IOLR - BACSU - GREMLIN Contacts

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IOLR - HTH-type transcriptional regulator IolR

UniProt:	P46337	Sequences: MKLMRIQEMEEYILSHGTVSLDELCQVFNVSKNTVRRDINKLTEKGAIEKVYGGVTSIEKTALVPFENRTIQHQDEKTKIAHYASRFIEDHDLVFIDSGTTTKSILDTLDPAKNVTILTNSLDIINAASALKNINLIIIGNNYKRKTRSFVGMDDPAMLDKYNINKAFMSATGTTLTHGLTNSDLLEYEIKKRISEKAKEVYLLADHSKFGKSTLLTYAPFDRLHCIVTSQPLDDEYTQYCNEHQIGIHLA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	251 (245)
Sequences:	7685 (5687)
Seq/√Len:	363.3

ECOLI - YIHW GLPR AGAR YGBI GATR SGCR YDJF SRLR YCIT ULAR FUCR DEOR
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
92_D	166_K	3.212	1.00
83_Y	86_R	3.083	1.00
105_I	204_L	3.021	1.00
135_N	142_N	2.714	1.00
167_A	198_A	2.566	1.00
12_Y	27_V	2.352	1.00
195_S	219_A	2.226	1.00
97_D	191_K	2.208	1.00
107_D	127_A	2.196	1.00
207_H	230_S	2.185	1.00
160_D	193_R	2.127	1.00
89_E	92_D	2.085	1.00
12_Y	16_H	2.076	1.00
202_Y	226_C	2.073	1.00
8_E	11_E	2.042	1.00
166_K	202_Y	2.034	1.00
195_S	201_V	1.998	1.00
82_H	108_T	1.994	1.00
78_T	104_S	1.975	1.00
95_F	164_I	1.956	1.00
217_T	220_P	1.928	1.00
157_A	160_D	1.901	1.00
233_L	238_T	1.893	1.00
166_K	200_E	1.878	1.00
90_D	113_K	1.845	1.00
96_I	102_T	1.841	1.00
95_F	194_I	1.818	1.00
200_E	226_C	1.790	1.00
238_T	242_N	1.774	1.00
104_S	107_D	1.764	1.00
118_L	164_I	1.718	1.00
220_P	223_R	1.673	1.00
157_A	161_K	1.641	1.00
164_I	194_I	1.634	1.00
84_A	168_F	1.618	1.00
84_A	204_L	1.617	1.00
193_R	196_E	1.603	1.00
156_P	189_E	1.595	1.00
125_I	138_I	1.587	1.00
138_I	150_F	1.584	1.00
165_N	199_K	1.557	1.00
105_I	168_F	1.549	1.00
73_H	208_S	1.535	1.00
18_T	56_T	1.531	1.00
139_I	158_M	1.514	1.00
180_L	203_L	1.506	1.00
160_D	196_E	1.504	1.00
117_I	128_A	1.493	1.00
180_L	224_L	1.490	1.00
85_S	108_T	1.486	1.00
73_H	76_E	1.472	1.00
24_L	35_V	1.470	1.00
30_V	35_V	1.469	1.00
6_I	45_K	1.457	1.00
139_I	150_F	1.435	1.00
155_D	190_I	1.434	1.00
14_L	57_S	1.423	1.00
78_T	108_T	1.421	1.00
81_A	108_T	1.420	1.00
39_I	55_V	1.418	1.00
16_H	23_E	1.409	1.00
8_E	12_Y	1.407	1.00
12_Y	19_V	1.406	1.00
87_F	228_V	1.403	1.00
239_Q	243_E	1.396	1.00
49_E	58_I	1.396	1.00
193_R	197_K	1.395	1.00
98_S	149_S	1.377	1.00
9_M	24_L	1.376	1.00
203_L	224_L	1.376	1.00
87_F	202_Y	1.371	1.00
7_Q	11_E	1.363	1.00
90_D	112_A	1.353	1.00
92_D	165_N	1.348	1.00
117_I	134_I	1.348	1.00
143_Y	150_F	1.345	1.00
207_H	232_P	1.342	1.00
76_E	230_S	1.319	1.00
88_I	109_L	1.315	1.00
20_S	23_E	1.314	1.00
10_E	47_A	1.313	1.00
6_I	41_K	1.312	1.00
74_Q	104_S	1.312	1.00
90_D	114_N	1.310	1.00
22_D	32_K	1.308	1.00
142_N	186_L	1.307	1.00
139_I	155_D	1.288	1.00
174_T	210_F	1.281	1.00
219_A	223_R	1.276	1.00
234_D	237_Y	1.272	1.00
51_V	54_G	1.271	1.00
200_E	225_H	1.262	1.00
235_D	239_Q	1.250	1.00
77_K	100_T	1.236	1.00
78_T	107_D	1.234	1.00
95_F	197_K	1.234	1.00
13_I	48_I	1.232	1.00
91_H	114_N	1.230	1.00
8_E	28_F	1.228	1.00
116_T	137_I	1.225	1.00
83_Y	87_F	1.207	1.00
106_L	128_A	1.193	1.00
13_I	57_S	1.192	1.00
8_E	27_V	1.186	1.00
40_N	44_E	1.178	1.00
210_F	233_L	1.177	1.00
168_F	202_Y	1.170	1.00
239_Q	242_N	1.167	1.00
171_A	205_A	1.161	1.00
74_Q	78_T	1.161	1.00
196_E	223_R	1.158	1.00
33_N	37_R	1.148	1.00
175_T	178_H	1.142	1.00
226_C	247_G	1.138	1.00
75_D	78_T	1.127	1.00
10_E	13_I	1.120	1.00
173_G	181_T	1.119	1.00
201_V	224_L	1.117	1.00
76_E	207_H	1.116	1.00
116_T	135_N	1.112	1.00
154_D	158_M	1.111	1.00
49_E	56_T	1.106	1.00
11_E	15_S	1.097	1.00
156_P	190_I	1.096	1.00
137_I	142_N	1.096	1.00
171_A	218_Y	1.092	1.00
48_I	55_V	1.084	1.00
89_E	166_K	1.080	1.00
87_F	226_C	1.064	1.00
16_H	27_V	1.058	1.00
84_A	105_I	1.051	1.00
41_K	45_K	1.050	1.00
174_T	205_A	1.047	1.00
66_F	100_T	1.040	1.00
85_S	88_I	1.036	1.00
81_A	85_S	1.034	1.00
118_L	162_Y	1.031	1.00
210_F	227_I	1.025	1.00
237_Y	240_Y	1.018	1.00
202_Y	228_V	1.015	1.00
21_L	39_I	1.014	1.00
139_I	159_L	1.012	1.00
88_I	168_F	1.001	1.00
76_E	80_I	0.997	1.00
25_C	32_K	0.983	1.00
96_I	105_I	0.980	1.00
12_Y	15_S	0.980	1.00
4_M	8_E	0.979	1.00
99_G	102_T	0.978	1.00
85_S	105_I	0.975	1.00
156_P	193_R	0.965	1.00
105_I	108_T	0.965	1.00
172_T	182_N	0.948	1.00
106_L	127_A	0.948	1.00
154_D	162_Y	0.945	1.00
222_D	244_H	0.944	1.00
189_E	192_K	0.944	1.00
167_A	194_I	0.933	1.00
102_T	124_I	0.920	1.00
123_D	148_R	0.918	1.00
171_A	203_L	0.917	1.00
73_H	206_D	0.916	1.00
19_V	55_V	0.914	1.00
78_T	82_H	0.913	1.00
175_T	213_S	0.913	1.00
40_N	43_T	0.908	1.00
23_E	27_V	0.906	1.00
161_K	192_K	0.904	1.00
19_V	24_L	0.900	1.00
136_L	143_Y	0.897	1.00
41_K	44_E	0.897	1.00
101_T	206_D	0.890	1.00
163_N	178_H	0.889	1.00
25_C	35_V	0.887	1.00
154_D	161_K	0.886	1.00
80_I	101_T	0.880	1.00
188_Y	216_L	0.876	1.00
81_A	105_I	0.868	1.00
102_T	105_I	0.867	1.00
10_E	14_L	0.862	1.00
168_F	204_L	0.860	1.00
147_T	172_T	0.860	1.00
110_D	131_L	0.854	1.00
77_K	101_T	0.853	1.00
163_N	199_K	0.852	1.00
129_S	148_R	0.850	1.00
106_L	124_I	0.849	1.00
77_K	209_K	0.847	1.00
162_Y	185_L	0.847	1.00
121_S	124_I	0.845	1.00
199_K	213_S	0.840	1.00
81_A	104_S	0.840	1.00
42_L	47_A	0.838	1.00
84_A	228_V	0.830	1.00
4_M	7_Q	0.826	1.00
159_L	193_R	0.819	1.00
101_T	209_K	0.815	1.00
240_Y	243_E	0.815	1.00
163_N	217_T	0.810	1.00
79_K	82_H	0.808	1.00
163_N	213_S	0.806	1.00
96_I	106_L	0.805	1.00
159_L	194_I	0.804	1.00
182_N	188_Y	0.804	1.00
11_E	14_L	0.803	1.00
201_V	225_H	0.802	1.00
4_M	18_T	0.800	1.00
178_H	213_S	0.794	1.00
185_L	216_L	0.791	1.00
112_A	115_V	0.790	1.00
40_N	50_K	0.786	1.00
110_D	127_A	0.785	1.00
102_T	204_L	0.779	1.00
103_K	127_A	0.773	1.00
171_A	180_L	0.771	1.00
163_N	197_K	0.768	1.00
95_F	159_L	0.767	1.00
73_H	207_H	0.759	1.00
114_N	133_N	0.757	1.00
126_N	148_R	0.756	1.00
96_I	117_I	0.748	1.00
17_G	57_S	0.748	1.00
195_S	218_Y	0.745	1.00
75_D	79_K	0.744	1.00
161_K	217_T	0.743	1.00
23_E	26_Q	0.741	1.00
181_T	213_S	0.736	1.00
164_I	198_A	0.736	1.00
144_K	151_V	0.728	1.00
174_T	180_L	0.722	1.00
180_L	218_Y	0.718	0.99
6_I	10_E	0.716	0.99
205_A	227_I	0.715	0.99
51_V	56_T	0.715	0.99
192_K	196_E	0.715	0.99
144_K	187_E	0.715	0.99
110_D	113_K	0.713	0.99
233_L	237_Y	0.713	0.99
100_T	209_K	0.707	0.99
140_G	158_M	0.705	0.99
80_I	204_L	0.701	0.99
236_E	240_Y	0.699	0.99
10_E	42_L	0.698	0.99
240_Y	244_H	0.697	0.99
125_I	150_F	0.692	0.99
174_T	221_F	0.692	0.99
22_D	26_Q	0.689	0.99
125_I	143_Y	0.687	0.99
65_P	68_N	0.686	0.99
202_Y	225_H	0.683	0.99
69_R	172_T	0.683	0.99
98_S	147_T	0.681	0.99
167_A	201_V	0.680	0.99
182_N	218_Y	0.677	0.99
79_K	83_Y	0.675	0.99
39_I	50_K	0.675	0.99
160_D	197_K	0.675	0.99
104_S	108_T	0.675	0.99
70_T	103_K	0.674	0.99
153_M	189_E	0.672	0.99
93_L	118_L	0.672	0.99
152_G	155_D	0.671	0.99
94_V	117_I	0.669	0.99
43_T	48_I	0.666	0.99
122_L	150_F	0.666	0.99
13_I	19_V	0.665	0.99
63_L	69_R	0.664	0.99
113_K	133_N	0.664	0.99
153_M	157_A	0.663	0.99
120_N	194_I	0.661	0.99
21_L	35_V	0.660	0.99
127_A	130_A	0.656	0.99
235_D	238_T	0.652	0.99
43_T	50_K	0.651	0.99
94_V	166_K	0.649	0.99
82_H	86_R	0.649	0.99
182_N	187_E	0.645	0.99
157_A	189_E	0.644	0.99
172_T	214_T	0.639	0.99
24_L	39_I	0.638	0.99
30_V	33_N	0.630	0.99
162_Y	216_L	0.630	0.99
3_L	6_I	0.630	0.99
206_D	209_K	0.628	0.99
88_I	105_I	0.627	0.99
155_D	158_M	0.625	0.99
140_G	155_D	0.622	0.99
103_K	123_D	0.619	0.99
122_L	138_I	0.616	0.98
237_Y	241_C	0.612	0.98
186_L	189_E	0.612	0.98
123_D	126_N	0.612	0.98
200_E	247_G	0.611	0.98
118_L	215_L	0.605	0.98
169_M	198_A	0.605	0.98
76_E	232_P	0.603	0.98
122_L	126_N	0.602	0.98
198_A	201_V	0.599	0.98
219_A	224_L	0.597	0.98
169_M	195_S	0.596	0.98
28_F	35_V	0.592	0.98
114_N	135_N	0.591	0.98
188_Y	218_Y	0.591	0.98
144_K	184_D	0.586	0.98
118_L	137_I	0.584	0.98
5_R	38_D	0.581	0.98
156_P	160_D	0.578	0.98
173_G	214_T	0.577	0.98
183_S	214_T	0.576	0.98
154_D	157_A	0.575	0.98
33_N	121_S	0.574	0.98
153_M	156_P	0.573	0.98
190_I	193_R	0.573	0.98
33_N	172_T	0.573	0.98
79_K	231_Q	0.572	0.98
180_L	219_A	0.571	0.97
119_T	125_I	0.571	0.97
131_L	134_I	0.569	0.97
170_S	182_N	0.569	0.97
176_L	240_Y	0.569	0.97
169_M	218_Y	0.567	0.97
172_T	183_S	0.566	0.97
97_D	102_T	0.564	0.97
93_L	215_L	0.564	0.97
94_V	168_F	0.561	0.97
210_F	229_T	0.561	0.97
95_F	167_A	0.559	0.97
63_L	144_K	0.558	0.97
99_G	170_S	0.556	0.97
232_P	238_T	0.553	0.97
96_I	124_I	0.553	0.97
175_T	181_T	0.551	0.97
173_G	212_K	0.551	0.97
242_N	247_G	0.549	0.97
150_F	158_M	0.545	0.97
153_M	186_L	0.543	0.97
169_M	201_V	0.543	0.97
235_D	242_N	0.542	0.97
207_H	233_L	0.541	0.97
172_T	187_E	0.539	0.96
70_T	104_S	0.539	0.96
96_I	109_L	0.536	0.96
149_S	187_E	0.536	0.96
191_K	218_Y	0.534	0.96
157_A	192_K	0.533	0.96
95_F	118_L	0.530	0.96
201_V	223_R	0.530	0.96
21_L	25_C	0.528	0.96
227_I	241_C	0.528	0.96
67_E	70_T	0.528	0.96
176_L	237_Y	0.528	0.96
207_H	231_Q	0.526	0.96
37_R	174_T	0.524	0.96
238_T	241_C	0.524	0.96
172_T	191_K	0.524	0.96
69_R	187_E	0.520	0.96
76_E	79_K	0.520	0.96
121_S	187_E	0.518	0.96
39_I	43_T	0.518	0.96
21_L	52_Y	0.516	0.95
154_D	185_L	0.514	0.95
94_V	105_I	0.514	0.95
25_C	31_S	0.512	0.95
125_I	136_L	0.507	0.95
26_Q	29_N	0.506	0.95
129_S	143_Y	0.502	0.95
135_N	145_R	0.501	0.95
126_N	129_S	0.500	0.95

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	0.9402	100	0.508	Contact Map
3rrlB	1	0.6932	100	0.523	Contact Map
2w48A	3	0.9363	100	0.573	Contact Map
3l7oA	2	0.6016	100	0.603	Contact Map
1o8bA	2	0.5896	100	0.609	Contact Map
1m0sA	2	0.6135	100	0.614	Contact Map
1uj6A	2	0.6096	100	0.616	Contact Map
2o0mA	1	0.7052	100	0.617	Contact Map
1lk5A	4	0.6096	100	0.617	Contact Map
3uw1A	2	0.6215	100	0.623	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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