GATR - ECOLI - GREMLIN Contacts

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GATR - Galactitol utilization operon repressor

UniProt:	P36930	Sequences: MTMNSFERRNKIIQLVNEQGTVLVQDLAGVFAASEATIRADLRFLEQKGVVTRFHGGAAKIMSGNSETETQEVGFKERFQLASAPKNRIAQAAVKMIHEGMTVILDSGSTTMLIAEGLMTAKNITVITNSLPAAFALSENKDITLVVCGGTVRHKTRSMHGSIAERSLQDINADLMFVGADGIDAVNGITTFNEGYSISGAMVTAANKVIAVLDSSKFNRRGFNQVLPIEKIDIIITDDAVSEVDKLALQKTRVKLITV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12162
Length:	259 (247)
Sequences:	7694 (5640)
Seq/√Len:	358.9

ECOLI - GATR GLPR YIHW AGAR SRLR YGBI SGCR YDJF DEOR ULAR 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
101_M	175_L	3.208	1.00
92_A	95_K	3.084	1.00
114_I	212_V	3.041	1.00
144_T	151_T	2.692	1.00
176_M	206_A	2.548	1.00
15_L	30_V	2.357	1.00
203_V	227_L	2.228	1.00
116_E	136_A	2.221	1.00
215_S	238_D	2.187	1.00
106_D	199_S	2.173	1.00
169_Q	201_A	2.132	1.00
15_L	19_Q	2.091	1.00
210_I	234_I	2.083	1.00
98_H	101_M	2.077	1.00
175_L	210_I	2.051	1.00
11_K	14_Q	2.049	1.00
203_V	209_V	2.008	1.00
91_Q	117_G	1.991	1.00
87_N	113_L	1.984	1.00
104_I	173_A	1.964	1.00
225_Q	228_P	1.907	1.00
166_R	169_Q	1.899	1.00
175_L	208_K	1.894	1.00
99_E	122_K	1.859	1.00
105_L	111_T	1.855	1.00
104_I	202_M	1.817	1.00
241_V	246_K	1.813	1.00
208_K	234_I	1.787	1.00
113_L	116_E	1.756	1.00
246_K	250_Q	1.747	1.00
127_I	173_A	1.695	1.00
228_P	231_K	1.665	1.00
173_A	202_M	1.660	1.00
166_R	170_D	1.625	1.00
93_A	212_V	1.611	1.00
134_A	147_V	1.598	1.00
201_A	204_T	1.597	1.00
93_A	177_F	1.596	1.00
147_V	159_M	1.593	1.00
114_I	177_F	1.555	1.00
82_A	216_S	1.537	1.00
174_D	207_N	1.528	1.00
21_T	59_A	1.521	1.00
148_C	167_S	1.505	1.00
94_V	117_G	1.504	1.00
169_Q	204_T	1.496	1.00
126_V	137_L	1.494	1.00
82_A	85_P	1.462	1.00
189_I	232_I	1.457	1.00
27_L	38_I	1.456	1.00
9_R	48_K	1.446	1.00
247_L	251_K	1.443	1.00
17_N	60_K	1.439	1.00
87_N	117_G	1.437	1.00
33_A	38_I	1.437	1.00
96_M	236_I	1.435	1.00
148_C	159_M	1.430	1.00
19_Q	26_D	1.426	1.00
42_L	58_A	1.420	1.00
90_A	117_G	1.416	1.00
11_K	15_L	1.415	1.00
15_L	22_V	1.411	1.00
164_A	198_I	1.404	1.00
201_A	205_A	1.397	1.00
52_T	61_I	1.393	1.00
211_A	232_I	1.391	1.00
12_I	27_L	1.389	1.00
10_N	14_Q	1.382	1.00
126_V	143_I	1.381	1.00
96_M	210_I	1.377	1.00
107_S	158_S	1.375	1.00
242_S	245_D	1.371	1.00
85_P	238_D	1.370	1.00
97_I	118_L	1.361	1.00
189_I	211_A	1.359	1.00
101_M	174_D	1.351	1.00
152_V	159_M	1.347	1.00
215_S	240_A	1.336	1.00
9_R	44_F	1.329	1.00
13_I	50_V	1.326	1.00
83_S	113_L	1.326	1.00
25_Q	35_E	1.324	1.00
165_E	197_S	1.313	1.00
99_E	123_N	1.313	1.00
183_I	218_F	1.307	1.00
227_L	231_K	1.304	1.00
99_E	121_A	1.302	1.00
148_C	164_A	1.301	1.00
23_L	26_D	1.300	1.00
5_S	9_R	1.299	1.00
100_G	123_N	1.285	1.00
208_K	233_D	1.278	1.00
87_N	116_E	1.245	1.00
16_V	51_V	1.240	1.00
125_T	146_V	1.239	1.00
104_I	205_A	1.232	1.00
86_K	109_S	1.231	1.00
54_F	57_G	1.227	1.00
11_K	31_F	1.226	1.00
92_A	96_M	1.222	1.00
11_K	30_V	1.207	1.00
115_A	137_L	1.194	1.00
16_V	60_K	1.193	1.00
243_E	247_L	1.189	1.00
177_F	210_I	1.186	1.00
83_S	87_N	1.181	1.00
247_L	250_Q	1.179	1.00
218_F	241_V	1.162	1.00
180_A	213_L	1.156	1.00
234_I	255_K	1.155	1.00
43_R	47_Q	1.153	1.00
146_V	151_T	1.150	1.00
85_P	215_S	1.149	1.00
204_T	231_K	1.141	1.00
163_I	167_S	1.130	1.00
36_A	40_A	1.123	1.00
13_I	16_V	1.119	1.00
125_T	144_T	1.118	1.00
52_T	59_A	1.113	1.00
209_V	232_I	1.103	1.00
14_Q	18_E	1.099	1.00
180_A	226_V	1.097	1.00
51_V	58_A	1.094	1.00
184_D	187_N	1.093	1.00
84_A	87_N	1.093	1.00
96_M	234_I	1.074	1.00
98_H	175_L	1.073	1.00
182_G	190_T	1.072	1.00
94_V	97_I	1.068	1.00
165_E	198_I	1.068	1.00
183_I	213_L	1.060	1.00
218_F	235_I	1.059	1.00
93_A	114_I	1.055	1.00
44_F	48_K	1.054	1.00
90_A	94_V	1.054	1.00
19_Q	30_V	1.051	1.00
75_F	109_S	1.050	1.00
127_I	171_I	1.047	1.00
210_I	236_I	1.033	1.00
245_D	248_A	1.016	1.00
148_C	168_L	1.014	1.00
105_L	114_I	1.014	1.00
97_I	177_F	1.011	1.00
7_E	11_K	1.002	1.00
85_P	89_I	1.002	1.00
165_E	201_A	1.001	1.00
15_L	18_E	0.992	1.00
151_T	194_E	0.991	1.00
94_V	114_I	0.990	1.00
24_V	42_L	0.988	1.00
28_A	35_E	0.983	1.00
108_G	111_T	0.980	1.00
114_I	117_G	0.979	1.00
115_A	136_A	0.950	1.00
163_I	171_I	0.949	1.00
145_L	152_V	0.944	1.00
176_M	202_M	0.941	1.00
5_S	44_F	0.940	1.00
87_N	91_Q	0.938	1.00
181_D	191_T	0.936	1.00
82_A	214_D	0.934	1.00
180_A	211_A	0.933	1.00
230_E	252_T	0.931	1.00
26_D	30_V	0.926	1.00
132_P	157_R	0.926	1.00
22_V	27_L	0.919	1.00
43_R	46_E	0.914	1.00
184_D	221_R	0.914	1.00
111_T	133_A	0.911	1.00
22_V	58_A	0.905	1.00
163_I	170_D	0.905	1.00
28_A	38_I	0.899	1.00
170_D	200_G	0.899	1.00
44_F	47_Q	0.893	1.00
13_I	17_N	0.886	1.00
138_S	157_R	0.885	1.00
89_I	110_T	0.882	1.00
156_T	181_D	0.881	1.00
246_K	256_L	0.877	1.00
111_T	114_I	0.873	1.00
110_T	214_D	0.872	1.00
93_A	236_I	0.866	1.00
177_F	212_V	0.863	1.00
90_A	114_I	0.859	1.00
119_M	140_N	0.856	1.00
119_M	136_A	0.854	1.00
168_L	201_A	0.853	1.00
248_A	251_K	0.852	1.00
115_A	133_A	0.851	1.00
86_K	217_K	0.848	1.00
172_N	187_N	0.843	1.00
86_K	110_T	0.843	1.00
45_L	50_V	0.842	1.00
90_A	113_L	0.838	1.00
130_S	133_A	0.837	1.00
172_N	207_N	0.835	1.00
88_R	91_Q	0.830	1.00
7_E	10_N	0.826	1.00
172_N	225_Q	0.826	1.00
207_N	221_R	0.826	1.00
105_L	115_A	0.824	1.00
209_V	233_D	0.815	1.00
14_Q	17_N	0.812	1.00
185_A	188_G	0.812	1.00
172_N	221_R	0.802	1.00
187_N	221_R	0.801	1.00
189_I	226_V	0.800	1.00
110_T	217_K	0.799	1.00
168_L	202_M	0.795	1.00
112_M	136_A	0.782	1.00
172_N	205_A	0.776	1.00
135_F	157_R	0.776	1.00
104_I	168_L	0.771	1.00
7_E	21_T	0.769	1.00
111_T	212_V	0.768	1.00
123_N	142_D	0.766	1.00
20_G	60_K	0.764	1.00
203_V	226_V	0.763	1.00
43_R	53_R	0.753	1.00
121_A	124_I	0.752	1.00
84_A	88_R	0.750	1.00
190_T	221_R	0.749	1.00
185_A	248_A	0.747	1.00
173_A	206_A	0.745	1.00
180_A	189_I	0.742	1.00
105_L	126_V	0.742	1.00
78_R	181_D	0.742	1.00
241_V	245_D	0.740	1.00
153_R	160_H	0.736	1.00
119_M	122_K	0.735	1.00
26_D	29_G	0.735	1.00
82_A	215_S	0.732	1.00
89_I	212_V	0.727	1.00
170_D	225_Q	0.726	1.00
9_R	13_I	0.719	0.99
74_G	77_E	0.715	0.99
213_L	235_I	0.702	0.99
176_M	209_V	0.701	0.99
200_G	204_T	0.701	0.99
149_G	167_S	0.700	0.99
88_R	92_A	0.699	0.99
136_A	139_E	0.698	0.99
248_A	252_T	0.698	0.99
113_L	117_G	0.697	0.99
13_I	45_L	0.697	0.99
140_N	143_I	0.697	0.99
241_V	256_L	0.695	0.99
109_S	217_K	0.695	0.99
79_F	112_M	0.695	0.99
54_F	59_A	0.692	0.99
46_E	51_V	0.691	0.99
183_I	229_I	0.690	0.99
134_A	159_M	0.690	0.99
42_L	53_R	0.689	0.99
134_A	152_V	0.684	0.99
107_S	156_T	0.684	0.99
191_T	196_Y	0.679	0.99
161_G	164_A	0.679	0.99
244_V	248_A	0.678	0.99
243_E	246_K	0.677	0.99
210_I	233_D	0.675	0.99
25_Q	29_G	0.668	0.99
91_Q	95_K	0.668	0.99
102_T	127_I	0.668	0.99
97_I	114_I	0.667	0.99
16_V	22_V	0.666	0.99
197_S	200_G	0.666	0.99
162_S	166_R	0.666	0.99
129_N	202_M	0.664	0.99
131_L	159_M	0.662	0.99
169_Q	205_A	0.662	0.99
46_E	53_R	0.659	0.99
103_V	126_V	0.657	0.99
122_K	142_D	0.656	0.99
139_E	157_R	0.654	0.99
149_G	164_A	0.652	0.99
191_T	226_V	0.648	0.99
72_E	78_R	0.643	0.99
215_S	241_V	0.643	0.99
103_V	175_L	0.643	0.99
183_I	189_I	0.640	0.99
27_L	42_L	0.638	0.99
162_S	197_S	0.637	0.99
181_D	222_G	0.636	0.99
33_A	36_A	0.633	0.99
24_V	38_I	0.633	0.99
131_L	147_V	0.629	0.99
153_R	195_G	0.625	0.99
171_I	224_N	0.625	0.99
164_A	167_S	0.623	0.99
123_N	144_T	0.623	0.99
127_I	146_V	0.622	0.98
6_F	9_R	0.621	0.98
112_M	132_P	0.621	0.98
132_P	135_F	0.621	0.98
8_R	41_D	0.619	0.98
245_D	249_L	0.611	0.98
214_D	217_K	0.610	0.98
178_V	203_V	0.610	0.98
196_Y	224_N	0.607	0.98
206_A	209_V	0.603	0.98
127_I	223_F	0.603	0.98
163_I	166_R	0.603	0.98
162_S	165_E	0.602	0.98
131_L	135_F	0.601	0.98
178_V	206_A	0.593	0.98
102_T	223_F	0.591	0.98
31_F	38_I	0.589	0.98
165_E	169_Q	0.586	0.98
128_T	134_A	0.582	0.98
208_K	255_K	0.581	0.98
182_G	222_G	0.579	0.98
198_I	201_A	0.576	0.98
88_R	239_D	0.574	0.97
76_K	79_F	0.574	0.97
189_I	227_L	0.571	0.97
227_L	232_I	0.571	0.97
181_D	192_F	0.570	0.97
240_A	246_K	0.569	0.97
178_V	209_V	0.569	0.97
153_R	193_N	0.569	0.97
105_L	133_A	0.568	0.97
103_V	177_F	0.567	0.97
218_F	237_T	0.566	0.97
106_D	111_T	0.566	0.97
178_V	226_V	0.564	0.97
104_I	176_M	0.562	0.97
36_A	181_D	0.557	0.97
108_G	179_G	0.556	0.97
85_P	240_A	0.554	0.97
36_A	130_S	0.553	0.97
85_P	88_R	0.545	0.97
24_V	28_A	0.544	0.97
250_Q	255_K	0.542	0.96
105_L	118_L	0.541	0.96
79_F	113_L	0.541	0.96
209_V	231_K	0.540	0.96
192_F	222_G	0.539	0.96
75_F	157_R	0.538	0.96
182_G	220_R	0.538	0.96
159_M	167_S	0.536	0.96
104_I	127_I	0.536	0.96
219_N	245_D	0.535	0.96
72_E	153_R	0.535	0.96
121_A	142_D	0.533	0.96
78_R	106_D	0.533	0.96
215_S	239_D	0.533	0.96
218_F	245_D	0.531	0.96
146_V	163_I	0.531	0.96
12_I	31_F	0.529	0.96
40_A	183_I	0.527	0.96
134_A	145_L	0.524	0.96
184_D	190_T	0.524	0.96
117_G	120_T	0.521	0.96
199_S	226_V	0.518	0.95
46_E	52_T	0.517	0.95
103_V	114_I	0.516	0.95
185_A	245_D	0.514	0.95
166_R	200_G	0.513	0.95
243_E	250_Q	0.512	0.95
28_A	34_S	0.512	0.95
42_L	46_E	0.511	0.95
138_S	152_V	0.508	0.95
181_D	199_S	0.508	0.95
9_R	31_F	0.505	0.95
29_G	32_A	0.504	0.95
24_V	55_H	0.504	0.95
179_G	191_T	0.501	0.95
246_K	249_L	0.501	0.95
144_T	154_H	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	0.9421	100	0.513	Contact Map
3rrlB	1	0.6486	100	0.534	Contact Map
2w48A	3	0.9035	100	0.573	Contact Map
3l7oA	2	0.583	100	0.609	Contact Map
1o8bA	2	0.5714	100	0.612	Contact Map
2o0mA	1	0.6834	100	0.617	Contact Map
1m0sA	2	0.5946	100	0.62	Contact Map
1lk5A	4	0.5907	100	0.621	Contact Map
1uj6A	2	0.5907	100	0.623	Contact Map
3uw1A	2	0.6023	100	0.625	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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