1.930	1.00
216_Q	220_I	1.922	1.00
87_F	171_F	1.888	1.00
49_L	199_V	1.866	1.00
33_S	93_F	1.858	1.00
163_I	167_L	1.848	1.00
116_L	135_I	1.847	1.00
99_T	162_I	1.809	1.00
56_G	192_F	1.799	1.00
110_L	114_L	1.775	1.00
115_V	250_S	1.746	1.00
57_F	60_L	1.738	1.00
119_G	125_E	1.734	1.00
99_T	161_G	1.710	1.00
128_N	131_S	1.708	1.00
226_G	231_G	1.686	1.00
200_I	204_P	1.684	1.00
27_G	263_L	1.649	1.00
98_E	160_S	1.638	1.00
91_F	171_F	1.612	1.00
288_A	292_V	1.603	1.00
52_T	199_V	1.595	1.00
215_S	218_N	1.588	1.00
138_C	254_F	1.581	1.00
245_S	248_F	1.577	1.00
186_S	189_T	1.570	1.00
28_S	224_S	1.551	1.00
204_P	207_H	1.529	1.00
24_V	259_V	1.528	1.00
114_L	173_A	1.523	1.00
74_D	184_N	1.512	1.00
45_F	199_V	1.502	1.00
14_T	243_F	1.481	1.00
273_D	276_Q	1.477	1.00
134_S	290_T	1.473	1.00
58_C	62_S	1.442	1.00
76_L	80_A	1.430	1.00
104_A	165_A	1.429	1.00
118_L	122_F	1.426	1.00
274_L	278_L	1.421	1.00
25_I	228_I	1.396	1.00
77_Q	178_L	1.389	1.00
56_G	60_L	1.382	1.00
114_L	170_L	1.372	1.00
72_K	76_L	1.354	1.00
99_T	103_I	1.352	1.00
159_G	162_I	1.352	1.00
94_K	98_E	1.351	1.00
36_T	43_L	1.335	1.00
101_V	264_D	1.325	1.00
179_G	238_F	1.325	1.00
35_H	221_M	1.322	1.00
119_G	123_Y	1.322	1.00
277_T	281_V	1.321	1.00
138_C	286_G	1.311	1.00
144_L	282_M	1.300	1.00
22_S	240_S	1.298	1.00
38_L	218_N	1.295	1.00
26_F	233_V	1.294	1.00
129_V	133_S	1.293	1.00
80_A	178_L	1.279	1.00
263_L	267_F	1.276	1.00
100_S	103_I	1.275	1.00
94_K	97_E	1.272	1.00
134_S	289_L	1.269	1.00
73_R	77_Q	1.267	1.00
57_F	61_A	1.267	1.00
73_R	76_L	1.266	1.00
54_F	231_G	1.265	1.00
102_T	261_I	1.250	1.00
18_K	236_L	1.246	1.00
281_V	285_A	1.241	1.00
98_E	164_W	1.240	1.00
84_F	174_F	1.239	1.00
79_L	197_L	1.237	1.00
259_V	263_L	1.231	1.00
144_L	275_Y	1.230	1.00
132_V	136_I	1.227	1.00
51_A	195_T	1.221	1.00
43_L	225_T	1.218	1.00
141_G	279_G	1.214	1.00
53_L	57_F	1.213	1.00
31_F	263_L	1.211	1.00
136_I	140_L	1.206	1.00
255_L	259_V	1.201	1.00
106_S	280_I	1.198	1.00
173_A	177_L	1.195	1.00
130_I	289_L	1.195	1.00
211_F	214_L	1.194	1.00
159_G	163_I	1.192	1.00
201_I	204_P	1.189	1.00
82_G	197_L	1.187	1.00
272_P	277_T	1.179	1.00
37_N	218_N	1.178	1.00
217_G	220_I	1.175	1.00
216_Q	219_W	1.171	1.00
45_F	49_L	1.151	1.00
118_L	174_F	1.144	1.00
17_I	21_I	1.143	1.00
72_K	75_V	1.140	1.00
16_V	252_I	1.131	1.00
180_K	245_S	1.129	1.00
220_I	224_S	1.125	1.00
217_G	221_M	1.124	1.00
52_T	192_F	1.113	1.00
86_V	201_I	1.112	1.00
115_V	246_T	1.108	1.00
145_I	279_G	1.106	1.00
83_F	201_I	1.096	1.00
45_F	206_I	1.092	1.00
41_F	205_F	1.090	1.00
160_S	164_W	1.089	1.00
22_S	26_F	1.085	1.00
118_L	173_A	1.075	1.00
32_F	221_M	1.073	1.00
96_F	104_A	1.065	1.00
98_E	158_M	1.064	1.00
123_Y	177_L	1.063	1.00
127_L	132_V	1.054	1.00
22_S	236_L	1.052	1.00
141_G	283_I	1.050	1.00
47_R	230_T	1.048	1.00
86_V	202_L	1.046	1.00
15_A	243_F	1.041	1.00
107_V	169_A	1.037	1.00
120_S	126_K	1.033	1.00
60_L	64_Q	1.032	1.00
101_V	268_T	1.031	1.00
241_L	249_I	1.030	1.00
118_L	170_L	1.027	1.00
77_Q	81_C	1.026	1.00
180_K	246_T	1.019	1.00
98_E	161_G	1.019	1.00
130_I	293_R	1.015	1.00
64_Q	186_S	1.014	1.00
39_P	42_E	1.008	1.00
116_L	127_L	1.004	1.00
33_S	96_F	1.002	1.00
21_I	236_L	1.000	1.00
205_F	209_G	0.998	1.00
84_F	171_F	0.998	1.00
44_V	93_F	0.996	1.00
36_T	218_N	0.995	1.00
115_V	176_T	0.995	1.00
110_L	142_T	0.992	1.00
160_S	163_I	0.992	1.00
15_A	240_S	0.990	1.00
129_V	132_V	0.989	1.00
223_V	226_G	0.986	1.00
130_I	292_V	0.983	1.00
99_T	165_A	0.981	1.00
25_I	236_L	0.978	1.00
28_S	263_L	0.976	1.00
26_F	237_F	0.972	1.00
74_D	185_L	0.966	1.00
220_I	223_V	0.963	1.00
60_L	63_G	0.959	1.00
125_E	131_S	0.955	1.00
121_F	124_R	0.954	1.00
77_Q	182_I	0.952	1.00
37_N	215_S	0.948	1.00
41_F	90_V	0.947	1.00
161_G	165_A	0.944	1.00
36_T	221_M	0.942	1.00
147_G	273_D	0.942	1.00
118_L	121_F	0.937	1.00
274_L	277_T	0.936	1.00
40_S	44_V	0.934	1.00
106_S	143_A	0.926	1.00
143_A	147_G	0.923	1.00
23_M	27_G	0.923	1.00
213_D	216_Q	0.919	1.00
140_L	144_L	0.911	1.00
84_F	178_L	0.906	1.00
219_W	223_V	0.904	1.00
137_I	286_G	0.903	1.00
241_L	245_S	0.901	1.00
92_L	96_F	0.897	1.00
77_Q	181_G	0.896	1.00
48_C	198_G	0.894	1.00
169_A	173_A	0.893	1.00
245_S	249_I	0.892	1.00
31_F	267_F	0.891	1.00
128_N	132_V	0.887	1.00
205_F	208_F	0.883	1.00
115_V	173_A	0.882	1.00
204_P	208_F	0.882	1.00
107_V	165_A	0.876	1.00
42_E	206_I	0.876	1.00
101_V	270_F	0.875	1.00
85_L	175_T	0.874	1.00
76_L	79_L	0.861	1.00
126_K	130_I	0.860	1.00
107_V	162_I	0.860	1.00
54_F	57_F	0.848	1.00
23_M	259_V	0.841	1.00
244_L	249_I	0.833	1.00
49_L	203_I	0.833	1.00
244_L	248_F	0.829	1.00
126_K	129_V	0.817	1.00
59_W	63_G	0.817	1.00
90_V	94_K	0.809	1.00
20_V	259_V	0.808	1.00
133_S	137_I	0.806	1.00
54_F	227_I	0.804	1.00
258_A	280_I	0.803	1.00
174_F	178_L	0.802	1.00
81_C	84_F	0.802	1.00
275_Y	278_L	0.801	1.00
261_I	272_P	0.800	1.00
31_F	264_D	0.797	1.00
265_T	272_P	0.797	1.00
158_M	162_I	0.797	1.00
113_V	138_C	0.792	1.00
142_T	146_S	0.782	1.00
240_S	249_I	0.781	1.00
140_L	282_M	0.778	1.00
196_G	200_I	0.777	1.00
156_Q	159_G	0.772	1.00
62_S	186_S	0.771	1.00
215_S	219_W	0.770	1.00
56_G	196_G	0.770	1.00
207_H	210_A	0.770	1.00
222_V	226_G	0.770	1.00
61_A	64_Q	0.766	1.00
255_L	258_A	0.764	1.00
52_T	56_G	0.764	1.00
86_V	90_V	0.763	1.00
165_A	169_A	0.761	1.00
144_L	278_L	0.760	1.00
75_V	197_L	0.758	1.00
261_I	280_I	0.757	1.00
23_M	255_L	0.756	1.00
44_V	202_L	0.752	1.00
114_L	166_V	0.750	1.00
278_L	282_M	0.750	1.00
286_G	290_T	0.750	1.00
228_I	232_I	0.749	1.00
95_S	104_A	0.744	1.00
181_G	184_N	0.743	1.00
185_L	190_T	0.742	1.00
59_W	192_F	0.740	1.00
280_I	284_F	0.740	1.00
88_N	171_F	0.736	1.00
19_M	252_I	0.736	1.00
196_G	199_V	0.736	1.00
199_V	203_I	0.732	1.00
197_L	201_I	0.730	1.00
192_F	196_G	0.729	1.00
172_Y	176_T	0.729	1.00
58_C	188_Y	0.727	1.00
78_T	185_L	0.725	1.00
107_V	166_V	0.724	1.00
117_L	121_F	0.722	1.00
285_A	289_L	0.722	1.00
78_T	190_T	0.720	1.00
31_F	101_V	0.719	1.00
214_L	219_W	0.718	1.00
85_L	234_Y	0.718	1.00
46_V	50_C	0.717	1.00
87_F	91_F	0.711	1.00
14_T	18_K	0.708	1.00
115_V	177_L	0.692	1.00
127_L	131_S	0.692	1.00
75_V	79_L	0.691	1.00
223_V	227_I	0.690	1.00
141_G	286_G	0.688	1.00
21_I	25_I	0.685	1.00
49_L	53_L	0.681	1.00
110_L	113_V	0.678	1.00
221_M	224_S	0.674	1.00
232_I	236_L	0.672	1.00
54_F	226_G	0.671	1.00
30_G	92_L	0.668	1.00
42_E	46_V	0.666	1.00
16_V	248_F	0.666	1.00
125_E	247_K	0.665	1.00
82_G	86_V	0.662	1.00
109_H	112_P	0.660	1.00
193_L	197_L	0.659	1.00
265_T	271_R	0.656	1.00
120_S	124_R	0.656	1.00
99_T	104_A	0.655	1.00
19_M	244_L	0.654	1.00
137_I	289_L	0.654	1.00
116_L	131_S	0.653	1.00
224_S	228_I	0.648	1.00
197_L	200_I	0.648	1.00
95_S	161_G	0.641	1.00
112_P	254_F	0.641	1.00
25_I	233_V	0.640	1.00
172_Y	237_F	0.640	1.00
189_T	193_L	0.640	1.00
272_P	276_Q	0.637	1.00
88_N	175_T	0.635	1.00
191_T	238_F	0.631	1.00
29_I	229_H	0.626	1.00
251_I	290_T	0.623	1.00
198_G	202_L	0.623	1.00
35_H	268_T	0.623	1.00
200_I	203_I	0.621	1.00
214_L	218_N	0.620	1.00
30_G	105_I	0.620	1.00
55_L	231_G	0.619	1.00
235_L	239_D	0.616	1.00
263_L	266_V	0.612	1.00
92_L	168_A	0.611	1.00
50_C	54_F	0.610	1.00
276_Q	280_I	0.610	1.00
157_L	160_S	0.608	1.00
164_W	167_L	0.607	1.00
271_R	275_Y	0.607	1.00
85_L	194_Q	0.607	1.00
123_Y	180_K	0.597	1.00
215_S	220_I	0.595	1.00
110_L	169_A	0.594	1.00
86_V	205_F	0.594	1.00
264_D	268_T	0.592	1.00
122_F	174_F	0.590	1.00
71_S	75_V	0.589	1.00
25_I	229_H	0.588	1.00
15_A	18_K	0.587	1.00
75_V	193_L	0.587	1.00
262_V	266_V	0.585	1.00
30_G	34_E	0.584	1.00
58_C	61_A	0.580	1.00
109_H	142_T	0.579	1.00
77_Q	80_A	0.579	1.00
25_I	232_I	0.578	1.00
119_G	247_K	0.577	1.00
91_F	168_A	0.576	1.00
261_I	265_T	0.574	1.00
85_L	198_G	0.574	1.00
175_T	238_F	0.573	1.00
116_L	120_S	0.573	1.00
23_M	256_D	0.572	1.00
92_L	104_A	0.569	1.00
193_L	196_G	0.569	1.00
123_Y	181_G	0.565	1.00
53_L	56_G	0.563	1.00
284_F	288_A	0.562	1.00
31_F	260_A	0.557	1.00
41_F	202_L	0.555	1.00
74_D	78_T	0.554	1.00
212_A	216_Q	0.554	1.00
180_K	183_H	0.551	1.00
38_L	42_E	0.550	1.00
117_L	135_I	0.549	1.00
51_A	231_G	0.546	1.00
106_S	145_I	0.546	1.00
79_L	83_F	0.544	1.00
273_D	277_T	0.544	1.00
146_S	162_I	0.543	1.00
93_F	97_E	0.543	1.00
131_S	245_S	0.543	1.00
46_V	222_V	0.542	1.00
70_W	74_D	0.542	1.00
191_T	194_Q	0.541	1.00
170_L	174_F	0.541	1.00
176_T	237_F	0.539	1.00
262_V	265_T	0.536	1.00
212_A	215_S	0.534	1.00
128_N	293_R	0.533	1.00
277_T	280_I	0.533	1.00
179_G	241_L	0.531	1.00
82_G	201_I	0.530	1.00
254_F	287_M	0.529	1.00
218_N	221_M	0.527	1.00
106_S	146_S	0.527	1.00
162_I	166_V	0.526	1.00
144_L	276_Q	0.526	1.00
44_V	90_V	0.525	1.00
68_E	71_S	0.519	1.00
14_T	17_I	0.519	1.00
29_I	93_F	0.518	1.00
85_L	89_W	0.518	1.00
69_K	72_K	0.516	1.00
224_S	227_I	0.514	1.00
109_H	169_A	0.514	1.00
88_N	92_L	0.513	1.00
148_I	275_Y	0.511	1.00
266_V	269_G	0.510	1.00
236_L	239_D	0.510	1.00
187_P	191_T	0.509	1.00
15_A	244_L	0.509	1.00
240_S	244_L	0.508	1.00
176_T	250_S	0.507	1.00
206_I	210_A	0.506	1.00
271_R	276_Q	0.503	1.00
253_V	256_D	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	0.2476	99	0.754	Contact Map
3b5dA	2	0.3248	98.3	0.806	Contact Map
4he8J	1	0.4952	85.2	0.902	Contact Map
4tphA	2	0.8875	81.2	0.907	Contact Map
1pw4A	1	0.8714	73	0.913	Contact Map
4j05A	3	0.9453	72.1	0.914	Contact Map
2cfqA	1	0.5949	67.1	0.917	Contact Map
3wdoA	1	0.8521	58.7	0.921	Contact Map
4pypA	1	0.9068	36.8	0.931	Contact Map
3l1lA	2	0.8553	36.6	0.931	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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