GLPF - ECOLI - GREMLIN Contacts

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GLPF - Glycerol uptake facilitator protein

UniProt:	P0AER0	Sequences: MSQTSTLKGQCIAEFLGTGLLIFFGVGCVAALKVAGASFGQWEISVIWGLGVAMAIYLTAGVSGAHLNPAVTIALWLFACFDKRKVIPFIVSQVAGAFCAAALVYGLYYNLFFDFEQTHHIVRGSVESVDLAGTFSTYPNPHINFVQAFAVEMVITAILMGLILALTDDGNGVPRGPLAPLLIGLLIAVIGASMGPLTGFAMNPARDFGPKVFAWLAGWGNVAFTGGRDIPYFLVPLFGPIVGAIVGAFAYRKLIGRHLPCDICVVEEKETTTPSEQKASL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10396
Length:	281 (221)
Sequences:	5604 (3187)
Seq/√Len:	214.4

ECOLI - GLPF AQPZ
BACSU - GLPF
SULSO - Q97XW0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
15_F	99_C	4.157	1.00
76_W	83_K	3.527	1.00
153_M	242_V	3.348	1.00
153_M	246_V	3.239	1.00
72_T	86_V	3.063	1.00
19_G	103_L	3.012	1.00
149_F	239_G	2.976	1.00
11_C	88_P	2.883	1.00
76_W	86_V	2.830	1.00
15_F	95_A	2.768	1.00
11_C	92_S	2.669	1.00
77_L	245_I	2.654	1.00
49_G	188_A	2.595	1.00
162_L	186_L	2.553	1.00
155_I	194_M	2.536	1.00
10_Q	85_K	2.517	1.00
19_G	100_A	2.313	1.00
149_F	153_M	2.305	1.00
90_I	241_I	2.263	1.00
25_G	48_W	2.093	1.00
157_A	247_G	1.975	1.00
59_T	67_L	1.943	1.00
73_I	241_I	1.914	1.00
201_A	207_D	1.859	1.00
208_F	237_L	1.850	1.00
191_G	200_F	1.833	1.00
73_I	90_I	1.774	1.00
139_P	148_A	1.752	1.00
142_H	229_D	1.747	1.00
66_H	89_F	1.741	1.00
155_I	202_M	1.730	1.00
55_A	59_T	1.688	1.00
151_V	197_L	1.675	1.00
208_F	212_V	1.662	1.00
46_V	188_A	1.638	1.00
53_A	184_G	1.602	1.00
102_A	213_F	1.590	1.00
148_A	198_T	1.585	1.00
233_F	237_L	1.565	1.00
23_F	103_L	1.535	1.00
190_I	202_M	1.533	1.00
17_G	67_L	1.532	1.00
92_S	96_G	1.532	1.00
157_A	250_A	1.521	1.00
109_Y	113_F	1.498	1.00
241_I	245_I	1.494	1.00
112_F	134_T	1.445	1.00
160_M	244_A	1.417	1.00
83_K	86_V	1.400	1.00
86_V	90_I	1.397	1.00
71_V	163_I	1.394	1.00
79_A	252_R	1.393	1.00
45_S	192_A	1.392	1.00
52_V	187_I	1.390	1.00
87_I	91_V	1.384	1.00
26_V	104_V	1.370	1.00
74_A	160_M	1.362	1.00
243_G	247_G	1.361	1.00
94_V	237_L	1.358	1.00
208_F	233_F	1.347	1.00
98_F	209_G	1.343	1.00
98_F	213_F	1.341	1.00
56_I	180_P	1.326	1.00
18_T	97_A	1.319	1.00
214_A	228_R	1.316	1.00
191_G	195_G	1.309	1.00
234_L	238_F	1.307	1.00
27_G	104_V	1.302	1.00
74_A	78_F	1.282	1.00
19_G	99_C	1.276	1.00
75_L	81_F	1.262	1.00
72_T	93_Q	1.258	1.00
94_V	208_F	1.230	1.00
72_T	90_I	1.200	1.00
156_T	244_A	1.200	1.00
99_C	102_A	1.197	1.00
157_A	246_V	1.193	1.00
102_A	106_G	1.191	1.00
187_I	202_M	1.184	1.00
50_L	185_L	1.173	1.00
59_T	65_A	1.172	1.00
69_P	205_A	1.171	1.00
103_L	154_V	1.169	1.00
146_V	150_A	1.162	1.00
29_V	44_I	1.151	1.00
101_A	210_P	1.150	1.00
81_F	86_V	1.145	1.00
107_L	151_V	1.140	1.00
152_E	198_T	1.139	1.00
149_F	235_V	1.136	1.00
72_T	81_F	1.133	1.00
50_L	189_V	1.125	1.00
51_G	55_A	1.122	1.00
29_V	33_K	1.117	1.00
83_K	87_I	1.116	1.00
18_T	205_A	1.108	1.00
73_I	245_I	1.105	1.00
82_D	85_K	1.100	1.00
149_F	238_F	1.093	1.00
153_M	243_G	1.090	1.00
98_F	212_V	1.073	1.00
163_I	183_I	1.070	1.00
70_A	204_P	1.069	1.00
97_A	101_A	1.063	1.00
20_L	158_I	1.060	1.00
131_L	134_T	1.054	1.00
50_L	188_A	1.053	1.00
66_H	72_T	1.052	1.00
21_L	52_V	1.050	1.00
20_L	55_A	1.038	1.00
26_V	101_A	1.030	1.00
207_D	211_K	1.028	1.00
53_A	181_L	1.012	1.00
57_Y	180_P	1.012	1.00
153_M	239_G	1.010	1.00
132_A	136_S	1.008	1.00
28_C	47_I	1.006	1.00
63_S	89_F	0.995	1.00
107_L	197_L	0.989	1.00
24_F	51_G	0.984	1.00
151_V	155_I	0.983	1.00
151_V	198_T	0.983	1.00
55_A	65_A	0.981	1.00
97_A	209_G	0.976	1.00
230_I	233_F	0.972	1.00
71_V	160_M	0.969	1.00
22_I	26_V	0.965	1.00
8_K	11_C	0.963	1.00
77_L	248_A	0.961	1.00
212_V	215_W	0.959	1.00
76_W	81_F	0.955	1.00
132_A	138_Y	0.953	1.00
74_A	248_A	0.943	1.00
55_A	67_L	0.943	1.00
157_A	161_G	0.943	1.00
13_A	62_V	0.936	0.99
159_L	187_I	0.933	0.99
144_N	147_Q	0.916	0.99
56_I	71_V	0.912	0.99
130_D	133_G	0.902	0.99
168_D	251_Y	0.902	0.99
206_R	210_P	0.898	0.99
70_A	244_A	0.896	0.99
43_E	192_A	0.890	0.99
22_I	104_V	0.882	0.99
161_G	250_A	0.880	0.99
13_A	63_S	0.875	0.99
19_G	23_F	0.873	0.99
66_H	81_F	0.870	0.99
98_F	208_F	0.864	0.99
66_H	93_Q	0.862	0.99
181_L	185_L	0.858	0.99
53_A	57_Y	0.856	0.99
149_F	234_L	0.853	0.99
32_L	43_E	0.852	0.99
101_A	213_F	0.840	0.99
58_L	162_L	0.834	0.99
17_G	21_L	0.833	0.99
137_T	236_P	0.828	0.99
78_F	248_A	0.816	0.99
96_G	100_A	0.815	0.99
77_L	249_F	0.814	0.99
164_L	247_G	0.813	0.99
166_L	186_L	0.800	0.98
167_T	183_I	0.798	0.98
38_S	42_W	0.795	0.98
90_I	94_V	0.791	0.98
27_G	193_S	0.789	0.98
11_C	15_F	0.788	0.98
110_N	147_Q	0.786	0.98
166_L	182_L	0.786	0.98
137_T	207_D	0.785	0.98
33_K	130_D	0.780	0.98
66_H	71_V	0.777	0.98
137_T	201_A	0.777	0.98
13_A	64_G	0.763	0.98
145_F	235_V	0.762	0.98
149_F	242_V	0.759	0.98
94_V	209_G	0.757	0.98
36_G	114_D	0.754	0.98
57_Y	182_L	0.752	0.98
244_A	248_A	0.749	0.98
200_F	236_P	0.749	0.98
138_Y	229_D	0.747	0.97
190_I	200_F	0.737	0.97
235_V	240_P	0.737	0.97
109_Y	112_F	0.733	0.97
54_M	162_L	0.732	0.97
47_I	192_A	0.732	0.97
49_G	184_G	0.727	0.97
15_F	92_S	0.726	0.97
73_I	86_V	0.723	0.97
75_L	80_C	0.715	0.97
26_V	100_A	0.714	0.97
81_F	85_K	0.713	0.97
23_F	104_V	0.712	0.97
139_P	142_H	0.701	0.96
24_F	158_I	0.700	0.96
26_V	134_T	0.697	0.96
82_D	87_I	0.695	0.96
23_F	158_I	0.689	0.96
78_F	164_L	0.687	0.96
156_T	210_P	0.687	0.96
75_L	163_I	0.686	0.96
105_Y	213_F	0.686	0.96
151_V	194_M	0.682	0.96
105_Y	109_Y	0.681	0.96
24_F	189_V	0.679	0.96
57_Y	177_P	0.679	0.96
179_A	183_I	0.678	0.96
135_F	139_P	0.675	0.95
164_L	251_Y	0.675	0.95
31_A	197_L	0.674	0.95
46_V	185_L	0.674	0.95
20_L	54_M	0.672	0.95
165_A	251_Y	0.671	0.95
18_T	22_I	0.670	0.95
194_M	200_F	0.670	0.95
132_A	135_F	0.669	0.95
18_T	52_V	0.665	0.95
165_A	168_D	0.664	0.95
29_V	48_W	0.662	0.95
147_Q	150_A	0.659	0.95
188_A	192_A	0.657	0.95
31_A	196_P	0.654	0.95
40_G	43_E	0.653	0.95
45_S	191_G	0.651	0.94
155_I	159_L	0.649	0.94
133_G	138_Y	0.648	0.94
30_A	134_T	0.647	0.94
15_F	19_G	0.646	0.94
33_K	44_I	0.641	0.94
60_A	63_S	0.636	0.94
102_A	105_Y	0.631	0.93
20_L	161_G	0.629	0.93
148_A	235_V	0.626	0.93
95_A	99_C	0.626	0.93
159_L	195_G	0.625	0.93
189_V	193_S	0.625	0.93
48_W	191_G	0.622	0.93
53_A	182_L	0.620	0.93
155_I	190_I	0.619	0.93
204_P	237_L	0.615	0.93
23_F	107_L	0.614	0.93
88_P	91_V	0.613	0.92
159_L	163_I	0.607	0.92
238_F	241_I	0.607	0.92
98_F	102_A	0.606	0.92
241_I	244_A	0.604	0.92
31_A	37_A	0.603	0.92
14_E	17_G	0.603	0.92
18_T	21_L	0.602	0.92
205_A	209_G	0.601	0.92
234_L	240_P	0.600	0.92
207_D	240_P	0.600	0.92
201_A	236_P	0.599	0.92
191_G	202_M	0.594	0.91
22_I	97_A	0.593	0.91
32_L	44_I	0.589	0.91
180_P	184_G	0.586	0.91
147_Q	151_V	0.585	0.91
46_V	192_A	0.584	0.91
76_W	87_I	0.583	0.91
186_L	190_I	0.581	0.90
23_F	100_A	0.579	0.90
101_A	209_G	0.577	0.90
38_S	142_H	0.577	0.90
232_Y	236_P	0.576	0.90
145_F	231_P	0.576	0.90
8_K	12_I	0.573	0.90
239_G	243_G	0.573	0.90
64_G	89_F	0.572	0.90
55_A	189_V	0.571	0.90
28_C	44_I	0.570	0.90
209_G	213_F	0.569	0.89
110_N	144_N	0.567	0.89
250_A	254_L	0.566	0.89
158_I	194_M	0.566	0.89
107_L	150_A	0.564	0.89
232_Y	235_V	0.564	0.89
172_G	175_R	0.562	0.89
57_Y	184_G	0.562	0.89
158_I	186_L	0.560	0.89
176_G	182_L	0.559	0.89
25_G	206_R	0.558	0.89
57_Y	178_L	0.558	0.89
150_A	153_M	0.556	0.88
100_A	151_V	0.556	0.88
10_Q	81_F	0.555	0.88
82_D	86_V	0.554	0.88
29_V	200_F	0.549	0.88
11_C	91_V	0.546	0.87
31_A	108_Y	0.543	0.87
17_G	59_T	0.543	0.87
162_L	166_L	0.543	0.87
33_K	133_G	0.542	0.87
52_V	56_I	0.541	0.87
88_P	92_S	0.541	0.87
70_A	74_A	0.540	0.87
29_V	187_I	0.540	0.87
161_G	165_A	0.538	0.87
10_Q	92_S	0.537	0.87
12_I	254_L	0.536	0.86
81_F	88_P	0.536	0.86
249_F	253_K	0.533	0.86
245_I	249_F	0.532	0.86
32_L	40_G	0.530	0.86
97_A	205_A	0.529	0.86
12_I	253_K	0.527	0.86
78_F	245_I	0.527	0.86
78_F	247_G	0.527	0.86
134_T	139_P	0.524	0.85
56_I	65_A	0.523	0.85
56_I	163_I	0.519	0.85
215_W	230_I	0.518	0.85
109_Y	147_Q	0.517	0.84
21_L	187_I	0.517	0.84
16_L	250_A	0.515	0.84
169_D	251_Y	0.514	0.84
27_G	108_Y	0.514	0.84
110_N	113_F	0.514	0.84
76_W	82_D	0.508	0.83
10_Q	88_P	0.507	0.83
150_A	154_V	0.507	0.83
70_A	156_T	0.505	0.83
249_F	252_R	0.504	0.83
30_A	104_V	0.504	0.83
84_R	87_I	0.502	0.83
13_A	17_G	0.501	0.83
59_T	255_I	0.501	0.83
41_Q	196_P	0.500	0.83
210_P	213_F	0.500	0.83

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
1ldfA	3	0.9039	100	0.092	Contact Map
3c02A	3	0.8577	100	0.175	Contact Map
4oj2X	3	0.8719	100	0.206	Contact Map
1j4nA	4	0.8363	100	0.206	Contact Map
2b6oA	6	0.8185	100	0.214	Contact Map
3iyzA	3	0.79	100	0.216	Contact Map
3d9sA	3	0.8256	100	0.223	Contact Map
2zz9A	3	0.79	100	0.225	Contact Map
3cn5A	3	0.8221	100	0.229	Contact Map
4nefA	4	0.8505	100	0.236	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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