PTFC - BACSU - GREMLIN Contacts

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PTFC - Fructose permease IIC component

UniProt:	P26381	Sequences: MSSLQIILLLIIAAITGIASVLDEGQTHRPLVACTLVGLVLGDLKTGIILGGTLELMALGWMNVGLAMAPDTAIASVISTILVITADQGIGEGIAVAVALAAAGQALTIFVRTITVFFIHRADQYAKAGNIKGIEIMHITAMVFQALRVMIPTLIVALISVSAVQAFLGNIPDVITKGLQIGGGIIVVVGYAMVINMMNIPYLKPFFYIGFLLAAFTDFNLVGFGALGLCLALLYQQVMQKQSAHGAVAAASDSGSVAVYDDDDDDLDA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	269 (247)
Sequences:	1424 (895)
Seq/√Len:	56.9

ECOLI - PTPC1 PTNC
BACSU - PTFC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
130_N	133_G	5.142	1.00
43_D	46_T	4.993	1.00
209_I	230_C	4.982	1.00
219_F	223_G	3.921	1.00
12_I	36_L	3.545	1.00
39_L	44_L	3.451	1.00
121_R	124_Q	3.346	1.00
29_R	55_E	3.337	1.00
14_A	146_A	3.270	1.00
212_L	227_L	3.070	1.00
124_Q	128_A	2.927	1.00
12_I	40_V	2.797	1.00
212_L	226_A	2.793	1.00
173_D	177_K	2.702	1.00
125_Y	133_G	2.688	1.00
208_Y	226_A	2.678	1.00
165_Q	169_G	2.508	1.00
120_H	123_D	2.505	1.00
34_C	47_G	2.489	1.00
6_I	10_L	2.409	1.00
36_L	40_V	2.279	1.00
132_K	136_I	2.276	1.00
206_F	238_V	2.171	1.00
121_R	125_Y	2.125	1.00
14_A	150_M	2.124	1.00
125_Y	130_N	2.097	1.00
3_S	7_I	2.072	1.00
41_L	85_T	2.004	1.00
9_L	37_V	1.978	1.00
177_K	181_I	1.955	1.00
204_K	208_Y	1.910	1.00
125_Y	137_M	1.887	1.00
133_G	136_I	1.880	1.00
8_L	40_V	1.878	1.00
35_T	44_L	1.856	1.00
124_Q	127_K	1.847	0.99
10_L	154_L	1.833	0.99
74_I	104_G	1.820	0.99
125_Y	128_A	1.812	0.99
10_L	150_M	1.812	0.99
46_T	50_L	1.792	0.99
13_A	153_T	1.782	0.99
214_A	224_F	1.778	0.99
130_N	136_I	1.762	0.99
45_K	49_I	1.757	0.99
206_F	235_Y	1.747	0.99
216_F	220_N	1.718	0.99
206_F	234_L	1.657	0.99
15_I	27_T	1.611	0.99
121_R	137_M	1.597	0.98
83_V	93_G	1.594	0.98
162_S	165_Q	1.590	0.98
53_T	57_M	1.585	0.98
220_N	223_G	1.562	0.98
167_F	170_N	1.516	0.98
181_I	184_G	1.512	0.98
177_K	180_Q	1.505	0.98
31_L	35_T	1.496	0.98
126_A	129_G	1.442	0.97
3_S	158_L	1.436	0.97
46_T	84_I	1.415	0.97
235_Y	238_V	1.397	0.96
107_L	152_P	1.361	0.96
7_I	154_L	1.360	0.96
92_E	95_A	1.349	0.96
23_D	29_R	1.346	0.96
126_A	134_I	1.333	0.95
122_A	138_H	1.270	0.94
75_A	81_I	1.261	0.94
216_F	222_V	1.260	0.94
218_D	221_L	1.256	0.94
126_A	133_G	1.251	0.94
213_L	217_T	1.230	0.93
103_A	168_L	1.222	0.93
150_M	154_L	1.205	0.92
4_L	8_L	1.186	0.92
75_A	101_A	1.186	0.92
122_A	126_A	1.182	0.91
245_H	248_V	1.178	0.91
174_V	178_G	1.177	0.91
32_V	35_T	1.174	0.91
29_R	32_V	1.160	0.91
155_I	163_A	1.155	0.90
47_G	51_G	1.148	0.90
146_A	150_M	1.144	0.90
59_L	102_A	1.136	0.90
163_A	166_A	1.127	0.89
67_A	112_R	1.126	0.89
66_L	183_G	1.124	0.89
225_G	228_G	1.120	0.89
71_D	74_I	1.119	0.89
166_A	169_G	1.119	0.89
70_P	101_A	1.116	0.89
216_F	219_F	1.110	0.89
12_I	33_A	1.098	0.88
111_V	144_F	1.094	0.88
244_A	247_A	1.075	0.87
171_I	175_I	1.064	0.86
136_I	140_T	1.059	0.86
219_F	224_F	1.043	0.85
108_T	112_R	1.038	0.85
96_V	100_L	1.025	0.84
212_L	219_F	1.022	0.84
246_G	249_A	1.011	0.83
199_N	207_F	1.009	0.83
239_M	242_Q	1.008	0.83
59_L	73_A	1.008	0.83
101_A	191_Y	1.007	0.83
4_L	7_I	1.004	0.83
41_L	84_I	1.002	0.83
59_L	76_S	0.998	0.83
178_G	182_G	0.996	0.83
245_H	249_A	0.994	0.82
6_I	154_L	0.989	0.82
221_L	225_G	0.975	0.81
126_A	130_N	0.973	0.81
9_L	77_V	0.968	0.81
9_L	41_L	0.964	0.80
46_T	49_I	0.962	0.80
5_Q	40_V	0.960	0.80
5_Q	85_T	0.949	0.79
83_V	186_I	0.915	0.77
122_A	137_M	0.913	0.77
45_K	48_I	0.905	0.76
173_D	176_T	0.905	0.76
102_A	106_A	0.904	0.76
49_I	52_G	0.898	0.75
54_L	76_S	0.897	0.75
9_L	40_V	0.889	0.75
71_D	149_V	0.887	0.75
118_F	144_F	0.883	0.74
38_G	51_G	0.880	0.74
101_A	142_M	0.879	0.74
131_I	135_E	0.879	0.74
231_L	234_L	0.877	0.74
71_D	108_T	0.875	0.74
133_G	137_M	0.875	0.74
63_N	145_Q	0.875	0.74
244_A	248_V	0.867	0.73
19_A	70_P	0.867	0.73
208_Y	230_C	0.865	0.73
88_Q	92_E	0.865	0.73
49_I	82_L	0.862	0.72
158_L	162_S	0.858	0.72
4_L	237_Q	0.853	0.72
234_L	238_V	0.847	0.71
132_K	135_E	0.846	0.71
172_P	178_G	0.846	0.71
48_I	51_G	0.843	0.71
229_L	233_L	0.842	0.71
163_A	167_F	0.841	0.71
33_A	76_S	0.836	0.70
78_I	82_L	0.835	0.70
56_L	195_I	0.834	0.70
99_A	102_A	0.831	0.70
114_I	144_F	0.824	0.69
34_C	66_L	0.822	0.69
58_A	75_A	0.821	0.69
243_S	248_V	0.820	0.69
123_D	127_K	0.809	0.68
33_A	77_V	0.809	0.68
91_G	173_D	0.799	0.67
16_T	33_A	0.799	0.67
91_G	218_D	0.794	0.66
121_R	136_I	0.792	0.66
31_L	52_G	0.790	0.66
7_I	10_L	0.789	0.66
78_I	100_L	0.783	0.65
76_S	80_T	0.783	0.65
9_L	153_T	0.780	0.65
13_A	194_V	0.779	0.65
154_L	158_L	0.778	0.65
49_I	56_L	0.771	0.64
37_V	81_I	0.769	0.64
244_A	249_A	0.769	0.64
162_S	166_A	0.768	0.64
166_A	170_N	0.765	0.63
169_G	173_D	0.764	0.63
128_A	133_G	0.764	0.63
203_L	208_Y	0.761	0.63
132_K	243_S	0.760	0.63
126_A	131_I	0.759	0.63
205_P	208_Y	0.755	0.62
217_T	220_N	0.754	0.62
5_Q	9_L	0.753	0.62
182_G	186_I	0.750	0.62
56_L	139_I	0.750	0.62
240_Q	243_S	0.748	0.61
167_F	208_Y	0.748	0.61
193_M	198_M	0.748	0.61
217_T	224_F	0.743	0.61
75_A	82_L	0.740	0.61
7_I	242_Q	0.740	0.61
55_E	105_Q	0.739	0.61
216_F	223_G	0.737	0.60
79_S	83_V	0.729	0.60
12_I	77_V	0.729	0.60
242_Q	246_G	0.725	0.59
202_Y	241_K	0.724	0.59
102_A	105_Q	0.720	0.59
55_E	197_M	0.712	0.58
13_A	77_V	0.710	0.57
78_I	156_V	0.710	0.57
156_V	164_V	0.708	0.57
26_Q	76_S	0.706	0.57
213_L	227_L	0.702	0.57
243_S	246_G	0.695	0.56
16_T	28_H	0.689	0.55
70_P	105_Q	0.688	0.55
113_T	116_V	0.687	0.55
8_L	11_I	0.685	0.55
172_P	210_G	0.681	0.54
5_Q	41_L	0.680	0.54
64_V	68_M	0.677	0.54
86_A	97_A	0.677	0.54
213_L	231_L	0.676	0.54
233_L	241_K	0.674	0.54
205_P	233_L	0.674	0.54
75_A	79_S	0.671	0.53
106_A	109_I	0.669	0.53
155_I	192_A	0.667	0.53
123_D	134_I	0.661	0.52
4_L	247_A	0.661	0.52
4_L	147_L	0.661	0.52
116_V	119_I	0.659	0.52
3_S	6_I	0.659	0.52
147_L	152_P	0.655	0.52
155_I	227_L	0.653	0.51
164_V	186_I	0.651	0.51
83_V	89_G	0.650	0.51
56_L	100_L	0.649	0.51
59_L	71_D	0.648	0.51
34_C	80_T	0.648	0.51
121_R	133_G	0.641	0.50
21_V	68_M	0.641	0.50
18_I	142_M	0.640	0.50
87_D	241_K	0.639	0.50
147_L	151_I	0.638	0.50
23_D	93_G	0.635	0.49
60_G	125_Y	0.634	0.49
9_L	12_I	0.634	0.49
243_S	247_A	0.633	0.49
150_M	168_L	0.633	0.49
105_Q	109_I	0.633	0.49
84_I	89_G	0.632	0.49
13_A	17_G	0.632	0.49
91_G	184_G	0.629	0.49
157_A	191_Y	0.628	0.49
78_I	81_I	0.627	0.48
5_Q	8_L	0.627	0.48
31_L	34_C	0.626	0.48
35_T	39_L	0.624	0.48
54_L	75_A	0.623	0.48
37_V	84_I	0.623	0.48
81_I	157_A	0.620	0.48
60_G	178_G	0.620	0.48
59_L	108_T	0.617	0.47
30_P	207_F	0.615	0.47
106_A	179_L	0.614	0.47
63_N	149_V	0.613	0.47
80_T	84_I	0.613	0.47
199_N	204_K	0.611	0.47
160_S	194_V	0.609	0.47
71_D	105_Q	0.608	0.46
54_L	74_I	0.608	0.46
12_I	16_T	0.607	0.46
85_T	157_A	0.606	0.46
19_A	194_V	0.606	0.46
118_F	121_R	0.605	0.46
104_G	148_R	0.600	0.46
45_K	169_G	0.598	0.45
242_Q	245_H	0.596	0.45
231_L	235_Y	0.594	0.45
154_L	159_I	0.594	0.45
51_G	210_G	0.593	0.45
113_T	120_H	0.592	0.45
57_M	79_S	0.590	0.44
60_G	99_A	0.589	0.44
226_A	229_L	0.588	0.44
199_N	205_P	0.584	0.44
52_G	182_G	0.583	0.44
15_I	169_G	0.582	0.44
127_K	246_G	0.582	0.44
238_V	241_K	0.582	0.44
230_C	233_L	0.577	0.43
82_L	85_T	0.576	0.43
74_I	149_V	0.576	0.43
82_L	164_V	0.576	0.43
139_I	142_M	0.574	0.43
104_G	145_Q	0.573	0.43
53_T	218_D	0.570	0.42
55_E	216_F	0.569	0.42
103_A	177_K	0.569	0.42
122_A	239_M	0.569	0.42
60_G	98_V	0.566	0.42
92_E	157_A	0.563	0.42
10_L	158_L	0.562	0.41
34_C	41_L	0.558	0.41
240_Q	244_A	0.558	0.41
129_G	132_K	0.557	0.41
218_D	248_V	0.554	0.41
109_I	113_T	0.553	0.40
7_I	135_E	0.553	0.40
135_E	139_I	0.552	0.40
66_L	196_N	0.552	0.40
104_G	221_L	0.549	0.40
105_Q	198_M	0.548	0.40
105_Q	108_T	0.547	0.40
47_G	81_I	0.546	0.40
72_T	79_S	0.546	0.40
75_A	104_G	0.545	0.40
52_G	225_G	0.544	0.40
17_G	149_V	0.543	0.39
118_F	227_L	0.542	0.39
44_L	48_I	0.541	0.39
35_T	48_I	0.540	0.39
47_G	64_V	0.540	0.39
237_Q	241_K	0.540	0.39
124_Q	242_Q	0.539	0.39
213_L	219_F	0.539	0.39
52_G	72_T	0.539	0.39
36_L	47_G	0.538	0.39
21_V	112_R	0.538	0.39
176_T	179_L	0.536	0.39
67_A	141_A	0.535	0.39
124_Q	241_K	0.535	0.39
122_A	134_I	0.534	0.39
227_L	242_Q	0.534	0.39
113_T	183_G	0.533	0.38
91_G	94_I	0.532	0.38
16_T	73_A	0.532	0.38
242_Q	248_V	0.532	0.38
156_V	188_V	0.532	0.38
56_L	228_G	0.531	0.38
68_M	72_T	0.530	0.38
6_I	157_A	0.529	0.38
16_T	27_T	0.528	0.38
30_P	94_I	0.528	0.38
77_V	81_I	0.527	0.38
180_Q	220_N	0.527	0.38
43_D	247_A	0.527	0.38
5_Q	155_I	0.525	0.38
37_V	80_T	0.525	0.38
62_M	83_V	0.524	0.37
105_Q	220_N	0.523	0.37
78_I	102_A	0.522	0.37
209_I	227_L	0.522	0.37
35_T	55_E	0.521	0.37
233_L	240_Q	0.520	0.37
74_I	153_T	0.520	0.37
71_D	98_V	0.519	0.37
189_V	236_Q	0.518	0.37
58_A	70_P	0.518	0.37
95_A	98_V	0.517	0.37
81_I	194_V	0.517	0.37
52_G	214_A	0.516	0.37
9_L	94_I	0.512	0.36
25_G	59_L	0.510	0.36
90_I	130_N	0.510	0.36
173_D	218_D	0.509	0.36
24_E	62_M	0.508	0.36
218_D	231_L	0.507	0.36
109_I	112_R	0.506	0.36
207_F	223_G	0.506	0.36
48_I	53_T	0.505	0.36
127_K	249_A	0.505	0.36
17_G	94_I	0.504	0.35
162_S	173_D	0.504	0.35
19_A	207_F	0.500	0.35
87_D	114_I	0.500	0.35

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
4u7aA	1	0	55	0.955	Contact Map
4k1cA	4	0.632	51.1	0.956	Contact Map
4kjrA	3	0.4833	47.2	0.957	Contact Map
3qnqA	2	0.8587	44.5	0.958	Contact Map
3l1lA	2	0.8699	34.8	0.96	Contact Map
3giaA	1	0.8996	28.6	0.962	Contact Map
3qe7A	2	0.7807	28	0.962	Contact Map
2jlnA	1	0.8104	20.1	0.965	Contact Map
4a01A	2	0.1599	18.7	0.965	Contact Map
2cavA	3	0.0595	11.2	0.968	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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