PTPC1 - ECOLI - GREMLIN Contacts

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PTPC1 - N-acetylgalactosamine permease IIC component 1

UniProt:	P42910	Sequences: MHEITLLQGLSLAALVFVLGIDFWLEALFLFRPIIVCTLTGAILGDIQTGLITGGLTELAFAGLTPAGGVQPPNPIMAGLMTTVIAWSTGVDAKTAIGLGLPFSLLMQYVILFFYSAFSLFMTKADKCAKEADTAAFSRLNWTTMLIVASAYAVIAFLCTYLAQGAMQALVKAMPAWLTHGFEVAGGILPAVGFGLLLRVMFKAQYIPYLIAGFLFVCYIQVSNLLPVAVLGAGFAVYEFFNAKSRQQAQPQPVASKNEEEDYSNGI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12770
Length:	267 (247)
Sequences:	1422 (900)
Seq/√Len:	57.3

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
133_D	136_A	5.219	1.00
212_A	234_G	5.104	1.00
46_D	49_T	5.052	1.00
222_V	227_P	3.986	1.00
15_L	39_L	3.633	1.00
42_A	47_I	3.567	1.00
32_R	58_E	3.412	1.00
124_K	127_K	3.389	1.00
17_F	149_A	3.346	1.00
215_L	231_L	3.065	1.00
176_A	180_H	2.985	1.00
127_K	131_E	2.955	1.00
15_L	43_I	2.837	1.00
215_L	230_V	2.810	1.00
128_C	136_A	2.728	1.00
211_I	230_V	2.715	1.00
123_T	126_D	2.574	1.00
168_Q	172_K	2.494	1.00
37_C	50_G	2.494	1.00
9_G	13_A	2.404	1.00
135_A	139_R	2.300	1.00
39_L	43_I	2.275	1.00
209_Y	242_N	2.224	1.00
124_K	128_C	2.158	1.00
17_F	153_A	2.155	1.00
128_C	133_D	2.150	1.00
6_L	10_L	2.116	1.00
12_L	40_T	2.100	1.00
44_L	88_S	1.991	1.00
11_S	43_I	1.935	1.00
13_A	157_F	1.924	1.00
180_H	184_V	1.921	1.00
38_T	47_I	1.903	1.00
128_C	140_L	1.895	1.00
136_A	139_R	1.882	1.00
127_K	130_K	1.877	1.00
207_I	211_I	1.871	1.00
13_A	153_A	1.853	1.00
217_V	228_V	1.849	1.00
77_M	107_M	1.832	0.99
49_T	53_T	1.791	0.99
128_C	131_E	1.787	0.99
209_Y	239_E	1.741	0.99
48_Q	52_I	1.725	0.99
223_S	227_P	1.701	0.99
209_Y	238_Y	1.629	0.99
133_D	139_R	1.627	0.99
18_V	30_L	1.614	0.99
16_V	156_A	1.613	0.99
124_K	140_L	1.593	0.99
56_L	60_A	1.574	0.98
184_V	187_G	1.553	0.98
86_A	96_A	1.550	0.98
34_I	38_T	1.537	0.98
165_G	168_Q	1.533	0.98
180_H	183_E	1.506	0.98
239_E	242_N	1.505	0.98
170_L	173_A	1.500	0.98
129_A	132_A	1.459	0.97
49_T	87_W	1.449	0.97
110_V	155_I	1.402	0.97
6_L	161_Y	1.390	0.96
10_L	157_F	1.353	0.96
95_T	98_G	1.351	0.96
129_A	137_F	1.337	0.96
125_A	141_N	1.304	0.95
78_A	84_V	1.296	0.95
7_L	11_S	1.278	0.94
219_Y	226_L	1.278	0.94
149_A	153_A	1.267	0.94
216_F	220_I	1.264	0.94
106_L	171_V	1.247	0.94
219_Y	223_S	1.246	0.93
129_A	136_A	1.241	0.93
177_W	181_G	1.238	0.93
221_Q	225_L	1.218	0.93
125_A	129_A	1.201	0.92
35_I	38_T	1.193	0.92
229_A	232_G	1.171	0.91
32_R	35_I	1.166	0.91
74_N	77_M	1.155	0.91
166_A	169_A	1.152	0.90
219_Y	222_V	1.147	0.90
70_V	115_Y	1.125	0.89
73_P	104_S	1.117	0.89
50_G	54_G	1.116	0.89
62_A	105_L	1.111	0.89
174_M	178_L	1.109	0.89
15_L	36_V	1.106	0.89
69_G	186_G	1.101	0.88
169_A	172_K	1.098	0.88
153_A	157_F	1.090	0.88
116_S	119_S	1.064	0.87
78_A	104_S	1.063	0.87
26_E	32_R	1.061	0.86
249_A	252_Q	1.053	0.86
225_L	229_A	1.053	0.86
222_V	228_V	1.052	0.86
111_I	115_Y	1.048	0.86
114_F	147_I	1.045	0.86
104_S	145_M	1.043	0.85
99_L	103_F	1.032	0.85
7_L	10_L	1.029	0.85
44_L	87_W	1.029	0.85
202_F	210_L	1.026	0.85
248_Q	251_P	1.019	0.84
220_I	223_S	1.009	0.84
62_A	76_I	1.007	0.83
12_L	80_L	0.997	0.83
139_R	143_T	0.992	0.82
215_L	222_V	0.991	0.82
129_A	133_D	0.988	0.82
49_T	52_I	0.986	0.82
91_V	95_T	0.984	0.82
181_G	185_A	0.984	0.82
62_A	79_G	0.978	0.82
158_L	166_A	0.976	0.81
8_Q	43_I	0.974	0.81
104_S	194_F	0.966	0.81
243_A	246_R	0.964	0.81
249_A	253_P	0.949	0.80
12_L	44_L	0.946	0.79
176_A	179_T	0.929	0.78
48_Q	51_L	0.929	0.78
9_G	157_F	0.924	0.78
7_L	241_F	0.914	0.77
86_A	189_L	0.912	0.77
12_L	43_I	0.910	0.77
135_A	247_Q	0.907	0.76
52_I	55_G	0.905	0.76
74_N	152_Y	0.903	0.76
238_Y	242_N	0.902	0.76
166_A	170_L	0.901	0.76
125_A	140_L	0.899	0.76
8_Q	88_S	0.890	0.75
250_Q	253_P	0.889	0.75
74_N	111_I	0.887	0.75
52_I	59_L	0.885	0.75
134_T	138_S	0.879	0.74
41_G	54_G	0.877	0.74
105_L	109_Y	0.876	0.74
52_I	85_I	0.867	0.73
136_A	140_L	0.866	0.73
57_T	79_G	0.863	0.73
233_A	237_V	0.863	0.73
51_L	54_G	0.858	0.72
94_K	221_Q	0.858	0.72
66_P	148_V	0.854	0.72
19_L	36_V	0.847	0.71
22_D	73_P	0.847	0.71
117_A	147_I	0.844	0.71
205_Q	245_S	0.842	0.71
102_P	105_L	0.835	0.70
235_F	238_Y	0.833	0.70
12_L	156_A	0.829	0.70
126_D	130_K	0.825	0.69
175_P	181_G	0.824	0.69
135_A	138_S	0.822	0.69
169_A	173_A	0.810	0.68
36_V	80_L	0.807	0.68
211_I	234_G	0.807	0.68
208_P	211_I	0.806	0.68
16_V	197_L	0.804	0.67
247_Q	252_Q	0.793	0.66
61_F	78_A	0.787	0.66
58_E	108_Q	0.786	0.66
34_I	55_G	0.783	0.65
161_Y	165_G	0.783	0.65
59_L	142_W	0.783	0.65
81_M	85_I	0.783	0.65
36_V	79_G	0.782	0.65
37_C	69_G	0.780	0.65
81_M	103_F	0.777	0.65
59_L	198_L	0.759	0.63
11_S	14_A	0.756	0.63
219_Y	227_P	0.755	0.62
10_L	13_A	0.752	0.62
131_E	136_A	0.750	0.62
40_T	84_V	0.749	0.62
124_K	139_R	0.747	0.62
196_L	201_M	0.745	0.61
8_Q	12_L	0.745	0.61
248_Q	252_Q	0.742	0.61
121_F	147_I	0.738	0.61
206_Y	211_I	0.737	0.61
185_A	189_L	0.735	0.60
58_E	200_V	0.735	0.60
16_V	80_L	0.733	0.60
15_L	80_L	0.733	0.60
86_A	92_D	0.732	0.60
223_S	226_L	0.725	0.59
129_A	134_T	0.725	0.59
82_T	86_A	0.717	0.58
78_A	85_I	0.712	0.58
109_Y	112_L	0.712	0.58
10_L	246_R	0.710	0.58
246_R	250_Q	0.710	0.58
24_W	71_Q	0.704	0.57
167_M	189_L	0.703	0.57
244_K	247_Q	0.703	0.57
105_L	108_Q	0.702	0.57
79_G	83_T	0.699	0.57
208_P	237_V	0.697	0.56
81_M	159_C	0.696	0.56
66_P	152_Y	0.695	0.56
216_F	231_L	0.695	0.56
165_G	169_A	0.694	0.56
6_L	9_G	0.693	0.56
8_Q	44_L	0.689	0.55
19_L	31_F	0.687	0.55
119_S	122_M	0.683	0.55
248_Q	253_P	0.682	0.55
26_E	96_A	0.676	0.54
170_L	211_I	0.676	0.54
150_S	154_V	0.672	0.54
216_F	235_F	0.672	0.54
15_L	19_L	0.671	0.53
7_L	251_P	0.670	0.53
90_G	245_S	0.669	0.53
67_A	71_Q	0.667	0.53
89_T	100_G	0.665	0.53
37_C	83_T	0.659	0.52
158_L	231_L	0.659	0.52
78_A	82_T	0.657	0.52
108_Q	112_L	0.657	0.52
159_C	167_M	0.656	0.52
237_V	245_S	0.655	0.52
73_P	108_Q	0.655	0.52
172_K	176_A	0.654	0.52
234_G	237_V	0.651	0.51
220_I	228_V	0.650	0.51
235_F	239_E	0.646	0.51
81_M	84_V	0.644	0.51
62_A	74_N	0.641	0.50
109_Y	182_F	0.637	0.50
58_E	159_C	0.637	0.50
38_T	42_A	0.631	0.49
40_T	87_W	0.630	0.49
63_G	128_C	0.629	0.49
59_L	103_F	0.627	0.49
175_P	213_G	0.626	0.49
121_F	124_K	0.624	0.48
124_K	136_A	0.623	0.48
83_T	87_W	0.623	0.48
157_F	161_Y	0.622	0.48
8_Q	11_S	0.621	0.48
125_A	243_A	0.620	0.48
13_A	161_Y	0.618	0.48
57_T	78_A	0.618	0.48
241_F	245_S	0.617	0.48
153_A	171_V	0.614	0.47
202_F	207_I	0.613	0.47
34_I	37_C	0.608	0.47
130_K	250_Q	0.607	0.46
62_A	111_I	0.606	0.46
247_Q	250_Q	0.605	0.46
29_F	79_G	0.600	0.46
107_M	148_V	0.600	0.46
20_G	97_I	0.599	0.46
63_G	102_P	0.599	0.46
87_W	92_D	0.599	0.46
163_A	197_L	0.597	0.45
126_D	137_F	0.595	0.45
90_G	117_A	0.592	0.45
158_L	195_G	0.589	0.45
63_G	181_G	0.588	0.44
57_T	77_M	0.587	0.44
150_S	155_I	0.587	0.44
18_V	172_K	0.587	0.44
48_Q	172_K	0.586	0.44
107_M	151_A	0.586	0.44
192_V	240_F	0.585	0.44
60_A	82_T	0.585	0.44
56_L	221_Q	0.585	0.44
54_G	213_G	0.585	0.44
63_G	101_L	0.585	0.44
33_P	210_L	0.581	0.44
37_C	44_L	0.580	0.44
160_T	194_F	0.580	0.44
246_R	252_Q	0.580	0.44
24_W	115_Y	0.578	0.43
106_L	180_H	0.577	0.43
107_M	225_L	0.577	0.43
77_M	152_Y	0.574	0.43
7_L	131_E	0.574	0.43
125_A	144_T	0.568	0.42
75_P	82_T	0.568	0.42
15_L	58_E	0.568	0.42
230_V	233_A	0.568	0.42
85_I	88_S	0.568	0.42
94_K	183_E	0.566	0.42
33_P	97_I	0.563	0.42
12_L	15_L	0.560	0.41
212_A	231_L	0.560	0.41
69_G	199_R	0.559	0.41
179_T	182_F	0.558	0.41
20_G	171_V	0.557	0.41
19_L	30_L	0.557	0.41
74_N	108_Q	0.555	0.41
74_N	101_L	0.555	0.41
55_G	185_A	0.555	0.41
138_S	142_W	0.555	0.41
40_T	83_T	0.551	0.40
237_V	244_K	0.550	0.40
25_L	62_A	0.550	0.40
58_E	219_Y	0.549	0.40
145_M	186_G	0.548	0.40
55_G	229_A	0.548	0.40
55_G	75_P	0.547	0.40
108_Q	111_I	0.546	0.40
50_G	67_A	0.546	0.40
242_N	245_S	0.544	0.40
22_D	28_L	0.544	0.40
18_V	21_I	0.544	0.40
22_D	210_L	0.543	0.40
157_F	162_L	0.542	0.40
7_L	150_S	0.541	0.39
202_F	208_P	0.539	0.39
245_S	250_Q	0.539	0.39
176_A	250_Q	0.538	0.39
184_V	253_P	0.538	0.39
121_F	231_L	0.538	0.39
180_H	251_P	0.537	0.39
98_G	101_L	0.535	0.39
95_T	160_T	0.533	0.39
100_G	105_L	0.532	0.38
94_K	97_I	0.532	0.38
168_Q	176_A	0.529	0.38
108_Q	201_M	0.529	0.38
127_K	245_S	0.527	0.38
26_E	153_A	0.527	0.38
94_K	187_G	0.527	0.38
71_Q	75_P	0.526	0.38
42_A	250_Q	0.526	0.38
61_F	73_P	0.526	0.38
39_L	50_G	0.525	0.38
88_S	160_T	0.524	0.38
115_Y	151_A	0.522	0.37
38_T	51_L	0.522	0.37
245_S	253_P	0.521	0.37
16_V	20_G	0.520	0.37
77_M	156_A	0.520	0.37
90_G	158_L	0.520	0.37
15_L	214_F	0.519	0.37
207_I	237_V	0.519	0.37
154_V	158_L	0.516	0.37
22_D	197_L	0.516	0.37
132_A	135_A	0.515	0.37
112_L	115_Y	0.514	0.37
50_G	84_V	0.514	0.37
10_L	176_A	0.513	0.37
47_I	51_L	0.512	0.36
59_L	232_G	0.511	0.36
184_V	232_G	0.510	0.36
85_I	167_M	0.509	0.36
35_I	211_I	0.507	0.36
80_L	84_V	0.507	0.36
32_R	85_I	0.506	0.36
210_L	227_P	0.506	0.36
120_L	140_L	0.506	0.36
127_K	246_R	0.506	0.36
24_W	195_G	0.505	0.36
162_L	232_G	0.504	0.36
9_G	37_C	0.503	0.35
84_V	197_L	0.503	0.35
20_G	64_L	0.503	0.35
75_P	78_A	0.503	0.35
231_L	246_R	0.501	0.35
216_F	222_V	0.500	0.35
94_K	244_K	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
4k1cA	4	0.633	48	0.956	Contact Map
4kjrA	3	0.4906	30.1	0.961	Contact Map
3giaA	1	0.9139	28	0.962	Contact Map
4cbcA	3	0.3184	27.9	0.962	Contact Map
3qnqA	2	0.8801	26.3	0.962	Contact Map
3qe7A	2	0.794	22.4	0.963	Contact Map
4ltoA	3	0.3933	16.5	0.965	Contact Map
3l1lA	2	0.8801	13.7	0.967	Contact Map
2xzeQ	1	0.0412	11.3	0.968	Contact Map
3vopA	3	0.0225	10.4	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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