YUFQ - BACSU - GREMLIN Contacts

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YUFQ - Uncharacterized ABC transporter permease protein YufQ

UniProt:	O05255	Sequences: MDIVQILSIIVPATLVYAAPLILTALGGVFSERSGVVNIGLEGLMIIGAFTSVLFNLFFGQELGAAAPWLSLLAAMAAGALFSLIHAAAAISFRADQTVSGVAINMLALGATLFIVKLIYGKAQTDKIPEPFYKTKIPGLGDIPVLGKIFFSDVYYTSILAIALAFISWFILFKTPFGLRIRSVGEHPMAADTMGINVYKMRYIGVMISGLFGGLGGGVYASTIALDFTHSTISGQGFIALAALVFGKWHPIGALGAALFFGFAQSLSIIGSLLPLFKDIPNVYMLMAPYILTILALTGFIGRADAPKANGVPYIKGKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	319 (270)
Sequences:	30639 (19659)
Seq/√Len:	1196.4

ECOLI - LIVM LSRD YTFT LSRC YJFF LIVH YPHD XYLH MGLC RBSC ALSC ARAH
BACSU - YUFQ YUFP RBSC
HALSA - Q9HR23 Q9HR22
SULSO - Q97UZ8 Q97UZ9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
76_M	211_L	4.035	1.00
80_A	207_M	3.656	1.00
80_A	211_L	3.139	1.00
51_T	78_A	3.037	1.00
84_L	207_M	2.972	1.00
188_P	202_R	2.918	1.00
55_F	74_A	2.703	1.00
181_I	205_G	2.601	1.00
22_I	161_A	2.583	1.00
29_V	254_A	2.577	1.00
197_N	200_K	2.507	1.00
92_S	199_Y	2.466	1.00
79_G	214_G	2.384	1.00
200_K	204_I	2.381	1.00
171_I	177_F	2.361	1.00
83_S	210_G	2.345	1.00
169_W	173_F	2.301	1.00
170_F	174_K	2.282	1.00
86_H	104_I	2.279	1.00
180_R	201_M	2.226	1.00
84_L	203_Y	2.225	1.00
239_I	265_Q	2.167	1.00
88_A	92_S	2.148	1.00
177_F	204_I	2.092	1.00
67_A	70_L	2.085	1.00
167_I	171_I	2.048	1.00
24_T	240_A	2.026	1.00
52_S	75_A	1.968	1.00
46_I	112_T	1.962	1.00
76_M	215_L	1.954	1.00
69_W	73_L	1.914	1.00
55_F	59_F	1.890	1.00
79_G	210_G	1.868	1.00
52_S	218_G	1.843	1.00
166_F	170_F	1.796	1.00
72_L	218_G	1.777	1.00
18_A	262_G	1.765	1.00
87_A	203_Y	1.740	1.00
184_V	201_M	1.740	1.00
25_A	254_A	1.733	1.00
183_S	191_A	1.698	1.00
31_S	209_S	1.695	1.00
106_M	109_L	1.689	1.00
33_R	182_R	1.644	1.00
30_F	168_S	1.626	1.00
54_L	58_F	1.611	1.00
176_P	180_R	1.609	1.00
22_I	258_A	1.609	1.00
82_F	108_A	1.585	1.00
239_I	289_P	1.551	1.00
56_N	71_S	1.539	1.00
76_M	218_G	1.537	1.00
177_F	181_I	1.518	1.00
18_A	259_L	1.516	1.00
189_M	192_D	1.512	1.00
47_I	82_F	1.476	1.00
165_A	255_L	1.452	1.00
144_P	147_G	1.449	1.00
43_G	109_L	1.436	1.00
104_I	108_A	1.429	1.00
188_P	192_D	1.423	1.00
204_I	207_M	1.420	1.00
45_M	220_Y	1.418	1.00
92_S	203_Y	1.414	1.00
54_L	115_I	1.409	1.00
24_T	45_M	1.376	1.00
180_R	196_I	1.372	1.00
70_L	73_L	1.345	1.00
23_L	216_G	1.343	1.00
180_R	191_A	1.334	1.00
34_S	205_G	1.332	1.00
247_G	253_G	1.331	1.00
23_L	219_V	1.308	1.00
75_A	79_G	1.307	1.00
88_A	203_Y	1.297	1.00
191_A	196_I	1.293	1.00
30_F	205_G	1.293	1.00
27_G	212_F	1.292	1.00
66_A	70_L	1.284	1.00
29_V	249_W	1.276	1.00
22_I	255_L	1.274	1.00
247_G	257_A	1.263	1.00
184_V	198_V	1.254	1.00
196_I	201_M	1.252	1.00
203_Y	207_M	1.252	1.00
59_F	66_A	1.248	1.00
28_G	244_L	1.237	1.00
91_I	199_Y	1.236	1.00
71_S	75_A	1.232	1.00
41_L	213_G	1.210	1.00
36_V	202_R	1.208	1.00
14_T	262_G	1.206	1.00
26_L	168_S	1.204	1.00
73_L	77_A	1.198	1.00
14_T	263_F	1.196	1.00
60_G	67_A	1.185	1.00
184_V	191_A	1.180	1.00
51_T	55_F	1.177	1.00
28_G	240_A	1.175	1.00
36_V	206_V	1.170	1.00
173_F	182_R	1.161	1.00
169_W	174_K	1.156	1.00
10_I	266_S	1.154	1.00
77_A	80_A	1.153	1.00
207_M	211_L	1.149	1.00
164_L	212_F	1.136	1.00
250_H	253_G	1.133	1.00
25_A	243_A	1.130	1.00
36_V	97_Q	1.129	1.00
44_L	82_F	1.123	1.00
210_G	214_G	1.107	1.00
43_G	108_A	1.106	1.00
266_S	269_I	1.100	1.00
192_D	199_Y	1.093	1.00
145_V	148_K	1.085	1.00
12_P	16_V	1.073	1.00
139_G	142_D	1.069	1.00
52_S	222_S	1.069	1.00
18_A	258_A	1.069	1.00
204_I	208_I	1.064	1.00
201_M	204_I	1.061	1.00
25_A	244_L	1.056	1.00
89_A	100_S	1.055	1.00
295_L	299_G	1.054	1.00
181_I	201_M	1.050	1.00
27_G	41_L	1.049	1.00
192_D	198_V	1.048	1.00
163_A	167_I	1.046	1.00
80_A	214_G	1.042	1.00
146_L	149_I	1.036	1.00
265_Q	289_P	1.033	1.00
165_A	212_F	1.026	1.00
75_A	218_G	1.023	1.00
166_F	169_W	1.022	1.00
29_V	244_L	1.022	1.00
243_A	257_A	1.020	1.00
105_N	109_L	1.009	1.00
50_F	112_T	1.008	1.00
236_Q	239_I	1.008	1.00
168_S	208_I	1.001	1.00
159_I	163_A	1.000	1.00
208_I	212_F	0.992	1.00
217_G	221_A	0.992	1.00
141_G	144_P	0.992	1.00
81_L	84_L	0.991	1.00
177_F	201_M	0.991	1.00
88_A	93_F	0.989	1.00
73_L	76_M	0.982	1.00
24_T	216_G	0.981	1.00
91_I	101_G	0.980	1.00
42_E	237_G	0.975	1.00
47_I	51_T	0.972	1.00
54_L	116_V	0.969	1.00
109_L	113_L	0.966	1.00
55_F	58_F	0.965	1.00
66_A	69_W	0.960	1.00
268_S	288_A	0.953	1.00
19_A	158_S	0.950	1.00
140_L	143_I	0.949	1.00
53_V	57_L	0.944	1.00
243_A	258_A	0.943	1.00
209_S	213_G	0.935	1.00
60_G	66_A	0.933	1.00
115_I	118_L	0.929	1.00
55_F	71_S	0.929	1.00
86_H	100_S	0.926	1.00
32_E	244_L	0.925	1.00
38_N	41_L	0.922	1.00
20_P	216_G	0.919	1.00
44_L	213_G	0.916	1.00
284_Y	287_M	0.914	1.00
43_G	105_N	0.914	1.00
152_S	159_I	0.911	1.00
66_A	74_A	0.908	1.00
156_Y	159_I	0.903	1.00
49_A	232_T	0.898	1.00
252_I	256_G	0.897	1.00
179_L	182_R	0.896	1.00
261_F	289_P	0.889	1.00
50_F	116_V	0.885	1.00
11_V	267_L	0.881	1.00
94_R	97_Q	0.877	1.00
235_G	239_I	0.877	1.00
90_A	100_S	0.876	1.00
161_A	165_A	0.875	1.00
25_A	258_A	0.874	1.00
111_A	115_I	0.867	1.00
48_G	75_A	0.865	1.00
200_K	203_Y	0.864	1.00
22_I	165_A	0.861	1.00
157_T	219_V	0.860	1.00
34_S	181_I	0.857	1.00
114_F	284_Y	0.857	1.00
146_L	150_F	0.856	1.00
162_I	166_F	0.854	1.00
76_M	214_G	0.852	1.00
48_G	79_G	0.851	1.00
190_A	194_M	0.847	1.00
45_M	236_Q	0.846	1.00
220_Y	224_I	0.845	1.00
94_R	188_P	0.840	1.00
52_S	56_N	0.840	1.00
144_P	148_K	0.837	1.00
17_Y	21_L	0.835	1.00
28_G	41_L	0.833	1.00
143_I	146_L	0.832	1.00
286_L	289_P	0.831	1.00
31_S	38_N	0.829	1.00
49_A	221_A	0.829	1.00
70_L	74_A	0.823	1.00
172_L	181_I	0.823	1.00
199_Y	202_R	0.822	1.00
26_L	164_L	0.821	1.00
77_A	81_L	0.819	1.00
30_F	208_I	0.818	1.00
169_W	252_I	0.818	1.00
184_V	205_G	0.817	1.00
266_S	270_I	0.814	1.00
89_A	93_F	0.798	1.00
187_H	190_A	0.797	1.00
188_P	198_V	0.796	1.00
51_T	54_L	0.794	1.00
301_I	304_A	0.794	1.00
42_E	235_G	0.790	1.00
45_M	233_I	0.790	1.00
198_V	202_R	0.789	1.00
23_L	161_A	0.787	1.00
184_V	202_R	0.786	1.00
48_G	217_G	0.781	1.00
158_S	162_I	0.780	1.00
213_G	217_G	0.779	1.00
211_L	214_G	0.776	1.00
171_I	174_K	0.769	1.00
26_L	254_A	0.769	1.00
155_Y	159_I	0.765	1.00
250_H	254_A	0.764	1.00
148_K	151_F	0.761	1.00
291_I	295_L	0.760	1.00
30_F	172_L	0.759	1.00
23_L	164_L	0.759	1.00
84_L	88_A	0.756	1.00
85_I	89_A	0.755	1.00
199_Y	203_Y	0.751	1.00
156_Y	160_L	0.750	1.00
254_A	258_A	0.747	1.00
52_S	71_S	0.747	1.00
24_T	41_L	0.746	1.00
147_G	150_F	0.744	1.00
87_A	91_I	0.744	1.00
44_L	79_G	0.741	1.00
81_L	85_I	0.738	1.00
27_G	213_G	0.737	1.00
110_G	113_L	0.736	1.00
87_A	92_S	0.730	1.00
59_F	67_A	0.730	1.00
24_T	27_G	0.724	1.00
211_L	215_L	0.714	1.00
10_I	270_I	0.708	1.00
76_M	80_A	0.706	1.00
33_R	172_L	0.704	1.00
180_R	197_N	0.704	1.00
72_L	76_M	0.702	1.00
283_V	286_L	0.701	1.00
91_I	203_Y	0.699	1.00
21_L	239_I	0.699	1.00
120_Y	123_A	0.697	1.00
151_F	159_I	0.693	1.00
39_I	241_L	0.692	1.00
50_F	230_H	0.692	1.00
138_P	141_G	0.685	1.00
167_I	170_F	0.681	1.00
170_F	173_F	0.681	1.00
265_Q	285_M	0.679	1.00
242_A	293_T	0.679	1.00
259_L	263_F	0.678	1.00
90_A	97_Q	0.677	1.00
47_I	79_G	0.677	1.00
18_A	22_I	0.672	1.00
13_A	17_Y	0.671	1.00
168_S	212_F	0.669	1.00
31_S	206_V	0.668	1.00
258_A	262_G	0.662	1.00
83_S	207_M	0.656	1.00
107_L	111_A	0.656	1.00
29_V	33_R	0.652	1.00
117_K	121_G	0.649	1.00
45_M	216_G	0.646	1.00
97_Q	206_V	0.646	1.00
214_G	218_G	0.641	1.00
32_E	241_L	0.637	1.00
48_G	78_A	0.636	1.00
79_G	83_S	0.634	1.00
44_L	86_H	0.634	1.00
121_G	125_T	0.633	1.00
44_L	48_G	0.633	1.00
56_N	222_S	0.631	1.00
14_T	266_S	0.628	1.00
36_V	188_P	0.627	1.00
21_L	243_A	0.626	1.00
168_S	172_L	0.625	1.00
67_A	71_S	0.625	1.00
109_L	237_G	0.623	1.00
177_F	208_I	0.623	1.00
112_T	116_V	0.622	1.00
15_L	19_A	0.620	1.00
154_V	223_T	0.619	1.00
21_L	258_A	0.618	1.00
150_F	153_D	0.618	1.00
149_I	152_S	0.617	1.00
164_L	215_L	0.615	1.00
44_L	210_G	0.614	1.00
14_T	18_A	0.610	1.00
53_V	121_G	0.610	1.00
165_A	169_W	0.608	1.00
239_I	286_L	0.606	1.00
55_F	60_G	0.606	1.00
282_N	285_M	0.603	1.00
246_F	296_A	0.601	1.00
34_S	184_V	0.600	1.00
198_V	201_M	0.600	1.00
19_A	161_A	0.600	1.00
253_G	257_A	0.599	1.00
80_A	83_S	0.599	1.00
142_D	145_V	0.598	1.00
51_T	74_A	0.598	1.00
144_P	149_I	0.595	1.00
90_A	206_V	0.594	1.00
231_S	234_S	0.592	1.00
68_P	222_S	0.591	1.00
243_A	254_A	0.591	1.00
55_F	78_A	0.590	1.00
44_L	108_A	0.589	1.00
287_M	291_I	0.586	1.00
47_I	108_A	0.584	1.00
29_V	251_P	0.582	1.00
102_V	106_M	0.580	1.00
118_L	121_G	0.577	1.00
51_T	79_G	0.576	1.00
210_G	213_G	0.576	1.00
171_I	204_I	0.572	1.00
280_I	284_Y	0.572	1.00
30_F	171_I	0.571	1.00
26_L	169_W	0.569	1.00
16_V	158_S	0.568	1.00
16_V	223_T	0.567	1.00
191_A	198_V	0.566	1.00
268_S	280_I	0.566	1.00
246_F	257_A	0.565	1.00
106_M	110_G	0.564	1.00
171_I	175_T	0.562	1.00
26_L	165_A	0.561	1.00
51_T	75_A	0.560	1.00
220_Y	236_Q	0.558	1.00
13_A	266_S	0.557	1.00
55_F	66_A	0.554	1.00
208_I	211_L	0.553	1.00
21_L	236_Q	0.553	1.00
27_G	31_S	0.552	1.00
40_G	86_H	0.552	1.00
145_V	150_F	0.550	1.00
202_R	205_G	0.549	1.00
31_S	36_V	0.548	1.00
247_G	254_A	0.547	1.00
160_L	164_L	0.547	1.00
105_N	237_G	0.546	1.00
117_K	120_Y	0.545	1.00
152_S	156_Y	0.541	1.00
34_S	202_R	0.541	1.00
207_M	210_G	0.540	1.00
44_L	83_S	0.538	1.00
94_R	199_Y	0.538	1.00
116_V	119_I	0.537	1.00
173_F	176_P	0.537	1.00
243_A	261_F	0.536	1.00
55_F	67_A	0.534	1.00
242_A	289_P	0.534	1.00
20_P	220_Y	0.533	1.00
119_I	122_K	0.533	1.00
26_L	166_F	0.532	1.00
112_T	115_I	0.531	1.00
9_I	12_P	0.531	1.00
76_M	79_G	0.528	1.00
296_A	300_F	0.527	1.00
11_V	15_L	0.525	1.00
234_S	237_G	0.523	1.00
48_G	213_G	0.522	1.00
163_A	166_F	0.521	1.00
15_L	18_A	0.520	1.00
169_W	250_H	0.518	1.00
119_I	123_A	0.515	1.00
249_W	254_A	0.514	1.00
138_P	142_D	0.514	1.00
293_T	297_L	0.512	1.00
60_G	71_S	0.512	1.00
17_Y	266_S	0.508	1.00
68_P	72_L	0.508	1.00
143_I	147_G	0.507	1.00
33_R	249_W	0.507	1.00
227_D	230_H	0.505	1.00
54_L	57_L	0.505	1.00
49_A	228_F	0.504	1.00
57_L	125_T	0.504	1.00
108_A	112_T	0.503	1.00
57_L	60_G	0.501	1.00
189_M	193_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
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
4g1uA	2	0.7868	96.8	0.881	Contact Map
2nq2A	2	0.7962	96.8	0.881	Contact Map
2qi9A	2	0.8213	95.9	0.892	Contact Map
2gfpA	2	0.6019	42.3	0.941	Contact Map
2cfqA	1	0.6332	26.7	0.947	Contact Map
4m64A	1	0.6426	20.1	0.95	Contact Map
4tphA	2	0.6144	17.7	0.952	Contact Map
4xnjA	1	0.652	15.3	0.953	Contact Map
1u7gA	3	0.511	14.6	0.953	Contact Map
2m20A	2	0.1348	10.9	0.956	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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