YIJE - ECOLI - GREMLIN Contacts

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YIJE - Uncharacterized inner membrane transporter yiJE

UniProt:	P0ABT8	Sequences: MSAAGKSNPLAISGLVVLTLIWSYSWIFMKQVTSYIGAFDFTALRCIFGALVLFIVLLLRGRGMRPTPFKYTLAIALLQTCGMVGLAQWALVSGGAGKVAILSYTMPFWVVIFAALFLGERLRRGQYFAILIAAFGLFLVLQPWQLDFSSMKSAMLAILSGVSWGASAIVAKRLYARHPRVDLLSLTSWQMLYAALVMSVVALLVPQREIDWQPTVFWALAYSAILATALAWSLWLFVLKNLPASIASLSTLAVPVCGVLFSWWLLGENPGAVEGSGIVLIVLALALVSRKKKEAVSVKRI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11902
Length:	301 (276)
Sequences:	38916 (28567)
Seq/√Len:	1719.5

ECOLI - YIJE YICL YHBE RHTA YEDA EAMA YTFF RARD YDDG YIGM
BACSU - YVBV YCBK YDFC YWFM YBFH YETK YDED YCXC YXXF YYAM YOAV YDEK YRDR YOJE
HALSA - Q9HQ34 Q9HHP6 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_A	157_A	3.429	1.00
14_G	237_F	2.857	1.00
98_K	154_A	2.783	1.00
262_S	268_E	2.678	1.00
237_F	241_N	2.661	1.00
89_W	156_L	2.451	1.00
43_A	199_S	2.450	1.00
50_A	192_L	2.428	1.00
129_A	284_A	2.418	1.00
86_L	159_L	2.368	1.00
28_F	222_Y	2.307	1.00
237_F	240_K	2.220	1.00
109_W	161_G	2.184	1.00
120_E	172_K	2.150	1.00
30_K	268_E	2.121	1.00
86_L	156_L	2.086	1.00
214_P	218_W	2.081	1.00
113_F	169_I	2.076	1.00
15_L	238_V	1.971	1.00
100_A	258_G	1.966	1.00
23_S	257_C	1.954	1.00
115_A	122_L	1.953	1.00
48_F	224_A	1.939	1.00
82_G	163_S	1.927	1.00
47_I	195_A	1.897	1.00
94_G	154_A	1.876	1.00
29_M	88_Q	1.871	1.00
111_V	130_I	1.867	1.00
114_A	120_E	1.806	1.00
155_M	159_L	1.804	1.00
105_T	109_W	1.780	1.00
54_F	188_S	1.769	1.00
110_V	248_S	1.759	1.00
224_A	229_A	1.725	1.00
123_R	126_Q	1.719	1.00
23_S	261_F	1.673	1.00
94_G	153_S	1.656	1.00
200_V	203_L	1.653	1.00
93_S	152_K	1.652	1.00
55_I	58_L	1.621	1.00
50_A	195_A	1.621	1.00
133_A	252_L	1.603	1.00
286_A	290_R	1.602	1.00
24_Y	222_Y	1.595	1.00
243_P	246_I	1.593	1.00
196_L	200_V	1.582	1.00
86_L	163_S	1.576	1.00
151_M	154_A	1.573	1.00
182_D	185_S	1.567	1.00
109_W	165_G	1.521	1.00
20_L	257_C	1.513	1.00
68_P	180_R	1.509	1.00
43_A	195_A	1.495	1.00
271_G	274_E	1.491	1.00
209_E	212_W	1.490	1.00
129_A	288_V	1.475	1.00
36_I	216_V	1.461	1.00
99_V	157_A	1.450	1.00
18_L	238_V	1.417	1.00
113_F	117_F	1.411	1.00
54_F	58_L	1.406	1.00
56_V	60_R	1.392	1.00
272_A	276_S	1.391	1.00
89_W	93_S	1.390	1.00
261_F	265_L	1.377	1.00
94_G	98_K	1.376	1.00
109_W	162_V	1.373	1.00
35_Y	216_V	1.368	1.00
213_Q	216_V	1.357	1.00
70_K	74_A	1.349	1.00
96_A	262_S	1.342	1.00
114_A	118_L	1.336	1.00
21_I	226_L	1.331	1.00
41_F	223_S	1.327	1.00
171_A	236_L	1.325	1.00
32_V	41_F	1.323	1.00
139_L	280_L	1.316	1.00
55_I	59_L	1.310	1.00
275_G	279_V	1.309	1.00
214_P	217_F	1.292	1.00
22_W	231_A	1.290	1.00
52_V	229_A	1.288	1.00
151_M	155_M	1.285	1.00
133_A	284_A	1.284	1.00
257_C	261_F	1.282	1.00
124_R	128_F	1.272	1.00
14_G	234_L	1.271	1.00
65_R	68_P	1.271	1.00
27_I	261_F	1.271	1.00
31_Q	219_A	1.268	1.00
136_G	277_G	1.260	1.00
89_W	92_V	1.259	1.00
95_G	98_K	1.259	1.00
215_T	218_W	1.254	1.00
93_S	156_L	1.248	1.00
127_Y	131_L	1.242	1.00
49_G	191_M	1.242	1.00
210_I	213_Q	1.241	1.00
51_L	55_I	1.239	1.00
279_V	283_L	1.232	1.00
71_Y	170_V	1.228	1.00
139_L	273_V	1.226	1.00
129_A	287_L	1.224	1.00
113_F	166_A	1.224	1.00
253_A	257_C	1.219	1.00
97_G	259_V	1.217	1.00
67_T	71_Y	1.201	1.00
218_W	222_Y	1.191	1.00
37_G	40_D	1.187	1.00
172_K	243_P	1.174	1.00
270_P	275_G	1.173	1.00
12_I	250_S	1.170	1.00
197_V	200_V	1.169	1.00
131_L	135_F	1.168	1.00
125_G	287_L	1.167	1.00
74_A	170_V	1.166	1.00
101_I	278_I	1.165	1.00
165_G	169_I	1.164	1.00
73_L	193_Y	1.158	1.00
67_T	70_K	1.158	1.00
13_S	17_V	1.143	1.00
215_T	219_A	1.137	1.00
43_A	202_A	1.131	1.00
152_K	156_L	1.125	1.00
81_C	197_V	1.118	1.00
45_R	228_T	1.118	1.00
140_V	277_G	1.117	1.00
116_L	119_G	1.113	1.00
110_V	244_A	1.105	1.00
91_L	99_V	1.105	1.00
30_K	34_S	1.099	1.00
58_L	62_R	1.099	1.00
81_C	198_M	1.085	1.00
136_G	281_I	1.084	1.00
43_A	47_I	1.084	1.00
172_K	176_A	1.082	1.00
122_L	127_Y	1.076	1.00
28_F	219_A	1.073	1.00
173_R	176_A	1.065	1.00
111_V	122_L	1.062	1.00
102_L	161_G	1.057	1.00
93_S	153_S	1.053	1.00
239_L	247_A	1.048	1.00
29_M	91_L	1.046	1.00
50_A	188_S	1.040	1.00
76_A	193_Y	1.039	1.00
17_V	234_L	1.039	1.00
11_A	238_V	1.038	1.00
152_K	155_M	1.036	1.00
39_F	201_V	1.035	1.00
24_Y	261_F	1.034	1.00
94_G	157_A	1.033	1.00
63_G	66_P	1.031	1.00
120_E	126_Q	1.030	1.00
208_R	211_D	1.029	1.00
77_L	197_V	1.023	1.00
87_A	91_L	1.022	1.00
118_L	169_I	1.021	1.00
22_W	235_W	1.020	1.00
125_G	291_K	1.019	1.00
172_K	244_A	1.016	1.00
18_L	22_W	1.013	1.00
32_V	216_V	1.012	1.00
18_L	234_L	1.010	1.00
105_T	137_L	1.008	1.00
79_Q	167_S	1.007	1.00
42_T	88_Q	1.006	1.00
70_K	73_L	1.006	1.00
110_V	168_A	1.004	1.00
21_I	234_L	1.003	1.00
113_F	165_G	0.999	1.00
221_A	224_A	0.991	1.00
124_R	127_Y	0.988	1.00
96_A	266_L	0.987	1.00
161_G	165_G	0.983	1.00
218_W	221_A	0.980	1.00
71_Y	174_L	0.975	1.00
115_A	121_R	0.973	1.00
68_P	181_V	0.972	1.00
113_F	162_V	0.970	1.00
38_A	42_T	0.960	1.00
32_V	219_A	0.948	1.00
153_S	157_A	0.947	1.00
239_L	243_P	0.943	1.00
272_A	275_G	0.939	1.00
69_F	193_Y	0.939	1.00
78_L	166_A	0.938	1.00
125_G	290_R	0.931	1.00
96_A	268_E	0.931	1.00
132_I	284_A	0.930	1.00
39_F	85_G	0.924	1.00
93_S	150_S	0.921	1.00
113_F	116_L	0.920	1.00
200_V	204_L	0.917	1.00
102_L	154_A	0.914	1.00
243_P	247_A	0.912	1.00
11_A	241_N	0.908	1.00
78_L	163_S	0.903	1.00
62_R	182_D	0.900	1.00
201_V	205_V	0.898	1.00
58_L	61_G	0.896	1.00
142_Q	271_G	0.893	1.00
27_I	265_L	0.892	1.00
102_L	157_A	0.888	1.00
52_V	225_I	0.878	1.00
123_R	127_Y	0.876	1.00
110_V	165_G	0.873	1.00
40_D	202_A	0.872	1.00
46_C	194_A	0.866	1.00
138_F	142_Q	0.859	1.00
217_F	221_A	0.859	1.00
121_R	125_G	0.857	1.00
201_V	204_L	0.856	1.00
242_L	246_I	0.853	1.00
19_T	23_S	0.850	1.00
135_F	139_L	0.849	1.00
47_I	199_S	0.849	1.00
101_I	138_F	0.846	1.00
242_L	247_A	0.839	1.00
68_P	71_Y	0.835	1.00
75_I	79_Q	0.832	1.00
35_Y	213_Q	0.825	1.00
256_V	278_I	0.825	1.00
192_L	196_L	0.819	1.00
19_T	257_C	0.818	1.00
54_F	192_L	0.814	1.00
238_V	247_A	0.812	1.00
71_Y	173_R	0.810	1.00
27_I	262_S	0.807	1.00
263_W	270_P	0.807	1.00
253_A	256_V	0.803	1.00
115_A	119_G	0.802	1.00
273_V	276_S	0.790	1.00
85_G	89_W	0.790	1.00
74_A	77_L	0.790	1.00
135_F	280_L	0.787	1.00
57_L	61_G	0.787	1.00
164_W	168_A	0.786	1.00
259_V	270_P	0.779	1.00
71_Y	75_I	0.777	1.00
137_L	141_L	0.777	1.00
16_V	257_C	0.774	1.00
166_A	170_V	0.771	1.00
29_M	33_T	0.768	1.00
108_F	133_A	0.766	1.00
76_A	81_C	0.766	1.00
278_I	282_V	0.766	1.00
121_R	124_R	0.765	1.00
193_Y	196_L	0.764	1.00
128_F	132_I	0.761	1.00
139_L	276_S	0.758	1.00
276_S	280_L	0.757	1.00
221_A	225_I	0.756	1.00
188_S	192_L	0.754	1.00
42_T	198_M	0.754	1.00
81_C	85_G	0.754	1.00
284_A	288_V	0.747	1.00
157_A	161_G	0.743	1.00
90_A	99_V	0.740	1.00
66_P	69_F	0.736	1.00
220_L	224_A	0.735	1.00
259_V	278_I	0.735	1.00
15_L	250_S	0.731	1.00
112_I	116_L	0.731	1.00
150_S	154_A	0.730	1.00
82_G	86_L	0.730	1.00
102_L	158_I	0.724	1.00
59_L	62_R	0.724	1.00
50_A	54_F	0.717	1.00
189_W	193_Y	0.717	1.00
109_W	158_I	0.714	1.00
219_A	222_Y	0.713	1.00
71_Y	74_A	0.712	1.00
72_T	181_V	0.712	1.00
66_P	70_K	0.709	1.00
53_L	229_A	0.706	1.00
83_M	163_S	0.704	1.00
230_L	234_L	0.704	1.00
52_V	55_I	0.704	1.00
36_I	41_F	0.704	1.00
283_L	287_L	0.703	1.00
122_L	126_Q	0.701	1.00
193_Y	197_V	0.698	1.00
192_L	195_A	0.697	1.00
226_L	230_L	0.696	1.00
60_R	182_D	0.695	1.00
111_V	126_Q	0.693	1.00
194_A	198_M	0.693	1.00
47_I	51_L	0.693	1.00
69_F	73_L	0.691	1.00
83_M	167_S	0.691	1.00
185_S	189_W	0.687	1.00
107_P	252_L	0.686	1.00
19_T	253_A	0.686	1.00
27_I	96_A	0.684	1.00
195_A	199_S	0.684	1.00
40_D	44_L	0.684	1.00
120_E	245_S	0.680	1.00
164_W	235_W	0.679	1.00
78_L	170_V	0.678	1.00
57_L	188_S	0.678	1.00
31_Q	266_L	0.677	1.00
25_S	227_A	0.677	1.00
136_G	284_A	0.677	1.00
110_V	169_I	0.676	1.00
222_Y	226_L	0.674	1.00
94_G	99_V	0.673	1.00
15_L	242_L	0.672	1.00
105_T	108_F	0.668	1.00
263_W	269_N	0.667	1.00
44_L	48_F	0.663	1.00
56_V	184_L	0.661	1.00
132_I	287_L	0.658	1.00
76_A	79_Q	0.657	1.00
196_L	199_S	0.657	1.00
181_V	186_L	0.657	1.00
26_W	87_A	0.655	1.00
69_F	189_W	0.655	1.00
187_T	190_Q	0.650	1.00
37_G	206_P	0.650	1.00
270_P	274_E	0.649	1.00
216_V	219_A	0.648	1.00
262_S	266_L	0.647	1.00
12_I	246_I	0.633	1.00
183_L	187_T	0.631	1.00
21_I	231_A	0.630	1.00
87_A	160_S	0.626	1.00
73_L	77_L	0.623	1.00
260_L	264_W	0.620	1.00
48_F	52_V	0.620	1.00
233_S	237_F	0.619	1.00
87_A	99_V	0.617	1.00
52_V	224_A	0.617	1.00
104_Y	137_L	0.615	1.00
249_L	288_V	0.614	1.00
259_V	263_W	0.610	1.00
26_W	100_A	0.610	1.00
56_V	59_L	0.602	1.00
17_V	21_I	0.600	1.00
90_A	153_S	0.596	1.00
208_R	212_W	0.596	1.00
156_L	159_L	0.596	1.00
147_D	150_S	0.595	1.00
111_V	115_A	0.595	1.00
101_I	141_L	0.594	1.00
86_L	160_S	0.592	1.00
69_F	72_T	0.591	1.00
118_L	173_R	0.589	1.00
187_T	236_L	0.588	1.00
72_T	76_A	0.588	1.00
11_A	242_L	0.588	1.00
105_T	161_G	0.584	1.00
274_E	278_I	0.584	1.00
104_Y	107_P	0.583	1.00
81_C	201_V	0.581	1.00
168_A	235_W	0.581	1.00
126_Q	243_P	0.579	1.00
49_G	229_A	0.579	1.00
189_W	192_L	0.569	1.00
269_N	273_V	0.568	1.00
104_Y	161_G	0.568	1.00
203_L	206_P	0.564	1.00
73_L	76_A	0.564	1.00
148_F	151_M	0.563	1.00
24_Y	227_A	0.562	1.00
19_T	254_V	0.561	1.00
176_A	180_R	0.560	1.00
33_T	91_L	0.555	1.00
271_G	275_G	0.554	1.00
282_V	286_A	0.551	1.00
210_I	214_P	0.548	1.00
260_L	263_W	0.548	1.00
21_I	227_A	0.548	1.00
36_I	40_D	0.544	1.00
117_F	166_A	0.543	1.00
112_I	130_I	0.542	1.00
167_S	236_L	0.542	1.00
60_R	184_L	0.541	1.00
57_L	185_S	0.540	1.00
211_D	214_P	0.538	1.00
72_T	186_L	0.536	1.00
88_Q	92_V	0.535	1.00
114_A	245_S	0.534	1.00
26_W	30_K	0.534	1.00
118_L	172_K	0.529	1.00
101_I	140_V	0.529	1.00
263_W	275_G	0.527	1.00
11_A	14_G	0.526	1.00
141_L	154_A	0.526	1.00
168_A	248_S	0.526	1.00
27_I	258_G	0.524	1.00
83_M	87_A	0.524	1.00
251_T	254_V	0.524	1.00
285_L	288_V	0.524	1.00
252_L	285_L	0.523	1.00
213_Q	217_F	0.523	1.00
261_F	264_W	0.517	1.00
154_A	158_I	0.517	1.00
39_F	205_V	0.513	1.00
105_T	133_A	0.511	1.00
171_A	239_L	0.509	1.00
238_V	242_L	0.509	1.00
263_W	267_G	0.508	1.00
12_I	16_V	0.508	1.00
44_L	220_L	0.507	1.00
162_V	166_A	0.507	1.00
212_W	217_F	0.506	1.00
57_L	60_R	0.504	1.00
23_S	258_G	0.503	1.00
143_P	273_V	0.503	1.00
209_E	213_Q	0.501	1.00
128_F	135_F	0.501	1.00
42_T	85_G	0.500	1.00
100_A	104_Y	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	0.2558	98.8	0.754	Contact Map
3b5dA	2	0.3355	98.3	0.792	Contact Map
1pw4A	1	0.9635	27.8	0.931	Contact Map
4j05A	3	0.9502	27.7	0.931	Contact Map
4he8J	1	0.5083	26.5	0.931	Contact Map
1u7gA	3	0.7907	22.3	0.934	Contact Map
3wdoA	1	0.6512	17.9	0.936	Contact Map
4pgrA	1	0.6478	17	0.937	Contact Map
4ldsA	2	0.6777	16.9	0.937	Contact Map
3mktA	1	0.8704	15.9	0.938	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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