FUCR - ECOLI - GREMLIN Contacts

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FUCR - L-fucose operon activator

UniProt:	P0ACK8	Sequences: MKAARQQAIVDLLLNHTSLTTEALSEQLKVSKETIRRDLNELQTQGKILRNHGRAKYIHRQNQDSGDPFHIRLKSHYAHKADIAREALAWIEEGMVIALDASSTCWYLARQLPDINIQVFTNSHPICHELGKRERIQLISSGGTLERKYGCYVNPSLISQLKSLEIDLFIFSCEGIDSSGALWDSNAINADYKSMLLKRAAQSLLLIDKSKFNRSGEARIGHLDEVTHIISDERQVATSLVTA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10353
Length:	243 (233)
Sequences:	7485 (5459)
Seq/√Len:	357.6

ECOLI - FUCR AGAR GLPR YIHW YGBI SGCR YDJF GATR SRLR ULAR DEOR YCIT
BACSU - IOLR YULB GLCR FRUR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
95_M	168_L	3.376	1.00
86_E	89_A	3.085	1.00
108_L	206_L	2.937	1.00
137_Q	144_T	2.740	1.00
169_F	200_A	2.637	1.00
100_D	193_K	2.471	1.00
12_L	27_Q	2.332	1.00
197_L	221_G	2.217	1.00
110_R	129_E	2.214	1.00
209_K	232_D	2.208	1.00
204_L	228_H	2.131	1.00
92_E	95_M	2.120	1.00
162_K	195_M	2.095	1.00
168_L	204_L	2.088	1.00
98_A	166_I	2.059	1.00
8_A	11_D	2.051	1.00
12_L	16_H	2.034	1.00
197_L	203_S	1.988	1.00
85_R	111_Q	1.972	1.00
81_A	107_Y	1.969	1.00
219_R	222_H	1.967	1.00
159_S	162_K	1.945	1.00
99_L	105_C	1.936	1.00
93_E	115_I	1.931	1.00
168_L	202_Q	1.909	1.00
98_A	196_L	1.854	1.00
120_F	166_I	1.811	1.00
107_Y	110_R	1.766	1.00
87_A	170_I	1.718	1.00
202_Q	228_H	1.704	1.00
166_I	196_L	1.700	1.00
222_H	225_E	1.673	1.00
159_S	163_S	1.672	1.00
87_A	206_L	1.628	1.00
158_I	191_D	1.602	1.00
195_M	198_K	1.601	1.00
140_S	152_Y	1.592	1.00
141_S	160_Q	1.570	1.00
182_L	226_V	1.565	1.00
167_D	201_A	1.562	1.00
127_C	140_S	1.558	1.00
108_L	170_I	1.547	1.00
18_S	56_K	1.543	1.00
88_L	111_Q	1.522	1.00
162_K	198_K	1.520	1.00
182_L	205_L	1.507	1.00
76_H	210_S	1.505	1.00
6_Q	45_Q	1.489	1.00
24_L	35_I	1.485	1.00
30_V	35_I	1.485	1.00
81_A	111_Q	1.428	1.00
12_L	19_L	1.427	1.00
84_A	111_Q	1.426	1.00
157_L	192_Y	1.419	1.00
9_I	24_L	1.410	1.00
141_S	152_Y	1.409	1.00
7_Q	11_D	1.406	1.00
39_L	55_A	1.405	1.00
119_V	130_L	1.402	1.00
8_A	12_L	1.396	1.00
195_M	199_R	1.393	1.00
49_L	58_I	1.389	1.00
90_W	230_I	1.388	1.00
76_H	79_H	1.385	1.00
16_H	23_A	1.383	1.00
209_K	234_R	1.382	1.00
90_W	204_L	1.371	1.00
145_L	152_Y	1.363	1.00
14_L	57_Y	1.362	1.00
205_L	226_V	1.359	1.00
95_M	167_D	1.348	1.00
22_E	32_K	1.339	1.00
101_A	151_C	1.331	1.00
51_N	54_R	1.327	1.00
6_Q	41_E	1.324	1.00
93_E	116_N	1.315	1.00
79_H	232_D	1.313	1.00
10_V	47_K	1.307	1.00
80_K	103_S	1.306	1.00
144_T	188_I	1.306	1.00
77_Y	107_Y	1.298	1.00
33_E	37_R	1.277	1.00
202_Q	227_T	1.276	1.00
212_F	235_Q	1.261	1.00
119_V	136_I	1.261	1.00
176_I	212_F	1.255	1.00
20_T	23_A	1.255	1.00
221_G	225_E	1.247	1.00
141_S	157_L	1.247	1.00
91_I	112_L	1.237	1.00
86_E	90_W	1.224	1.00
94_G	116_N	1.224	1.00
81_A	110_R	1.220	1.00
118_Q	139_I	1.202	1.00
198_K	225_E	1.192	1.00
8_A	27_Q	1.192	1.00
8_A	28_L	1.186	1.00
109_A	130_L	1.183	1.00
98_A	199_R	1.179	1.00
40_N	44_T	1.159	1.00
78_A	81_A	1.155	1.00
170_I	204_L	1.144	1.00
173_C	207_I	1.128	1.00
203_S	226_V	1.114	1.00
79_H	209_K	1.114	1.00
13_L	57_Y	1.108	1.00
13_L	48_I	1.105	1.00
11_D	15_N	1.104	1.00
92_E	168_L	1.099	1.00
118_Q	137_Q	1.097	1.00
173_C	220_I	1.092	1.00
77_Y	81_A	1.092	1.00
204_L	230_I	1.089	1.00
156_S	160_Q	1.087	1.00
49_L	56_K	1.087	1.00
158_I	192_Y	1.086	1.00
16_H	27_Q	1.083	1.00
21_T	39_L	1.057	1.00
10_V	13_L	1.056	1.00
41_E	45_Q	1.050	1.00
175_G	183_W	1.034	1.00
139_I	144_T	1.017	1.00
88_L	91_I	1.013	1.00
120_F	164_L	1.006	1.00
90_W	228_H	1.006	1.00
91_I	170_I	1.005	1.00
48_I	55_A	1.002	1.00
88_L	108_L	0.997	1.00
79_H	83_I	0.997	1.00
141_S	161_L	0.987	1.00
87_A	108_L	0.984	1.00
25_S	32_K	0.980	1.00
156_S	164_L	0.979	1.00
109_A	129_E	0.977	1.00
99_L	108_L	0.977	1.00
69_F	103_S	0.976	1.00
176_I	207_I	0.974	1.00
212_F	229_I	0.968	1.00
4_A	8_A	0.967	1.00
174_E	184_D	0.961	1.00
12_L	15_N	0.953	1.00
81_A	85_R	0.943	1.00
169_F	196_L	0.941	1.00
104_T	208_D	0.939	1.00
41_E	44_T	0.937	1.00
80_K	104_T	0.937	1.00
158_I	195_M	0.936	1.00
105_C	126_I	0.931	1.00
40_N	43_Q	0.930	1.00
80_K	211_K	0.929	1.00
102_S	105_C	0.922	1.00
173_C	205_L	0.920	1.00
177_D	180_G	0.920	1.00
191_D	194_S	0.919	1.00
165_E	201_A	0.916	1.00
108_L	111_Q	0.910	1.00
105_C	108_L	0.909	1.00
125_P	150_G	0.908	1.00
190_A	218_A	0.905	1.00
83_I	104_T	0.904	1.00
84_A	88_L	0.893	1.00
76_H	208_D	0.892	1.00
163_S	194_S	0.890	1.00
104_T	211_K	0.883	1.00
25_S	35_I	0.881	1.00
19_L	24_L	0.880	1.00
177_D	215_S	0.880	1.00
23_A	27_Q	0.875	1.00
84_A	107_Y	0.868	1.00
131_G	150_G	0.868	1.00
113_P	133_R	0.866	1.00
19_L	55_A	0.865	1.00
164_L	187_A	0.860	1.00
84_A	108_L	0.856	1.00
123_S	126_I	0.854	1.00
113_P	129_E	0.853	1.00
10_V	14_L	0.851	1.00
138_L	145_L	0.850	1.00
42_L	47_K	0.843	1.00
109_A	126_I	0.841	1.00
161_L	196_L	0.840	1.00
201_A	215_S	0.840	1.00
203_S	227_T	0.834	1.00
72_R	174_E	0.832	1.00
165_E	219_R	0.826	1.00
149_Y	174_E	0.822	1.00
4_A	7_Q	0.820	1.00
156_S	163_S	0.820	1.00
184_D	190_A	0.818	1.00
11_D	14_L	0.811	1.00
173_C	182_L	0.807	1.00
165_E	215_S	0.803	1.00
178_S	181_A	0.802	1.00
82_D	85_R	0.802	1.00
40_N	50_R	0.802	1.00
170_I	206_L	0.796	1.00
4_A	18_S	0.794	1.00
87_A	230_I	0.792	1.00
76_H	209_K	0.787	1.00
116_N	135_R	0.786	1.00
23_A	26_E	0.782	1.00
105_C	206_L	0.782	1.00
165_E	180_G	0.777	1.00
187_A	218_A	0.769	1.00
98_A	161_L	0.759	1.00
180_G	215_S	0.750	1.00
183_W	215_S	0.746	1.00
176_I	182_L	0.745	1.00
129_E	132_K	0.744	1.00
99_L	119_V	0.744	1.00
106_W	129_E	0.739	1.00
161_L	195_M	0.738	1.00
127_C	152_Y	0.736	1.00
163_S	219_R	0.734	1.00
184_D	220_I	0.733	1.00
146_E	189_N	0.733	1.00
128_H	150_G	0.729	1.00
99_L	109_A	0.729	1.00
127_C	145_L	0.727	1.00
165_E	199_R	0.725	1.00
107_Y	111_Q	0.725	1.00
78_A	82_D	0.721	0.99
142_G	157_L	0.721	0.99
17_T	57_Y	0.721	0.99
184_D	189_N	0.719	0.99
197_L	220_I	0.719	0.99
103_S	211_K	0.717	0.99
6_Q	10_V	0.711	0.99
68_P	71_I	0.711	0.99
66_G	72_R	0.707	0.99
82_D	86_E	0.704	0.99
22_E	26_E	0.700	0.99
146_E	153_V	0.697	0.99
85_R	89_A	0.695	0.99
204_L	227_T	0.693	0.99
166_I	200_A	0.688	0.99
101_A	149_Y	0.687	0.99
182_L	220_I	0.686	0.99
171_F	200_A	0.685	0.99
169_F	203_S	0.682	0.99
208_D	211_K	0.681	0.99
96_V	120_F	0.681	0.99
10_V	42_L	0.679	0.99
207_I	229_I	0.678	0.99
142_G	160_Q	0.673	0.99
30_V	33_E	0.672	0.99
176_I	223_L	0.670	0.99
51_N	56_K	0.668	0.99
154_N	157_L	0.668	0.99
221_G	226_V	0.662	0.99
24_L	39_L	0.659	0.99
132_K	150_G	0.657	0.99
39_L	50_R	0.657	0.99
122_N	196_L	0.654	0.99
33_E	123_S	0.652	0.99
133_R	136_I	0.651	0.99
79_H	234_R	0.648	0.99
124_H	152_Y	0.646	0.99
162_K	199_R	0.643	0.99
97_I	168_L	0.642	0.99
21_T	35_I	0.640	0.99
73_L	106_W	0.640	0.99
159_S	191_D	0.640	0.99
174_E	216_G	0.639	0.99
155_P	191_D	0.639	0.99
114_D	133_R	0.639	0.99
190_A	220_I	0.638	0.99
106_W	125_P	0.633	0.99
43_Q	48_I	0.632	0.99
155_P	159_S	0.629	0.99
164_L	218_A	0.629	0.99
97_I	119_V	0.629	0.99
13_L	19_L	0.627	0.99
121_T	127_C	0.626	0.99
28_L	35_I	0.625	0.99
43_Q	50_R	0.623	0.98
123_S	189_N	0.623	0.98
124_H	140_S	0.623	0.98
114_D	135_R	0.622	0.98
194_S	198_K	0.621	0.98
83_I	206_L	0.617	0.98
200_A	203_S	0.617	0.98
102_S	172_S	0.615	0.98
209_K	235_Q	0.610	0.98
5_R	38_D	0.608	0.98
120_F	217_E	0.603	0.98
185_S	216_G	0.600	0.98
231_S	235_Q	0.597	0.98
3_A	6_Q	0.597	0.98
82_D	233_E	0.593	0.98
100_D	105_C	0.591	0.98
33_E	174_E	0.590	0.98
66_G	146_E	0.589	0.98
91_I	108_L	0.583	0.98
174_E	189_N	0.582	0.98
158_I	162_K	0.581	0.98
151_C	189_N	0.580	0.98
80_K	208_D	0.579	0.98
155_P	158_I	0.578	0.98
146_E	186_N	0.577	0.98
188_I	191_D	0.574	0.97
184_D	193_K	0.574	0.97
171_F	220_I	0.573	0.97
125_P	128_H	0.573	0.97
124_H	128_H	0.572	0.97
72_R	189_N	0.571	0.97
116_N	137_Q	0.569	0.97
172_S	184_D	0.569	0.97
73_L	107_Y	0.568	0.97
97_I	170_I	0.568	0.97
174_E	185_S	0.568	0.97
98_A	169_F	0.566	0.97
102_S	174_E	0.564	0.97
102_S	123_S	0.564	0.97
177_D	183_W	0.562	0.97
157_L	160_Q	0.560	0.97
120_F	139_I	0.560	0.97
96_V	217_E	0.558	0.97
171_F	203_S	0.557	0.97
212_F	231_S	0.556	0.97
37_R	176_I	0.552	0.97
155_P	188_I	0.549	0.97
193_K	220_I	0.549	0.97
70_H	73_L	0.545	0.97
175_G	216_G	0.544	0.96
98_A	120_F	0.542	0.96
232_D	235_Q	0.540	0.96
25_S	31_S	0.539	0.96
203_S	225_E	0.538	0.96
97_I	108_L	0.537	0.96
192_Y	195_M	0.537	0.96
174_E	193_K	0.536	0.96
171_F	197_L	0.532	0.96
101_A	189_N	0.529	0.96
9_I	28_L	0.523	0.96
137_Q	147_R	0.521	0.96
28_L	34_T	0.520	0.95
130_L	136_I	0.520	0.95
159_S	194_S	0.520	0.95
182_L	221_G	0.518	0.95
33_E	184_D	0.515	0.95
156_S	159_S	0.513	0.95
72_R	100_D	0.512	0.95
152_Y	160_Q	0.511	0.95
79_H	82_D	0.510	0.95
26_E	29_K	0.508	0.95
139_I	156_S	0.507	0.95
66_G	185_S	0.505	0.95
21_T	25_S	0.505	0.95
69_F	150_G	0.500	0.94

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
3rrlB	1	0.6749	100	0.508	Contact Map
1stzA	3	0.9342	100	0.511	Contact Map
2w48A	3	0.9671	100	0.564	Contact Map
2o0mA	1	0.7243	100	0.608	Contact Map
3l7oA	2	0.6008	100	0.613	Contact Map
4io1A	2	0.6132	100	0.617	Contact Map
1o8bA	2	0.5885	100	0.617	Contact Map
3ixqA	4	0.6049	99.9	0.619	Contact Map
1m0sA	2	0.6091	99.9	0.62	Contact Map
4l5jA	4	0.9588	99.9	0.621	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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