EAMA - ECOLI - GREMLIN Contacts

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EAMA - Probable amino-acid metabolite efflux pump

UniProt:	P31125	Sequences: MSRKDGVLALLVVVVWGLNFVVIKVGLHNMPPLMLAGLRFMLVAFPAIFFVARPKVPLNLLLGYGLTISFAQFAFLFCAINFGMPAGLASLVLQAQAFFTIMLGAFTFGERLHGKQLAGIALAIFGVLVLIEDSLNGQHVAMLGFMLTLAAAFSWACGNIFNKKIMSHSTRPAVMSLVIWSALIPIIPFFVASLILDGSATMIHSLVTIDMTTILSLMYLAFVATIVGYGIWGTLLGRYETWRVAPLSLLVPVVGLASAALLLDERLTGLQFLGAVLIMTGLYINVFGLRWRKAVKVGS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11639
Length:	299 (265)
Sequences:	38287 (27927)
Seq/√Len:	1715.5

ECOLI - EAMA YIJE YICL YTFF YHBE YEDA RHTA YDDG RARD YIGM
BACSU - YBFH YETK YWFM YDFC YCXC YVBV YCBK YYAM YDED YOAV YDEK YXXF YRDR 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
79_A	148_T	3.276	1.00
88_L	145_F	2.876	1.00
8_L	234_T	2.873	1.00
234_T	238_R	2.765	1.00
259_A	265_E	2.688	1.00
78_C	147_L	2.575	1.00
44_A	183_L	2.469	1.00
37_G	190_F	2.390	1.00
75_F	150_A	2.361	1.00
22_V	219_Y	2.343	1.00
119_G	281_G	2.311	1.00
234_T	237_G	2.293	1.00
99_F	152_A	2.210	1.00
110_E	163_K	2.160	1.00
75_F	147_L	2.119	1.00
24_K	265_E	2.097	1.00
90_S	255_G	2.094	1.00
211_M	215_L	2.048	1.00
23_I	77_F	2.033	1.00
103_L	160_I	2.030	1.00
42_L	221_A	1.998	1.00
9_A	235_L	1.985	1.00
17_G	254_V	1.970	1.00
41_M	186_I	1.919	1.00
105_A	112_L	1.886	1.00
101_I	120_I	1.883	1.00
71_A	154_S	1.876	1.00
95_A	99_F	1.794	1.00
84_M	145_F	1.786	1.00
100_T	245_A	1.780	1.00
104_G	110_E	1.763	1.00
48_I	179_I	1.757	1.00
84_M	144_G	1.753	1.00
146_M	150_A	1.739	1.00
113_H	116_Q	1.713	1.00
283_Y	287_F	1.712	1.00
210_D	213_T	1.675	1.00
123_A	249_L	1.667	1.00
17_G	258_S	1.656	1.00
173_A	176_S	1.654	1.00
240_E	243_R	1.648	1.00
187_I	191_V	1.638	1.00
191_V	194_L	1.603	1.00
14_V	254_V	1.593	1.00
18_L	219_Y	1.589	1.00
99_F	156_A	1.584	1.00
75_F	154_S	1.582	1.00
221_A	226_I	1.571	1.00
57_P	171_R	1.559	1.00
44_A	186_I	1.557	1.00
268_T	271_Q	1.548	1.00
142_M	145_F	1.538	1.00
119_G	285_N	1.513	1.00
162_N	233_G	1.476	1.00
89_A	148_T	1.464	1.00
30_M	213_T	1.461	1.00
56_V	60_L	1.456	1.00
26_G	35_L	1.422	1.00
37_G	186_I	1.419	1.00
99_F	153_F	1.411	1.00
12_V	235_L	1.398	1.00
104_G	108_F	1.386	1.00
269_G	273_L	1.378	1.00
78_C	81_N	1.354	1.00
258_S	262_L	1.354	1.00
114_G	118_A	1.331	1.00
103_L	107_T	1.323	1.00
126_G	274_G	1.322	1.00
8_L	231_I	1.322	1.00
43_V	182_A	1.321	1.00
29_N	213_T	1.318	1.00
119_G	284_I	1.306	1.00
16_W	228_G	1.304	1.00
129_V	277_L	1.300	1.00
59_N	63_G	1.298	1.00
46_P	226_I	1.296	1.00
212_T	215_L	1.288	1.00
84_M	88_L	1.287	1.00
45_F	49_F	1.280	1.00
57_P	60_L	1.279	1.00
123_A	281_G	1.276	1.00
86_A	259_A	1.273	1.00
142_M	146_M	1.269	1.00
272_F	276_V	1.264	1.00
31_P	34_M	1.260	1.00
25_V	216_S	1.257	1.00
87_G	256_L	1.253	1.00
156_A	160_I	1.248	1.00
254_V	258_S	1.247	1.00
211_M	214_I	1.243	1.00
188_P	191_V	1.239	1.00
250_L	254_V	1.235	1.00
60_L	161_F	1.233	1.00
21_V	258_S	1.232	1.00
56_V	59_N	1.221	1.00
276_V	280_T	1.218	1.00
129_V	270_L	1.218	1.00
85_P	88_L	1.218	1.00
35_L	220_L	1.213	1.00
91_L	275_A	1.209	1.00
115_K	284_I	1.202	1.00
24_K	28_H	1.200	1.00
117_L	121_A	1.182	1.00
212_T	216_S	1.171	1.00
267_L	272_F	1.154	1.00
215_L	219_Y	1.152	1.00
206_L	209_I	1.149	1.00
143_L	147_L	1.148	1.00
103_L	157_C	1.143	1.00
163_K	240_E	1.141	1.00
63_G	161_F	1.128	1.00
33_L	192_A	1.127	1.00
7_V	11_L	1.125	1.00
80_I	89_A	1.123	1.00
57_P	172_P	1.118	1.00
121_A	125_F	1.116	1.00
44_A	179_I	1.111	1.00
61_L	65_G	1.103	1.00
130_L	274_G	1.097	1.00
100_T	241_T	1.092	1.00
37_G	41_M	1.089	1.00
62_L	184_I	1.083	1.00
12_V	231_I	1.083	1.00
84_M	148_T	1.076	1.00
126_G	278_I	1.074	1.00
143_L	146_M	1.072	1.00
62_L	65_G	1.071	1.00
18_L	258_S	1.068	1.00
37_G	193_S	1.068	1.00
70_F	188_P	1.064	1.00
60_L	64_Y	1.059	1.00
110_E	116_Q	1.058	1.00
70_F	189_F	1.057	1.00
163_K	241_T	1.056	1.00
12_V	16_W	1.051	1.00
15_V	223_V	1.051	1.00
105_A	111_R	1.048	1.00
164_K	167_S	1.046	1.00
114_G	117_L	1.040	1.00
115_K	288_G	1.037	1.00
59_N	62_L	1.037	1.00
236_L	244_V	1.035	1.00
163_K	167_S	1.030	1.00
22_V	216_S	1.030	1.00
101_I	112_L	1.029	1.00
103_L	156_A	1.023	1.00
63_G	66_L	1.021	1.00
76_L	80_I	1.020	1.00
66_L	188_P	1.006	1.00
152_A	156_A	1.005	1.00
26_G	213_T	1.005	1.00
36_A	77_F	1.004	1.00
16_W	232_W	1.002	1.00
11_L	231_I	0.999	1.00
23_I	80_I	0.998	1.00
112_L	117_L	0.996	1.00
108_F	160_I	0.989	1.00
100_T	159_N	0.988	1.00
215_L	218_M	0.985	1.00
86_A	263_L	0.983	1.00
60_L	165_I	0.981	1.00
95_A	127_V	0.980	1.00
115_K	287_F	0.980	1.00
15_V	231_I	0.975	1.00
269_G	272_F	0.970	1.00
214_I	218_M	0.969	1.00
32_P	36_A	0.968	1.00
132_E	268_T	0.965	1.00
113_H	117_L	0.960	1.00
240_E	244_V	0.952	1.00
128_L	132_E	0.947	1.00
41_M	190_F	0.945	1.00
92_V	145_F	0.944	1.00
40_F	185_P	0.939	1.00
92_V	152_A	0.939	1.00
122_L	281_G	0.935	1.00
100_T	156_A	0.933	1.00
106_F	109_G	0.931	1.00
26_G	216_S	0.927	1.00
33_L	74_A	0.927	1.00
21_V	262_L	0.924	1.00
92_V	148_T	0.924	1.00
192_A	196_L	0.923	1.00
58_L	184_I	0.916	1.00
34_M	193_S	0.914	1.00
144_G	148_T	0.912	1.00
103_L	153_F	0.911	1.00
218_M	221_A	0.910	1.00
103_L	106_F	0.909	1.00
46_P	222_F	0.906	1.00
191_V	195_I	0.906	1.00
236_L	240_E	0.901	1.00
239_Y	244_V	0.898	1.00
192_A	195_I	0.888	1.00
74_A	78_C	0.886	1.00
65_G	184_I	0.883	1.00
69_S	158_G	0.875	1.00
141_A	145_F	0.873	1.00
61_L	64_Y	0.871	1.00
13_V	17_G	0.865	1.00
13_V	254_V	0.859	1.00
111_R	115_K	0.856	1.00
91_L	128_L	0.852	1.00
183_L	187_I	0.850	1.00
86_A	265_E	0.844	1.00
239_Y	243_R	0.835	1.00
253_V	275_A	0.833	1.00
48_I	183_L	0.832	1.00
29_N	210_D	0.830	1.00
139_H	142_M	0.825	1.00
60_L	65_G	0.824	1.00
210_D	214_I	0.822	1.00
256_L	267_L	0.818	1.00
58_L	62_L	0.815	1.00
186_I	190_F	0.815	1.00
125_F	129_V	0.812	1.00
208_T	211_M	0.811	1.00
260_A	267_L	0.810	1.00
10_L	254_V	0.804	1.00
67_T	154_S	0.800	1.00
148_T	152_A	0.800	1.00
127_V	131_I	0.796	1.00
180_W	184_I	0.795	1.00
111_R	114_G	0.794	1.00
270_L	273_L	0.794	1.00
51_V	55_K	0.794	1.00
39_R	225_T	0.793	1.00
21_V	259_A	0.792	1.00
60_L	164_K	0.790	1.00
184_I	187_I	0.790	1.00
275_A	279_M	0.788	1.00
235_L	244_V	0.787	1.00
157_C	161_F	0.784	1.00
129_V	273_L	0.783	1.00
70_F	74_A	0.781	1.00
58_L	61_L	0.777	1.00
209_I	214_I	0.774	1.00
13_V	250_L	0.771	1.00
47_A	226_I	0.767	1.00
125_F	277_L	0.766	1.00
217_L	221_A	0.765	1.00
19_N	224_A	0.761	1.00
155_W	159_N	0.753	1.00
172_P	177_L	0.752	1.00
179_I	183_L	0.750	1.00
44_A	48_I	0.749	1.00
218_M	222_F	0.748	1.00
250_L	253_V	0.742	1.00
23_I	27_L	0.741	1.00
118_A	122_L	0.741	1.00
62_L	66_L	0.740	1.00
98_F	123_A	0.737	1.00
46_P	49_F	0.730	1.00
72_Q	154_S	0.728	1.00
34_M	38_L	0.725	1.00
36_A	189_F	0.725	1.00
273_L	277_L	0.725	1.00
256_L	275_A	0.721	1.00
102_M	106_F	0.717	1.00
60_L	63_G	0.714	1.00
167_S	171_R	0.713	1.00
20_F	76_L	0.712	1.00
31_P	197_D	0.712	1.00
176_S	180_W	0.711	1.00
38_L	42_L	0.708	1.00
41_M	45_F	0.706	1.00
105_A	109_G	0.705	1.00
101_I	116_Q	0.705	1.00
112_L	116_Q	0.703	1.00
227_V	231_I	0.702	1.00
100_T	160_I	0.700	1.00
79_A	144_G	0.700	1.00
95_A	98_F	0.699	1.00
195_I	198_G	0.696	1.00
178_V	181_S	0.692	1.00
21_V	86_A	0.690	1.00
25_V	263_L	0.687	1.00
260_A	266_R	0.684	1.00
184_I	188_P	0.684	1.00
155_W	232_W	0.683	1.00
61_L	172_P	0.680	1.00
50_F	175_M	0.678	1.00
174_V	178_V	0.675	1.00
71_A	75_F	0.672	1.00
230_G	234_T	0.672	1.00
79_A	89_A	0.671	1.00
246_P	285_N	0.668	1.00
259_A	263_L	0.668	1.00
9_A	239_Y	0.668	1.00
267_L	271_Q	0.667	1.00
58_L	180_W	0.666	1.00
223_V	227_V	0.666	1.00
67_T	157_C	0.665	1.00
281_G	285_N	0.664	1.00
9_A	247_L	0.664	1.00
101_I	105_A	0.664	1.00
280_T	284_I	0.663	1.00
72_Q	158_G	0.663	1.00
94_Q	127_V	0.662	1.00
92_V	149_L	0.662	1.00
84_M	89_A	0.660	1.00
219_Y	223_V	0.660	1.00
69_S	229_Y	0.660	1.00
30_M	35_L	0.659	1.00
196_L	199_S	0.658	1.00
266_R	270_L	0.655	1.00
172_P	176_S	0.653	1.00
256_L	260_A	0.652	1.00
216_S	219_Y	0.652	1.00
99_F	149_L	0.652	1.00
213_T	216_S	0.651	1.00
20_F	90_S	0.650	1.00
126_G	281_G	0.644	1.00
122_L	284_I	0.643	1.00
140_V	143_L	0.642	1.00
110_E	242_W	0.638	1.00
194_L	197_D	0.636	1.00
187_I	190_F	0.634	1.00
77_F	81_N	0.629	1.00
58_L	65_G	0.624	1.00
107_T	157_C	0.620	1.00
94_Q	97_A	0.619	1.00
282_L	285_N	0.618	1.00
67_T	161_F	0.615	1.00
271_Q	275_A	0.614	1.00
39_R	224_A	0.613	1.00
43_V	226_I	0.610	1.00
139_H	143_L	0.609	1.00
76_L	89_A	0.608	1.00
183_L	186_I	0.608	1.00
180_W	183_L	0.608	1.00
194_L	198_G	0.605	1.00
95_A	152_A	0.605	1.00
257_A	261_L	0.605	1.00
97_A	249_L	0.600	1.00
116_Q	240_E	0.599	1.00
15_V	228_G	0.599	1.00
20_F	24_K	0.595	1.00
185_P	189_F	0.594	1.00
69_S	181_S	0.592	1.00
108_F	164_K	0.587	1.00
42_L	46_P	0.585	1.00
76_L	151_A	0.584	1.00
147_L	150_A	0.582	1.00
46_P	221_A	0.581	1.00
70_F	192_A	0.580	1.00
158_G	233_G	0.580	1.00
249_L	282_L	0.575	1.00
11_L	15_V	0.573	1.00
65_G	70_F	0.569	1.00
210_D	215_L	0.568	1.00
258_S	261_L	0.564	1.00
268_T	272_F	0.564	1.00
159_N	245_A	0.564	1.00
38_L	217_L	0.563	1.00
30_M	34_M	0.562	1.00
45_F	48_I	0.560	1.00
27_L	80_I	0.559	1.00
33_L	196_L	0.558	1.00
137_G	140_V	0.556	1.00
69_S	185_P	0.554	1.00
248_S	251_V	0.549	1.00
209_I	213_T	0.547	1.00
153_F	157_C	0.547	1.00
178_V	233_G	0.546	1.00
178_V	182_A	0.545	1.00
10_L	13_V	0.540	1.00
159_N	232_W	0.540	1.00
177_L	180_W	0.540	1.00
266_R	271_Q	0.537	1.00
113_H	288_G	0.535	1.00
91_L	131_I	0.535	1.00
13_V	251_V	0.532	1.00
57_P	61_L	0.532	1.00
260_A	272_F	0.530	1.00
158_G	181_S	0.525	1.00
190_F	194_L	0.525	1.00
108_F	163_K	0.525	1.00
72_Q	76_L	0.524	1.00
17_G	251_V	0.524	1.00
162_N	166_M	0.524	1.00
27_L	81_N	0.524	1.00
235_L	239_Y	0.524	1.00
138_Q	141_A	0.522	1.00
131_I	145_F	0.517	1.00
193_S	197_D	0.516	1.00
102_M	120_I	0.515	1.00
61_L	177_L	0.513	1.00
133_D	270_L	0.512	1.00
8_L	11_L	0.511	1.00
231_I	234_T	0.510	1.00
79_A	84_M	0.510	1.00
42_L	217_L	0.509	1.00
162_N	236_L	0.509	1.00
284_I	288_G	0.507	1.00
257_A	260_A	0.505	1.00
75_F	151_A	0.501	1.00
95_A	123_A	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	0.2575	98.8	0.759	Contact Map
3b5dA	2	0.3378	98.3	0.791	Contact Map
4he8J	1	0.5217	20.7	0.934	Contact Map
2kluA	1	0.1472	19	0.936	Contact Map
2cfqA	1	0.5987	11.8	0.941	Contact Map
2m20A	2	0.1204	11.6	0.942	Contact Map
4n7wA	2	0.9298	9.7	0.944	Contact Map
1u7gA	3	0.7893	9.7	0.944	Contact Map
3l1lA	2	0.8829	8.4	0.945	Contact Map
2rddB	1	0.1104	6.5	0.948	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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