ALX - ECOLI - GREMLIN Contacts

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ALX - Inner membrane protein alx

UniProt:	P42601	Sequences: MNTVGTPLLWGGFAVVVAIMLAIDLLLQGRRGAHAMTMKQAAAWSLVWVTLSLLFNAAFWWYLVQTEGRAVADPQALAFLTGYLIEKSLAVDNVFVWLMLFSYFSVPAALQRRVLVYGVLGAIVLRTIMIFTGSWLISQFDWILYIFGAFLLFTGVKMALAHEDESGIGDKPLVRWLRGHLRMTDTIDNEHFFVRKNGLLYATPLMLVLILVELSDVIFAVDSIPAIFAVTTDPFIVLTSNLFAILGLRAMYFLLAGVAERFSMLKYGLAVILVFIGIKMLIVDFYHIPIAVSLGVVFGILVMTFIINAWVNYRHDKQRGG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12731
Length:	321 (299)
Sequences:	2167 (1171)
Seq/√Len:	67.7

ECOLI - ALX
BACSU - YKOY YCEF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
188_D	194_V	4.414	1.00
56_N	80_L	4.393	1.00
195_R	200_L	4.289	1.00
34_H	40_Q	3.796	1.00
74_P	78_A	3.691	1.00
155_G	274_V	3.647	1.00
53_L	80_L	3.599	1.00
268_G	304_T	3.264	1.00
125_L	217_V	3.165	1.00
45_S	87_K	3.143	1.00
193_F	202_A	3.030	1.00
106_V	187_I	2.953	1.00
193_F	206_M	2.931	1.00
58_A	62_Y	2.921	1.00
82_G	227_I	2.845	1.00
43_A	47_V	2.800	1.00
136_L	143_I	2.520	1.00
127_T	131_F	2.486	1.00
53_L	57_A	2.418	1.00
271_V	300_I	2.398	1.00
181_L	202_A	2.382	1.00
167_G	170_D	2.338	1.00
39_K	43_A	2.310	1.00
177_L	181_L	2.310	1.00
176_W	180_H	2.257	1.00
85_I	230_V	2.200	1.00
8_L	12_G	2.166	1.00
57_A	61_W	2.126	1.00
311_V	315_H	2.120	1.00
114_V	212_V	2.089	1.00
121_G	125_L	2.080	1.00
23_I	27_L	2.062	1.00
271_V	303_M	2.045	1.00
38_M	257_G	2.010	1.00
182_R	199_L	2.009	1.00
75_Q	233_D	1.990	1.00
35_A	109_A	1.980	1.00
188_D	196_K	1.931	1.00
292_V	296_V	1.927	1.00
54_L	58_A	1.924	1.00
289_P	292_V	1.913	1.00
184_T	188_D	1.903	1.00
291_A	295_G	1.889	1.00
42_A	46_L	1.838	1.00
81_T	230_V	1.832	1.00
11_G	15_V	1.778	1.00
202_A	206_M	1.766	1.00
50_T	54_L	1.761	1.00
56_N	79_F	1.758	1.00
231_T	236_I	1.715	1.00
306_I	310_W	1.706	1.00
121_G	213_E	1.705	1.00
264_M	311_V	1.678	0.99
172_P	175_R	1.678	0.99
143_I	146_I	1.673	0.99
106_V	208_V	1.658	0.99
63_L	233_D	1.657	0.99
35_A	108_A	1.648	0.99
123_I	242_L	1.639	0.99
12_G	16_V	1.630	0.99
157_K	160_L	1.620	0.99
8_L	11_G	1.609	0.99
263_S	311_V	1.609	0.99
278_I	282_I	1.608	0.99
272_I	302_V	1.598	0.99
56_N	76_A	1.585	0.99
19_I	23_I	1.583	0.99
33_A	190_E	1.571	0.99
113_R	190_E	1.568	0.99
272_I	301_L	1.557	0.99
228_F	231_T	1.546	0.99
52_S	79_F	1.523	0.99
196_K	201_Y	1.522	0.99
272_I	300_I	1.496	0.99
282_I	285_F	1.492	0.99
156_V	160_L	1.464	0.99
141_D	145_Y	1.458	0.98
184_T	194_V	1.456	0.98
264_M	307_I	1.453	0.98
275_F	296_V	1.437	0.98
296_V	300_I	1.432	0.98
134_S	228_F	1.379	0.98
112_R	116_V	1.341	0.97
82_G	231_T	1.334	0.97
14_A	238_L	1.313	0.97
261_R	312_N	1.309	0.97
302_V	306_I	1.308	0.97
46_L	50_T	1.298	0.97
57_A	60_W	1.279	0.96
14_A	18_A	1.276	0.96
129_M	268_G	1.266	0.96
77_L	81_T	1.264	0.96
60_W	76_A	1.245	0.96
132_T	136_L	1.242	0.96
152_L	156_V	1.235	0.96
87_K	246_L	1.231	0.96
94_V	97_W	1.227	0.96
178_R	185_D	1.215	0.95
85_I	229_A	1.211	0.95
127_T	238_L	1.208	0.95
91_V	94_V	1.206	0.95
161_A	164_D	1.205	0.95
22_A	26_L	1.204	0.95
78_A	236_I	1.189	0.95
36_M	41_A	1.188	0.95
108_A	111_Q	1.187	0.95
25_L	116_V	1.160	0.94
148_G	268_G	1.157	0.94
148_G	281_L	1.155	0.94
117_Y	121_G	1.148	0.94
90_A	251_M	1.146	0.94
236_I	239_T	1.144	0.94
49_V	87_K	1.139	0.93
60_W	65_Q	1.129	0.93
117_Y	209_L	1.128	0.93
82_G	237_V	1.111	0.93
64_V	76_A	1.106	0.92
54_L	57_A	1.094	0.92
111_Q	252_Y	1.094	0.92
53_L	56_N	1.093	0.92
36_M	108_A	1.093	0.92
106_V	209_L	1.090	0.92
183_M	202_A	1.079	0.91
282_I	286_Y	1.073	0.91
49_V	53_L	1.064	0.91
25_L	120_L	1.063	0.91
172_P	176_W	1.063	0.91
23_I	48_W	1.049	0.90
38_M	42_A	1.044	0.90
152_L	277_G	1.043	0.90
171_K	174_V	1.041	0.90
305_F	309_A	1.037	0.90
109_A	113_R	1.036	0.90
263_S	312_N	1.033	0.89
50_T	57_A	1.031	0.89
76_A	80_L	1.027	0.89
274_V	278_I	1.025	0.89
128_I	132_T	1.010	0.88
13_F	239_T	1.006	0.88
177_L	180_H	1.003	0.88
296_V	299_G	0.999	0.88
137_I	143_I	0.996	0.88
218_I	221_V	0.985	0.87
301_L	304_T	0.980	0.87
187_I	208_V	0.973	0.86
59_F	236_I	0.972	0.86
171_K	214_L	0.971	0.86
98_L	259_A	0.969	0.86
33_A	40_Q	0.969	0.86
88_S	264_M	0.953	0.85
252_Y	255_L	0.952	0.85
14_A	19_I	0.951	0.85
177_L	207_L	0.935	0.84
184_T	201_Y	0.929	0.84
137_I	144_L	0.925	0.84
83_Y	87_K	0.925	0.84
114_V	120_L	0.924	0.83
87_K	250_A	0.919	0.83
9_L	58_A	0.911	0.83
23_I	29_G	0.909	0.82
25_L	112_R	0.908	0.82
11_G	14_A	0.904	0.82
57_A	80_L	0.904	0.82
53_L	79_F	0.893	0.81
75_Q	236_I	0.888	0.81
16_V	58_A	0.885	0.81
168_I	173_L	0.880	0.80
11_G	22_A	0.880	0.80
310_W	314_R	0.875	0.80
42_A	254_L	0.872	0.80
206_M	210_I	0.871	0.80
153_F	156_V	0.870	0.80
12_G	15_V	0.869	0.80
26_L	29_G	0.865	0.79
176_W	179_G	0.854	0.78
41_A	44_W	0.854	0.78
174_V	207_L	0.854	0.78
49_V	60_W	0.848	0.78
18_A	22_A	0.847	0.78
196_K	199_L	0.846	0.78
23_I	28_Q	0.845	0.78
111_Q	256_A	0.845	0.78
303_M	307_I	0.837	0.77
103_Y	171_K	0.832	0.77
234_P	242_L	0.832	0.77
169_G	185_D	0.829	0.76
150_F	153_F	0.828	0.76
145_Y	284_D	0.827	0.76
44_W	48_W	0.826	0.76
299_G	303_M	0.817	0.75
311_V	314_R	0.815	0.75
292_V	295_G	0.813	0.75
45_S	49_V	0.812	0.75
183_M	201_Y	0.811	0.75
122_A	216_D	0.809	0.74
90_A	284_D	0.806	0.74
97_W	212_V	0.806	0.74
87_K	251_M	0.804	0.74
58_A	63_L	0.804	0.74
99_M	221_V	0.803	0.74
213_E	245_I	0.802	0.74
149_A	281_L	0.802	0.74
306_I	309_A	0.799	0.74
196_K	200_L	0.798	0.73
299_G	302_V	0.798	0.73
210_I	214_L	0.796	0.73
38_M	45_S	0.796	0.73
150_F	154_T	0.794	0.73
192_F	213_E	0.793	0.73
52_S	83_Y	0.792	0.73
112_R	213_E	0.789	0.73
300_I	303_M	0.787	0.72
143_I	150_F	0.787	0.72
224_I	227_I	0.785	0.72
102_S	105_S	0.782	0.72
144_L	283_V	0.782	0.72
208_V	215_S	0.781	0.72
227_I	230_V	0.778	0.72
267_Y	270_A	0.778	0.72
26_L	32_G	0.778	0.72
254_L	261_R	0.771	0.71
144_L	280_M	0.770	0.71
182_R	201_Y	0.769	0.71
98_L	209_L	0.766	0.70
32_G	35_A	0.763	0.70
36_M	98_L	0.762	0.70
94_V	280_M	0.759	0.70
28_Q	36_M	0.758	0.70
91_V	301_L	0.755	0.69
41_A	45_S	0.750	0.69
75_Q	78_A	0.750	0.69
178_R	183_M	0.747	0.68
154_T	158_M	0.747	0.68
104_F	208_V	0.744	0.68
84_L	298_F	0.743	0.68
51_L	97_W	0.742	0.68
59_F	76_A	0.741	0.68
125_L	213_E	0.740	0.68
165_E	288_I	0.738	0.68
170_D	175_R	0.736	0.67
45_S	48_W	0.730	0.67
78_A	290_I	0.730	0.67
304_T	307_I	0.728	0.66
116_V	213_E	0.721	0.66
197_N	200_L	0.715	0.65
159_A	274_V	0.710	0.65
46_L	57_A	0.709	0.64
9_L	63_L	0.709	0.64
241_N	244_A	0.706	0.64
59_F	75_Q	0.704	0.64
17_V	63_L	0.700	0.63
36_M	112_R	0.699	0.63
149_A	153_F	0.695	0.63
300_I	304_T	0.695	0.63
233_D	236_I	0.694	0.63
133_G	247_G	0.694	0.63
142_W	145_Y	0.690	0.62
179_G	183_M	0.686	0.62
230_V	267_Y	0.685	0.62
173_L	214_L	0.682	0.61
309_A	312_N	0.681	0.61
114_V	209_L	0.680	0.61
56_N	239_T	0.679	0.61
42_A	45_S	0.678	0.61
44_W	47_V	0.677	0.61
16_V	19_I	0.677	0.61
133_G	279_K	0.674	0.61
122_A	125_L	0.673	0.60
17_V	272_I	0.673	0.60
141_D	284_D	0.669	0.60
23_I	26_L	0.667	0.60
195_R	201_Y	0.667	0.60
129_M	304_T	0.666	0.60
197_N	201_Y	0.666	0.60
244_A	256_A	0.663	0.59
152_L	274_V	0.663	0.59
209_L	213_E	0.659	0.59
96_V	298_F	0.659	0.59
227_I	237_V	0.655	0.58
307_I	311_V	0.654	0.58
177_L	210_I	0.651	0.58
51_L	58_A	0.650	0.58
15_V	19_I	0.649	0.58
141_D	287_H	0.647	0.57
152_L	281_L	0.647	0.57
79_F	243_F	0.647	0.57
170_D	179_G	0.644	0.57
191_H	199_L	0.643	0.57
144_L	155_G	0.642	0.57
293_S	297_V	0.640	0.57
16_V	20_M	0.636	0.56
182_R	185_D	0.635	0.56
117_Y	213_E	0.635	0.56
232_T	283_V	0.631	0.56
153_F	157_K	0.631	0.56
20_M	28_Q	0.631	0.56
98_L	255_L	0.630	0.55
267_Y	271_V	0.630	0.55
29_G	32_G	0.629	0.55
109_A	189_N	0.624	0.55
20_M	32_G	0.622	0.54
235_F	239_T	0.622	0.54
36_M	40_Q	0.622	0.54
119_V	208_V	0.621	0.54
104_F	174_V	0.621	0.54
16_V	51_L	0.619	0.54
83_Y	243_F	0.616	0.54
74_P	156_V	0.615	0.54
158_M	270_A	0.615	0.54
278_I	288_I	0.614	0.54
113_R	117_Y	0.611	0.53
194_V	197_N	0.610	0.53
80_L	84_L	0.609	0.53
21_L	116_V	0.608	0.53
215_S	269_L	0.607	0.53
90_A	217_V	0.606	0.53
9_L	16_V	0.606	0.53
181_L	201_Y	0.606	0.53
13_F	235_F	0.605	0.52
9_L	13_F	0.604	0.52
36_M	250_A	0.601	0.52
34_H	112_R	0.600	0.52
271_V	296_V	0.597	0.51
160_L	199_L	0.597	0.51
59_F	64_V	0.594	0.51
171_K	177_L	0.594	0.51
94_V	269_L	0.592	0.51
15_V	26_L	0.591	0.51
81_T	85_I	0.591	0.51
85_I	137_I	0.589	0.51
136_L	140_F	0.588	0.50
57_A	76_A	0.586	0.50
179_G	313_Y	0.585	0.50
12_G	19_I	0.584	0.50
65_Q	175_R	0.584	0.50
194_V	201_Y	0.584	0.50
39_K	51_L	0.584	0.50
61_W	292_V	0.583	0.50
27_L	233_D	0.582	0.50
176_W	194_V	0.582	0.50
177_L	202_A	0.580	0.49
85_I	227_I	0.580	0.49
310_W	316_D	0.580	0.49
41_A	208_V	0.579	0.49
107_P	114_V	0.577	0.49
298_F	302_V	0.577	0.49
217_V	266_K	0.576	0.49
147_F	297_V	0.575	0.49
82_G	258_V	0.575	0.49
65_Q	76_A	0.574	0.49
94_V	252_Y	0.572	0.48
124_V	128_I	0.571	0.48
114_V	213_E	0.569	0.48
29_G	112_R	0.569	0.48
282_I	288_I	0.568	0.48
43_A	46_L	0.568	0.48
16_V	22_A	0.567	0.48
94_V	211_L	0.566	0.48
116_V	269_L	0.565	0.48
20_M	48_W	0.565	0.48
145_Y	149_A	0.563	0.47
98_L	102_S	0.563	0.47
28_Q	44_W	0.562	0.47
145_Y	227_I	0.562	0.47
130_I	151_L	0.562	0.47
157_K	161_A	0.562	0.47
106_V	206_M	0.559	0.47
29_G	36_M	0.557	0.47
235_F	272_I	0.556	0.47
144_L	276_I	0.554	0.46
185_D	195_R	0.553	0.46
310_W	313_Y	0.553	0.46
91_V	98_L	0.553	0.46
20_M	47_V	0.551	0.46
49_V	52_S	0.551	0.46
272_I	296_V	0.551	0.46
131_F	235_F	0.548	0.46
85_I	206_M	0.547	0.46
47_V	50_T	0.546	0.45
19_I	32_G	0.546	0.45
95_F	220_A	0.546	0.45
125_L	128_I	0.545	0.45
9_L	19_I	0.545	0.45
215_S	252_Y	0.544	0.45
18_A	35_A	0.544	0.45
193_F	200_L	0.544	0.45
117_Y	254_L	0.541	0.45
63_L	75_Q	0.541	0.45
295_G	299_G	0.540	0.45
142_W	146_I	0.540	0.45
81_T	136_L	0.538	0.44
39_K	183_M	0.537	0.44
119_V	264_M	0.536	0.44
270_A	274_V	0.536	0.44
99_M	266_K	0.535	0.44
209_L	212_V	0.535	0.44
29_G	190_E	0.534	0.44
129_M	297_V	0.533	0.44
84_L	159_A	0.531	0.44
176_W	181_L	0.529	0.43
111_Q	174_V	0.526	0.43
52_S	246_L	0.524	0.43
41_A	280_M	0.523	0.43
21_L	26_L	0.523	0.43
9_L	23_I	0.522	0.43
159_A	162_H	0.522	0.43
82_G	217_V	0.522	0.43
141_D	283_V	0.522	0.43
91_V	243_F	0.521	0.42
228_F	234_P	0.521	0.42
39_K	146_I	0.520	0.42
158_M	267_Y	0.520	0.42
307_I	310_W	0.520	0.42
250_A	297_V	0.518	0.42
272_I	297_V	0.517	0.42
192_F	217_V	0.517	0.42
107_P	187_I	0.516	0.42
206_M	303_M	0.516	0.42
214_L	218_I	0.516	0.42
129_M	242_L	0.515	0.42
145_Y	250_A	0.514	0.42
25_L	28_Q	0.514	0.42
85_I	297_V	0.513	0.42
26_L	33_A	0.513	0.42
127_T	244_A	0.511	0.41
99_M	152_L	0.510	0.41
170_D	178_R	0.510	0.41
40_Q	44_W	0.509	0.41
90_A	211_L	0.509	0.41
77_L	291_A	0.509	0.41
295_G	298_F	0.508	0.41
186_T	194_V	0.508	0.41
65_Q	74_P	0.508	0.41
17_V	246_L	0.508	0.41
229_A	283_V	0.507	0.41
169_G	172_P	0.507	0.41
32_G	83_Y	0.505	0.41
17_V	139_Q	0.504	0.40
34_H	37_T	0.504	0.40
143_I	191_H	0.504	0.40
283_V	287_H	0.503	0.40
244_A	255_L	0.503	0.40
45_S	96_V	0.502	0.40
38_M	88_S	0.502	0.40
145_Y	154_T	0.501	0.40
10_W	14_A	0.501	0.40
45_S	246_L	0.500	0.40
115_L	120_L	0.500	0.40

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
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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
1pw4A	1	0.8941	10.8	0.975	Contact Map
4pypA	1	0.9408	8.7	0.976	Contact Map
3o7qA	1	0.8785	8.6	0.976	Contact Map
4xnjA	1	0.4829	8.6	0.976	Contact Map
4w6vA	1	0.4766	8.2	0.976	Contact Map
3giaA	1	0.8692	8.1	0.976	Contact Map
4tphA	2	0.4206	8	0.976	Contact Map
2cfqA	1	0.486	7.4	0.976	Contact Map
4he8J	1	0.4798	6.8	0.977	Contact Map
2gfpA	2	0.866	6.3	0.977	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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