YDDG - ECOLI - GREMLIN Contacts

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YDDG - Aromatic amino acid exporter YddG

UniProt:	P46136	Sequences: MTRQKATLIGLIAIVLWSTMVGLIRGVSEGLGPVGGAAAIYSLSGLLLIFTVGFPRIRQIPKGYLLAGSLLFVSYEICLALSLGYAATHHQAIEVGMVNYLWPSLTILFAILFNGQKTNWLIVPGLLLALVGVCWVLGGDNGLHYDEIINNITTSPLSYFLAFIGAFIWAAYCTVTNKYARGFNGITVFVLLTGASLWVYYFLTPQPEMIFSTPVMIKLISAAFTLGFAYAAWNVGILHGNVTIMAVGSYFTPVLSSALAAVLLSAPLSFSFWQGALMVCGGSLLCWLATRRG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12713
Length:	293 (272)
Sequences:	35335 (26744)
Seq/√Len:	1621.6

ECOLI - YDDG YTFF YICL YHBE YIJE EAMA YEDA RARD RHTA YIGM
BACSU - YWFM YDEK YOAV YETK YDFC YBFH YVBV YCBK YYAM YCXC YDED YRDR YXXF YOJE
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
86_A	162_A	3.339	1.00
9_I	235_V	2.972	1.00
94_E	159_Y	2.804	1.00
235_V	239_H	2.747	1.00
260_A	266_A	2.696	1.00
85_Y	161_L	2.544	1.00
82_S	164_I	2.442	1.00
23_L	221_S	2.403	1.00
125_G	282_G	2.345	1.00
18_S	255_L	2.324	1.00
235_V	238_L	2.278	1.00
96_G	256_S	2.266	1.00
25_R	266_A	2.205	1.00
43_L	223_A	2.105	1.00
24_I	84_G	2.075	1.00
105_L	166_A	2.058	1.00
109_F	174_T	2.046	1.00
10_G	236_G	2.014	1.00
213_T	217_I	1.993	1.00
61_P	64_Y	1.990	1.00
116_Q	177_N	1.990	1.00
82_S	161_L	1.977	1.00
111_I	118_T	1.870	1.00
196_S	200_Y	1.869	1.00
18_S	259_L	1.852	1.00
110_A	116_Q	1.832	1.00
64_Y	182_G	1.802	1.00
223_A	227_G	1.799	1.00
101_L	105_L	1.748	1.00
15_V	255_L	1.747	1.00
106_T	246_A	1.746	1.00
90_H	159_Y	1.735	1.00
107_I	126_L	1.722	1.00
90_H	158_S	1.705	1.00
212_S	215_V	1.704	1.00
160_F	164_I	1.703	1.00
119_N	122_I	1.694	1.00
19_T	221_S	1.661	1.00
89_H	157_L	1.648	1.00
82_S	168_I	1.622	1.00
186_I	189_F	1.597	1.00
241_N	244_I	1.596	1.00
129_A	250_Y	1.578	1.00
31_L	215_V	1.562	1.00
78_C	168_I	1.546	1.00
269_S	272_F	1.545	1.00
95_V	162_A	1.527	1.00
105_L	170_A	1.502	1.00
13_A	236_G	1.491	1.00
284_L	288_L	1.467	1.00
125_G	286_C	1.443	1.00
85_Y	89_H	1.425	1.00
190_V	193_T	1.423	1.00
66_L	70_L	1.419	1.00
110_A	114_N	1.419	1.00
156_P	159_Y	1.418	1.00
38_A	199_V	1.416	1.00
63_G	67_A	1.415	1.00
9_I	232_A	1.410	1.00
176_T	234_N	1.408	1.00
270_F	274_Q	1.396	1.00
200_Y	203_L	1.395	1.00
90_H	94_E	1.379	1.00
255_L	259_L	1.375	1.00
49_I	188_V	1.373	1.00
27_V	36_G	1.372	1.00
105_L	167_F	1.353	1.00
46_L	50_F	1.345	1.00
45_G	192_L	1.341	1.00
109_F	113_F	1.336	1.00
63_G	66_L	1.333	1.00
121_L	285_L	1.330	1.00
92_A	260_A	1.330	1.00
47_L	227_G	1.315	1.00
273_W	277_L	1.312	1.00
30_G	215_V	1.312	1.00
135_W	278_M	1.304	1.00
277_L	281_G	1.304	1.00
36_G	222_A	1.301	1.00
55_P	58_R	1.296	1.00
69_S	72_F	1.293	1.00
67_A	71_L	1.279	1.00
195_A	199_V	1.269	1.00
259_L	263_L	1.266	1.00
120_W	124_P	1.265	1.00
22_G	259_L	1.265	1.00
125_G	285_L	1.263	1.00
123_V	127_L	1.262	1.00
32_G	35_G	1.258	1.00
62_K	66_L	1.256	1.00
251_F	255_L	1.255	1.00
127_L	131_V	1.252	1.00
16_L	224_F	1.248	1.00
93_I	257_S	1.248	1.00
40_I	226_L	1.245	1.00
213_T	216_M	1.241	1.00
214_P	217_I	1.237	1.00
85_Y	88_T	1.235	1.00
62_K	65_L	1.233	1.00
97_M	276_A	1.232	1.00
190_V	195_A	1.225	1.00
66_L	69_S	1.222	1.00
170_A	174_T	1.214	1.00
135_W	271_S	1.204	1.00
68_G	71_L	1.201	1.00
7_T	248_G	1.190	1.00
129_A	282_G	1.183	1.00
19_T	259_L	1.175	1.00
26_G	218_K	1.174	1.00
25_R	29_E	1.173	1.00
67_A	70_L	1.169	1.00
23_L	218_K	1.167	1.00
217_I	221_S	1.161	1.00
116_Q	122_I	1.159	1.00
8_L	12_I	1.145	1.00
13_A	232_A	1.141	1.00
268_L	273_W	1.138	1.00
156_P	160_F	1.133	1.00
178_K	181_R	1.133	1.00
89_H	161_L	1.131	1.00
89_H	158_S	1.124	1.00
132_G	275_G	1.119	1.00
136_V	275_G	1.119	1.00
118_T	123_V	1.103	1.00
189_F	193_T	1.102	1.00
98_V	166_A	1.101	1.00
83_L	87_A	1.098	1.00
38_A	42_S	1.094	1.00
91_Q	94_E	1.093	1.00
106_T	242_V	1.089	1.00
237_I	245_M	1.088	1.00
109_F	171_A	1.085	1.00
196_S	199_V	1.081	1.00
214_P	218_K	1.077	1.00
201_Y	205_P	1.077	1.00
17_W	229_A	1.076	1.00
109_F	170_A	1.075	1.00
13_A	17_W	1.075	1.00
87_A	95_V	1.069	1.00
89_H	155_S	1.069	1.00
177_N	241_N	1.052	1.00
90_H	162_A	1.050	1.00
64_Y	67_A	1.050	1.00
157_L	161_L	1.048	1.00
109_F	112_L	1.046	1.00
120_W	123_V	1.042	1.00
24_I	87_A	1.040	1.00
42_S	195_A	1.040	1.00
30_G	212_S	1.036	1.00
98_V	162_A	1.034	1.00
111_I	117_K	1.034	1.00
178_K	182_G	1.028	1.00
67_A	175_V	1.028	1.00
45_G	195_A	1.027	1.00
92_A	264_L	1.018	1.00
17_W	233_W	1.016	1.00
12_I	232_A	1.010	1.00
37_A	84_G	1.002	1.00
191_L	195_A	1.000	1.00
32_G	205_P	0.998	1.00
33_P	37_A	0.998	1.00
16_L	232_A	0.992	1.00
109_F	167_F	0.992	1.00
106_T	173_C	0.991	1.00
217_I	220_I	0.989	1.00
240_G	245_M	0.981	1.00
53_G	56_R	0.978	1.00
101_L	133_V	0.972	1.00
241_N	245_M	0.967	1.00
158_S	162_A	0.964	1.00
208_E	211_F	0.962	1.00
114_N	174_T	0.960	1.00
220_I	223_A	0.960	1.00
97_M	134_C	0.958	1.00
22_G	263_L	0.951	1.00
138_G	269_S	0.950	1.00
193_T	196_S	0.950	1.00
211_F	216_M	0.948	1.00
193_T	197_L	0.946	1.00
219_L	223_A	0.942	1.00
157_L	160_F	0.941	1.00
254_V	276_A	0.934	1.00
177_N	242_V	0.930	1.00
190_V	201_Y	0.926	1.00
270_F	273_W	0.925	1.00
92_A	266_A	0.925	1.00
237_I	241_N	0.924	1.00
166_A	170_A	0.921	1.00
34_V	81_L	0.915	1.00
194_G	198_W	0.914	1.00
54_F	58_R	0.913	1.00
132_G	279_V	0.912	1.00
11_L	255_L	0.911	1.00
119_N	123_V	0.911	1.00
65_L	68_G	0.908	1.00
121_L	288_L	0.908	1.00
112_L	115_G	0.906	1.00
177_N	181_R	0.905	1.00
216_M	220_I	0.900	1.00
106_T	170_A	0.898	1.00
98_V	159_Y	0.894	1.00
107_I	118_T	0.894	1.00
54_F	57_I	0.892	1.00
27_V	215_V	0.877	1.00
257_S	276_A	0.872	1.00
128_L	282_G	0.870	1.00
131_V	135_W	0.861	1.00
53_G	57_I	0.860	1.00
193_T	201_Y	0.858	1.00
64_Y	68_G	0.853	1.00
257_S	268_L	0.851	1.00
22_G	260_A	0.848	1.00
186_I	190_V	0.847	1.00
189_F	195_A	0.836	1.00
14_I	18_S	0.836	1.00
117_K	121_L	0.834	1.00
14_I	255_L	0.830	1.00
261_A	268_L	0.829	1.00
134_C	138_G	0.829	1.00
48_L	227_G	0.829	1.00
14_I	251_F	0.826	1.00
197_L	200_Y	0.822	1.00
190_V	205_P	0.822	1.00
39_A	43_L	0.820	1.00
67_A	179_Y	0.818	1.00
106_T	174_T	0.818	1.00
190_V	194_G	0.815	1.00
203_L	206_Q	0.814	1.00
117_K	120_W	0.814	1.00
199_V	202_F	0.805	1.00
74_S	168_I	0.805	1.00
240_G	244_I	0.805	1.00
27_V	218_K	0.802	1.00
75_Y	172_Y	0.800	1.00
21_V	83_L	0.796	1.00
42_S	46_L	0.791	1.00
261_A	267_P	0.783	1.00
169_W	173_C	0.781	1.00
70_L	175_V	0.780	1.00
224_F	228_F	0.778	1.00
131_V	278_M	0.777	1.00
155_S	159_Y	0.777	1.00
104_S	129_A	0.776	1.00
47_L	50_F	0.776	1.00
207_P	210_I	0.774	1.00
202_F	205_P	0.772	1.00
69_S	193_T	0.766	1.00
236_G	245_M	0.763	1.00
201_Y	204_T	0.762	1.00
56_R	59_Q	0.761	1.00
22_G	92_A	0.760	1.00
192_L	196_S	0.758	1.00
107_I	122_I	0.757	1.00
111_I	115_G	0.755	1.00
192_L	195_A	0.755	1.00
271_S	274_Q	0.754	1.00
47_L	223_A	0.753	1.00
135_W	274_Q	0.752	1.00
228_F	232_A	0.751	1.00
44_S	191_L	0.744	1.00
65_L	69_S	0.743	1.00
202_F	206_Q	0.742	1.00
68_G	72_F	0.741	1.00
10_G	248_G	0.740	1.00
108_L	112_L	0.739	1.00
218_K	221_S	0.739	1.00
221_S	224_F	0.738	1.00
77_I	81_L	0.736	1.00
274_Q	278_M	0.735	1.00
162_A	166_A	0.734	1.00
133_V	137_L	0.731	1.00
189_F	192_L	0.731	1.00
81_L	85_Y	0.730	1.00
212_S	216_M	0.725	1.00
190_V	197_L	0.723	1.00
45_G	49_I	0.722	1.00
86_A	158_S	0.722	1.00
16_L	225_T	0.721	1.00
124_P	128_L	0.719	1.00
76_E	79_L	0.713	1.00
260_A	264_L	0.710	1.00
251_F	254_V	0.709	1.00
193_T	200_Y	0.708	1.00
276_A	280_C	0.706	1.00
38_A	195_A	0.706	1.00
70_L	73_V	0.703	1.00
90_H	95_V	0.702	1.00
38_A	202_F	0.698	1.00
210_I	213_T	0.698	1.00
86_A	95_V	0.695	1.00
116_Q	243_T	0.687	1.00
105_L	163_F	0.686	1.00
21_V	96_G	0.686	1.00
45_G	191_L	0.685	1.00
31_L	36_G	0.681	1.00
172_Y	234_N	0.679	1.00
153_T	156_P	0.679	1.00
103_P	250_Y	0.678	1.00
7_T	244_I	0.674	1.00
171_A	175_V	0.674	1.00
113_F	171_A	0.671	1.00
64_Y	183_F	0.670	1.00
281_G	285_L	0.657	1.00
45_G	188_V	0.656	1.00
199_V	203_L	0.655	1.00
269_S	273_W	0.654	1.00
70_L	74_S	0.654	1.00
61_P	66_L	0.654	1.00
197_L	201_Y	0.654	1.00
282_G	286_C	0.653	1.00
247_V	286_C	0.652	1.00
31_L	35_G	0.649	1.00
43_L	47_L	0.648	1.00
161_L	164_I	0.648	1.00
78_C	82_S	0.646	1.00
43_L	219_L	0.646	1.00
10_G	240_G	0.645	1.00
39_A	219_L	0.642	1.00
138_G	141_N	0.639	1.00
231_A	235_V	0.638	1.00
200_Y	204_T	0.634	1.00
101_L	104_S	0.632	1.00
118_T	122_I	0.631	1.00
98_V	163_F	0.631	1.00
64_Y	70_L	0.630	1.00
35_G	39_A	0.630	1.00
130_L	250_Y	0.629	1.00
108_L	126_L	0.627	1.00
107_I	111_I	0.623	1.00
97_M	137_L	0.621	1.00
268_L	272_F	0.621	1.00
173_C	233_W	0.618	1.00
169_W	233_W	0.617	1.00
72_F	75_Y	0.616	1.00
100_Y	103_P	0.616	1.00
211_F	215_V	0.614	1.00
61_P	67_A	0.612	1.00
257_S	261_A	0.610	1.00
69_S	73_V	0.608	1.00
64_Y	71_L	0.608	1.00
20_M	225_T	0.607	1.00
191_L	194_G	0.607	1.00
59_Q	62_K	0.603	1.00
83_L	95_V	0.600	1.00
67_A	178_K	0.599	1.00
258_A	261_A	0.597	1.00
132_G	282_G	0.596	1.00
18_S	252_T	0.596	1.00
58_R	61_P	0.592	1.00
66_L	71_L	0.591	1.00
259_L	262_V	0.591	1.00
101_L	166_A	0.589	1.00
215_V	218_K	0.584	1.00
74_S	171_A	0.583	1.00
20_M	222_A	0.581	1.00
167_F	171_A	0.580	1.00
128_L	285_L	0.579	1.00
100_Y	133_V	0.578	1.00
60_I	65_L	0.575	1.00
189_F	201_Y	0.575	1.00
173_C	246_A	0.575	1.00
236_G	240_G	0.569	1.00
122_I	241_N	0.565	1.00
26_G	264_L	0.560	1.00
283_S	286_C	0.559	1.00
189_F	197_L	0.559	1.00
46_L	49_I	0.558	1.00
71_L	74_S	0.556	1.00
195_A	201_Y	0.556	1.00
135_W	272_F	0.554	1.00
62_K	68_G	0.553	1.00
172_Y	176_T	0.553	1.00
272_F	276_A	0.551	1.00
76_E	80_A	0.551	1.00
153_T	157_L	0.548	1.00
24_I	28_S	0.548	1.00
137_L	159_Y	0.547	1.00
57_I	60_I	0.544	1.00
258_A	262_V	0.544	1.00
71_L	75_Y	0.541	1.00
34_V	201_Y	0.540	1.00
16_L	229_A	0.537	1.00
86_A	90_H	0.537	1.00
209_M	212_S	0.535	1.00
267_P	271_S	0.535	1.00
106_T	110_A	0.534	1.00
267_P	272_F	0.533	1.00
44_S	223_A	0.530	1.00
61_P	65_L	0.530	1.00
100_Y	166_A	0.530	1.00
50_F	53_G	0.530	1.00
44_S	227_G	0.530	1.00
262_V	265_S	0.530	1.00
11_L	14_I	0.530	1.00
26_G	29_E	0.527	1.00
212_S	217_I	0.524	1.00
10_G	233_W	0.524	1.00
110_A	243_T	0.520	1.00
187_T	191_L	0.516	1.00
114_N	177_N	0.516	1.00
16_L	228_F	0.513	1.00
104_S	126_L	0.513	1.00
72_F	77_I	0.510	1.00
14_I	252_T	0.506	1.00
82_S	165_G	0.506	1.00
19_T	225_T	0.504	1.00
83_L	165_G	0.501	1.00
131_V	134_C	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	0.2628	98.9	0.751	Contact Map
3b5dA	2	0.3447	98.4	0.788	Contact Map
1pw4A	1	0.9659	20.1	0.936	Contact Map
2gfpA	2	0.959	15.1	0.94	Contact Map
3rkoJ	1	0.5427	11	0.943	Contact Map
3wdoA	1	0.9556	9.1	0.945	Contact Map
2cfqA	1	0.5904	7.9	0.947	Contact Map
4o9uB	2	0.256	7.7	0.947	Contact Map
4o93B	1	0.256	7.1	0.948	Contact Map
3j01B	1	0.1843	6.4	0.949	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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