GLPR - ECOLI - GREMLIN Contacts

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GLPR - Glycerol-3-phosphate regulon repressor

UniProt:	P0ACL0	Sequences: MKQTQRHNGIIELVKQQGYVSTEELVEHFSVSPQTIRRDLNELAEQNLILRHHGGAALPSSSVNTPWHDRKATQTEEKERIARKVAEQIPNGSTLFIDIGTTPEAVAHALLNHSNLRIVTNNLNVANTLMVKEDFRIILAGGELRSRDGGIIGEATLDFISQFRLDFGILGISGIDSDGSLLEFDYHEVRTKRAIIENSRHVMLVVDHSKFGRNAMVNMGSISMVDAVYTDAPPPVSVMQVLTDHHIQLELC	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10400
Length:	252 (246)
Sequences:	7678 (5622)
Seq/√Len:	358.4

ECOLI - GLPR YIHW AGAR YGBI GATR SGCR YDJF SRLR ULAR DEOR YCIT FUCR
BACSU - YULB IOLR 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
93_S	167_F	3.178	1.00
106_V	205_V	3.074	1.00
84_K	87_E	3.046	1.00
136_R	143_E	2.648	1.00
168_G	199_S	2.535	1.00
13_L	28_H	2.364	1.00
108_H	128_T	2.223	1.00
196_I	220_G	2.197	1.00
208_H	231_D	2.166	1.00
98_D	192_K	2.152	1.00
13_L	17_Q	2.105	1.00
161_S	194_A	2.104	1.00
167_F	203_M	2.060	1.00
90_P	93_S	2.040	1.00
9_G	12_E	2.035	1.00
203_M	227_A	2.033	1.00
196_I	202_V	2.005	1.00
83_R	109_A	1.987	1.00
79_E	105_A	1.979	1.00
96_F	165_L	1.972	1.00
218_N	221_S	1.932	1.00
91_N	114_S	1.905	1.00
158_D	161_S	1.884	1.00
167_F	201_H	1.871	1.00
234_P	239_M	1.870	1.00
97_I	103_P	1.826	1.00
96_F	195_I	1.811	1.00
201_H	227_A	1.777	1.00
239_M	243_T	1.767	1.00
105_A	108_H	1.743	1.00
119_V	165_L	1.720	1.00
221_S	224_M	1.671	1.00
165_L	195_I	1.655	1.00
85_V	205_V	1.626	1.00
139_L	151_I	1.613	1.00
157_L	190_R	1.600	1.00
158_D	162_Q	1.597	1.00
126_A	139_L	1.591	1.00
85_V	169_I	1.577	1.00
194_A	197_E	1.571	1.00
106_V	169_I	1.558	1.00
166_D	200_R	1.554	1.00
74_Q	209_S	1.532	1.00
19_Y	57_A	1.527	1.00
161_S	197_E	1.514	1.00
181_L	225_V	1.504	1.00
74_Q	77_E	1.495	1.00
118_I	129_L	1.492	1.00
140_A	159_F	1.489	1.00
181_L	204_L	1.482	1.00
86_A	109_A	1.482	1.00
140_A	151_I	1.476	1.00
25_L	36_I	1.454	1.00
31_V	36_I	1.454	1.00
17_Q	24_E	1.453	1.00
15_K	58_L	1.436	1.00
40_L	56_A	1.436	1.00
82_A	109_A	1.429	1.00
118_I	135_F	1.413	1.00
7_H	46_Q	1.411	1.00
156_T	191_T	1.409	1.00
79_E	109_A	1.407	1.00
9_G	13_L	1.404	1.00
194_A	198_N	1.399	1.00
240_Q	244_D	1.393	1.00
88_Q	229_Y	1.390	1.00
204_L	225_V	1.382	1.00
8_N	12_E	1.381	1.00
13_L	20_V	1.380	1.00
50_L	59_P	1.378	1.00
89_I	110_L	1.375	1.00
99_I	150_G	1.369	1.00
140_A	156_T	1.360	1.00
10_I	25_L	1.360	1.00
88_Q	203_M	1.352	1.00
93_S	166_D	1.343	1.00
208_H	233_P	1.337	1.00
11_I	48_L	1.334	1.00
144_L	151_I	1.329	1.00
21_S	24_E	1.324	1.00
201_H	226_D	1.315	1.00
75_T	105_A	1.313	1.00
220_G	224_M	1.311	1.00
7_H	42_E	1.310	1.00
92_G	115_N	1.308	1.00
77_E	231_D	1.308	1.00
175_I	211_F	1.299	1.00
143_E	187_H	1.295	1.00
235_P	238_V	1.288	1.00
14_V	49_I	1.278	1.00
91_N	113_H	1.276	1.00
14_V	58_L	1.267	1.00
91_N	115_N	1.266	1.00
23_E	33_P	1.259	1.00
9_G	29_F	1.255	1.00
169_I	203_M	1.244	1.00
96_F	198_N	1.235	1.00
117_R	138_I	1.232	1.00
84_K	88_Q	1.213	1.00
107_A	129_L	1.211	1.00
236_V	240_Q	1.204	1.00
52_H	55_G	1.198	1.00
78_K	101_T	1.196	1.00
174_G	182_L	1.192	1.00
3_Q	7_H	1.186	1.00
9_G	28_H	1.186	1.00
79_E	108_H	1.185	1.00
75_T	79_E	1.179	1.00
240_Q	243_T	1.166	1.00
41_N	45_E	1.160	1.00
227_A	248_Q	1.154	1.00
211_F	234_P	1.150	1.00
172_I	206_V	1.144	1.00
49_I	56_A	1.139	1.00
11_I	14_V	1.137	1.00
202_V	225_V	1.137	1.00
197_E	224_M	1.135	1.00
155_A	159_F	1.133	1.00
117_R	136_R	1.132	1.00
77_E	208_H	1.126	1.00
176_D	179_G	1.119	1.00
172_I	219_M	1.114	1.00
88_Q	227_A	1.113	1.00
82_A	86_A	1.107	1.00
12_E	16_Q	1.102	1.00
76_E	79_E	1.094	1.00
34_Q	38_R	1.091	1.00
211_F	228_V	1.087	1.00
50_L	57_A	1.085	1.00
86_A	89_I	1.085	1.00
175_I	206_V	1.074	1.00
85_V	106_V	1.063	1.00
89_I	169_I	1.063	1.00
90_P	167_F	1.062	1.00
157_L	191_T	1.057	1.00
138_I	143_E	1.051	1.00
67_W	101_T	1.051	1.00
42_E	46_Q	1.026	1.00
140_A	160_I	1.024	1.00
119_V	163_F	1.022	1.00
203_M	229_Y	1.015	1.00
238_V	241_V	1.014	1.00
17_Q	28_H	1.006	1.00
5_Q	9_G	1.000	1.00
100_G	103_P	0.998	1.00
97_I	106_V	0.997	1.00
13_L	16_Q	0.997	1.00
106_V	109_A	0.981	1.00
77_E	81_I	0.976	1.00
86_A	106_V	0.969	1.00
22_T	40_L	0.968	1.00
168_G	195_I	0.964	1.00
157_L	194_A	0.961	1.00
137_I	144_L	0.961	1.00
26_V	33_P	0.959	1.00
173_S	183_E	0.950	1.00
3_Q	42_E	0.942	1.00
124_N	149_G	0.932	1.00
24_E	28_H	0.929	1.00
20_V	25_L	0.928	1.00
190_R	193_R	0.925	1.00
172_I	204_L	0.923	1.00
223_S	245_H	0.919	1.00
74_Q	207_D	0.911	1.00
20_V	56_A	0.911	1.00
155_A	162_Q	0.906	1.00
42_E	45_E	0.902	1.00
176_D	214_N	0.902	1.00
162_Q	193_R	0.902	1.00
107_A	128_T	0.897	1.00
155_A	163_F	0.893	1.00
79_E	83_R	0.886	1.00
26_V	36_I	0.886	1.00
169_I	205_V	0.886	1.00
85_V	229_Y	0.881	1.00
103_P	125_V	0.881	1.00
11_I	15_K	0.877	1.00
41_N	44_A	0.874	1.00
164_R	179_G	0.868	1.00
148_D	173_S	0.866	1.00
103_P	106_V	0.859	1.00
130_M	149_G	0.857	1.00
81_I	102_T	0.857	1.00
97_I	107_A	0.853	1.00
163_F	186_Y	0.853	1.00
111_L	132_K	0.847	1.00
160_I	194_A	0.841	1.00
200_R	214_N	0.839	1.00
189_V	217_V	0.838	1.00
5_Q	8_N	0.837	1.00
111_L	128_T	0.837	1.00
82_A	106_V	0.835	1.00
102_T	207_D	0.834	1.00
80_R	83_R	0.827	1.00
107_A	125_V	0.824	1.00
82_A	105_A	0.819	1.00
122_N	125_V	0.817	1.00
160_I	195_I	0.814	1.00
241_V	244_D	0.814	1.00
43_L	48_L	0.810	1.00
78_K	102_T	0.807	1.00
164_R	218_N	0.807	1.00
202_V	226_D	0.804	1.00
186_Y	217_V	0.802	1.00
164_R	200_R	0.799	1.00
96_F	160_I	0.796	1.00
179_G	214_N	0.790	1.00
165_L	199_S	0.790	1.00
183_E	189_V	0.789	1.00
164_R	214_N	0.787	1.00
78_K	210_K	0.784	1.00
12_E	15_K	0.782	1.00
104_E	128_T	0.781	1.00
145_R	188_E	0.779	1.00
172_I	181_L	0.772	1.00
5_Q	19_Y	0.767	1.00
182_L	214_N	0.766	1.00
177_S	180_S	0.764	1.00
177_S	241_V	0.764	1.00
103_P	205_V	0.761	1.00
241_V	245_H	0.758	1.00
164_R	198_N	0.756	1.00
127_N	149_G	0.751	1.00
102_T	210_K	0.749	1.00
115_N	134_D	0.746	1.00
97_I	118_I	0.745	1.00
41_N	51_R	0.741	1.00
81_I	205_V	0.739	1.00
18_G	58_L	0.739	1.00
181_L	219_M	0.737	1.00
76_E	80_R	0.737	1.00
196_I	219_M	0.732	1.00
145_R	152_I	0.731	1.00
24_E	27_E	0.731	1.00
111_L	114_S	0.730	1.00
74_Q	208_H	0.729	1.00
193_R	197_E	0.727	1.00
7_H	11_I	0.727	1.00
126_A	151_I	0.718	0.99
44_A	51_R	0.715	0.99
162_Q	218_N	0.714	0.99
70_R	173_S	0.711	0.99
203_M	226_D	0.703	0.99
237_S	241_V	0.698	0.99
95_L	118_I	0.698	0.99
206_V	228_V	0.696	0.99
236_V	239_M	0.696	0.99
154_E	190_R	0.696	0.99
234_P	238_V	0.688	0.99
175_I	181_L	0.686	0.99
175_I	222_I	0.685	0.99
14_V	20_V	0.685	0.99
121_N	195_I	0.684	0.99
168_G	202_V	0.682	0.99
52_H	57_A	0.682	0.99
11_I	43_L	0.681	0.99
123_L	151_I	0.679	0.99
183_E	188_E	0.677	0.99
94_T	119_V	0.676	0.99
80_R	84_K	0.674	0.99
153_G	156_T	0.673	0.99
44_A	49_I	0.672	0.99
126_A	144_L	0.671	0.99
23_E	27_E	0.669	0.99
154_E	158_D	0.667	0.99
40_L	51_R	0.665	0.99
101_T	210_K	0.659	0.99
119_V	216_M	0.659	0.99
89_I	106_V	0.658	0.99
141_G	159_F	0.654	0.99
161_S	198_N	0.651	0.99
105_A	109_A	0.649	0.99
66_P	69_D	0.648	0.99
158_D	190_R	0.642	0.99
156_T	159_F	0.641	0.99
183_E	219_M	0.640	0.99
83_R	87_E	0.640	0.99
141_G	156_T	0.637	0.99
113_H	116_L	0.637	0.99
64_N	70_R	0.634	0.99
99_I	148_D	0.630	0.99
173_S	215_A	0.629	0.99
71_K	104_E	0.627	0.99
128_T	131_V	0.626	0.99
95_L	167_F	0.622	0.98
132_K	135_F	0.621	0.98
201_H	248_Q	0.615	0.98
119_V	138_I	0.613	0.98
124_N	127_N	0.613	0.98
64_N	145_R	0.612	0.98
114_S	134_D	0.610	0.98
22_T	36_I	0.609	0.98
238_V	242_L	0.608	0.98
31_V	34_Q	0.603	0.98
181_L	220_G	0.602	0.98
123_L	139_L	0.600	0.98
6_R	39_D	0.600	0.98
104_E	124_N	0.599	0.98
187_H	190_R	0.595	0.98
163_F	217_V	0.595	0.98
25_L	40_L	0.594	0.98
154_E	157_L	0.592	0.98
145_R	185_D	0.591	0.98
115_N	136_R	0.588	0.98
95_L	169_I	0.587	0.98
189_V	219_M	0.586	0.98
155_A	158_D	0.585	0.98
34_Q	173_S	0.583	0.98
97_I	125_V	0.581	0.98
220_G	225_V	0.581	0.98
100_G	171_G	0.581	0.98
207_D	210_K	0.580	0.98
94_T	216_M	0.579	0.98
123_L	127_N	0.577	0.98
4_T	7_H	0.575	0.97
157_L	161_S	0.575	0.97
199_S	202_V	0.571	0.97
170_L	196_I	0.569	0.97
29_F	36_I	0.568	0.97
170_L	199_S	0.564	0.97
191_T	194_A	0.562	0.97
77_E	233_P	0.562	0.97
150_G	188_E	0.560	0.97
174_G	215_A	0.559	0.97
77_E	80_R	0.559	0.97
40_L	44_A	0.558	0.97
68_H	71_K	0.555	0.97
98_D	103_P	0.555	0.97
34_Q	122_N	0.555	0.97
80_R	232_A	0.553	0.97
173_S	184_F	0.552	0.97
96_F	168_G	0.547	0.97
171_G	183_E	0.544	0.97
184_F	215_A	0.544	0.97
173_S	188_E	0.543	0.96
97_I	110_L	0.542	0.96
208_H	232_A	0.542	0.96
95_L	106_V	0.542	0.96
233_P	239_M	0.541	0.96
158_D	193_R	0.540	0.96
151_I	159_F	0.539	0.96
211_F	230_T	0.538	0.96
96_F	119_V	0.533	0.96
176_D	182_L	0.532	0.96
7_H	29_F	0.532	0.96
208_H	234_P	0.531	0.96
154_E	187_H	0.530	0.96
170_L	202_V	0.529	0.96
170_L	219_M	0.528	0.96
22_T	26_V	0.526	0.96
243_T	248_Q	0.525	0.96
236_V	243_T	0.524	0.96
202_V	224_M	0.524	0.96
228_V	242_L	0.523	0.96
241_V	246_H	0.522	0.96
192_K	219_M	0.520	0.96
71_K	105_A	0.520	0.96
155_A	186_Y	0.519	0.95
173_S	192_K	0.516	0.95
120_T	126_A	0.513	0.95
174_G	213_R	0.512	0.95
130_M	144_L	0.512	0.95
126_A	137_I	0.511	0.95
127_N	130_M	0.509	0.95
22_T	53_H	0.507	0.95
26_V	32_S	0.505	0.95
93_S	203_M	0.504	0.95
72_A	75_T	0.502	0.95
193_R	224_M	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
1stzA	3	0.9405	100	0.51	Contact Map
3rrlB	1	0.6706	100	0.526	Contact Map
2w48A	3	0.9325	100	0.566	Contact Map
3l7oA	2	0.5992	100	0.606	Contact Map
1o8bA	2	0.5873	100	0.612	Contact Map
2o0mA	1	0.7024	100	0.615	Contact Map
1m0sA	2	0.6111	100	0.618	Contact Map
1uj6A	2	0.6071	100	0.62	Contact Map
1lk5A	4	0.6071	100	0.621	Contact Map
4io1A	2	0.6111	100	0.626	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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