MURR - ECOLI - GREMLIN Contacts

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MURR - HTH-type transcriptional regulator MurR

UniProt:	P77245	Sequences: MLYLTKISNAGSEFTENEQKIADFLQANVSELQSVSSRQMAKQLGISQSSIVKFAQKLGAQGFTELRMALIGEYSASREKTNATALHLHSSITSDDSLEVIARKLNREKELALEQTCALLDYARLQKIIEVISKAPFIQITGLGGSALVGRDLSFKLMKIGYRVACEADTHVQATVSQALKKGDVQIAISYSGSKKEIVLCAEAARKQGATVIAITSLTDSPLRRLAHFTLDTVSGETEWRSSSMSTRTAQNSVTDLLFVGLVQLNDVESLKMIQRSSELTQRLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14161
Length:	285 (257)
Sequences:	9144 (6464)
Seq/√Len:	403.2

ECOLI - MURR YFHH RPIR HEXR
BACSU - YBBH GLVR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
136_P	183_G	4.849	1.00
214_A	227_A	3.876	1.00
203_E	226_L	3.125	1.00
131_V	211_T	2.964	1.00
188_A	202_A	2.903	1.00
194_S	222_P	2.844	1.00
11_G	23_D	2.780	1.00
10_A	13_E	2.592	1.00
137_F	163_R	2.491	1.00
60_A	69_A	2.468	1.00
128_I	229_F	2.441	1.00
136_P	181_K	2.417	1.00
128_I	213_I	2.417	1.00
38_R	57_K	2.417	1.00
111_L	115_Q	2.392	1.00
206_R	228_H	2.371	1.00
202_A	212_V	2.324	1.00
136_P	184_D	2.260	1.00
28_N	31_E	2.169	1.00
244_S	247_T	2.157	1.00
129_I	261_G	2.093	1.00
180_L	210_A	2.084	1.00
204_A	207_K	2.068	1.00
110_E	114_E	2.060	1.00
181_K	184_D	2.055	1.00
186_Q	205_A	2.004	1.00
130_E	265_L	1.992	1.00
23_D	27_A	1.925	1.00
185_V	213_I	1.881	1.00
131_V	229_F	1.879	1.00
211_T	228_H	1.872	1.00
189_I	255_T	1.862	1.00
59_G	62_G	1.861	1.00
24_F	28_N	1.860	1.00
135_A	185_V	1.860	1.00
153_L	157_L	1.854	1.00
121_D	124_R	1.816	1.00
188_A	198_I	1.800	1.00
189_I	215_I	1.774	1.00
133_S	265_L	1.745	1.00
202_A	223_L	1.742	1.00
22_A	54_F	1.703	1.00
140_I	187_I	1.684	1.00
35_V	39_Q	1.673	1.00
205_A	210_A	1.633	1.00
34_S	76_A	1.629	1.00
9_N	13_E	1.615	1.00
211_T	229_F	1.608	1.00
18_E	57_K	1.574	1.00
127_K	229_F	1.571	1.00
140_I	153_L	1.556	1.00
190_S	223_L	1.549	1.00
140_I	150_G	1.536	1.00
186_Q	210_A	1.523	1.00
113_L	253_S	1.521	1.00
68_M	71_I	1.521	1.00
63_F	67_R	1.516	1.00
40_M	53_K	1.515	1.00
214_A	223_L	1.514	1.00
55_A	66_L	1.503	1.00
21_I	54_F	1.494	1.00
35_V	43_Q	1.482	1.00
231_L	254_V	1.466	1.00
266_N	269_E	1.466	1.00
212_V	227_A	1.464	1.00
106_N	113_L	1.459	1.00
214_A	230_T	1.452	1.00
224_R	230_T	1.447	1.00
66_L	70_L	1.408	1.00
65_E	68_M	1.403	1.00
261_G	265_L	1.401	1.00
40_M	56_Q	1.399	1.00
130_E	134_K	1.391	1.00
141_T	186_Q	1.387	1.00
60_A	63_F	1.387	1.00
40_M	57_K	1.385	1.00
188_A	212_V	1.362	1.00
11_G	19_Q	1.359	1.00
187_I	215_I	1.338	1.00
124_R	127_K	1.329	1.00
73_E	77_S	1.327	1.00
61_Q	65_E	1.324	1.00
116_T	234_V	1.312	1.00
131_V	185_V	1.311	1.00
150_G	189_I	1.280	1.00
133_S	266_N	1.278	1.00
206_R	226_L	1.277	1.00
133_S	262_L	1.264	1.00
9_N	12_S	1.258	1.00
128_I	131_V	1.256	1.00
188_A	205_A	1.255	1.00
19_Q	23_D	1.250	1.00
196_K	200_L	1.248	1.00
151_R	168_A	1.241	1.00
233_T	251_Q	1.240	1.00
137_F	184_D	1.239	1.00
36_S	39_Q	1.233	1.00
200_L	203_E	1.218	1.00
17_N	50_S	1.217	1.00
17_N	20_K	1.206	1.00
60_A	66_L	1.203	1.00
132_I	185_V	1.191	1.00
97_S	100_V	1.187	1.00
73_E	76_A	1.171	1.00
149_V	255_T	1.166	1.00
69_A	72_G	1.162	1.00
37_S	52_V	1.156	1.00
67_R	71_I	1.100	1.00
134_K	211_T	1.099	1.00
152_D	156_K	1.085	1.00
180_L	186_Q	1.078	1.00
124_R	229_F	1.060	1.00
11_G	22_A	1.057	1.00
24_F	44_L	1.056	1.00
31_E	43_Q	1.048	1.00
261_G	264_Q	1.047	1.00
139_Q	184_D	1.033	1.00
180_L	184_D	1.032	1.00
145_G	244_S	1.028	1.00
96_D	104_K	1.027	1.00
127_K	131_V	1.020	1.00
112_A	250_A	1.016	1.00
63_F	66_L	1.009	1.00
55_A	73_E	1.008	1.00
129_I	265_L	1.007	1.00
37_S	41_A	0.998	1.00
184_D	210_A	0.998	1.00
139_Q	180_L	0.995	1.00
20_K	52_V	0.991	1.00
132_I	262_L	0.988	1.00
138_I	185_V	0.981	1.00
204_A	208_Q	0.980	1.00
138_I	162_Y	0.980	1.00
116_T	233_T	0.972	1.00
122_Y	126_Q	0.972	1.00
114_E	118_A	0.969	1.00
31_E	35_V	0.968	1.00
140_I	154_S	0.966	1.00
127_K	130_E	0.954	1.00
21_I	44_L	0.952	1.00
62_G	65_E	0.942	1.00
103_R	117_C	0.937	1.00
132_I	187_I	0.937	1.00
199_V	222_P	0.933	1.00
131_V	134_K	0.931	1.00
29_V	33_Q	0.930	1.00
154_S	165_A	0.928	1.00
32_L	70_L	0.919	1.00
130_E	133_S	0.916	1.00
25_L	66_L	0.914	1.00
153_L	256_D	0.911	1.00
24_F	43_Q	0.906	1.00
103_R	107_R	0.901	1.00
216_T	224_R	0.900	1.00
65_E	69_A	0.899	1.00
156_K	177_S	0.894	1.00
203_E	207_K	0.889	1.00
153_L	187_I	0.887	1.00
52_V	62_G	0.886	1.00
116_T	250_A	0.885	1.00
147_A	166_C	0.885	1.00
40_M	51_I	0.884	1.00
15_T	18_E	0.881	1.00
74_Y	77_S	0.880	1.00
129_I	133_S	0.879	1.00
224_R	232_D	0.877	1.00
24_F	35_V	0.874	1.00
10_A	14_F	0.871	1.00
154_S	158_M	0.870	1.00
106_N	253_S	0.867	1.00
137_F	165_A	0.862	1.00
24_F	31_E	0.859	1.00
115_Q	118_A	0.858	1.00
135_A	184_D	0.857	1.00
38_R	48_Q	0.856	1.00
154_S	166_C	0.856	1.00
132_I	135_A	0.853	1.00
66_L	76_A	0.852	1.00
14_F	40_M	0.842	1.00
64_T	67_R	0.841	1.00
99_E	122_Y	0.840	1.00
154_S	164_V	0.838	1.00
205_A	212_V	0.837	1.00
126_Q	265_L	0.833	1.00
140_I	164_V	0.831	1.00
40_M	63_F	0.829	1.00
123_A	126_Q	0.829	1.00
14_F	56_Q	0.818	1.00
153_L	255_T	0.812	1.00
159_K	179_A	0.810	1.00
82_N	85_A	0.803	1.00
55_A	70_L	0.800	1.00
199_V	203_E	0.798	1.00
110_E	113_L	0.792	1.00
111_L	114_E	0.789	1.00
190_S	193_G	0.788	1.00
49_S	52_V	0.786	1.00
102_A	122_Y	0.786	1.00
185_V	211_T	0.786	1.00
215_I	255_T	0.786	1.00
67_R	70_L	0.784	1.00
66_L	73_E	0.783	1.00
152_D	248_R	0.777	1.00
134_K	183_G	0.776	1.00
68_M	72_G	0.773	1.00
165_A	173_Q	0.771	1.00
128_I	231_L	0.766	1.00
245_M	248_R	0.763	1.00
69_A	73_E	0.762	1.00
148_L	151_R	0.760	1.00
229_F	232_D	0.756	1.00
151_R	154_S	0.754	1.00
132_I	138_I	0.754	1.00
154_S	259_F	0.753	1.00
55_A	62_G	0.752	1.00
139_Q	186_Q	0.749	1.00
124_R	128_I	0.739	1.00
188_A	201_C	0.737	1.00
99_E	103_R	0.736	1.00
248_R	251_Q	0.736	1.00
219_T	232_D	0.732	1.00
98_L	107_R	0.730	1.00
50_S	53_K	0.724	1.00
33_Q	36_S	0.723	1.00
171_H	200_L	0.719	1.00
202_A	226_L	0.718	1.00
250_A	253_S	0.716	1.00
153_L	156_K	0.716	1.00
51_I	77_S	0.715	1.00
72_G	75_S	0.714	1.00
138_I	187_I	0.714	1.00
157_L	262_L	0.713	1.00
159_K	177_S	0.713	1.00
241_R	244_S	0.711	1.00
137_F	181_K	0.710	1.00
59_G	76_A	0.710	1.00
21_I	50_S	0.704	1.00
20_K	45_G	0.703	1.00
109_K	253_S	0.700	1.00
147_A	168_A	0.698	1.00
14_F	57_K	0.698	1.00
259_F	263_V	0.698	1.00
15_T	57_K	0.695	1.00
33_Q	71_I	0.694	1.00
17_N	56_Q	0.692	1.00
147_A	151_R	0.690	1.00
120_L	125_L	0.689	1.00
171_H	197_E	0.685	1.00
63_F	73_E	0.685	1.00
100_V	103_R	0.685	1.00
71_I	74_Y	0.684	1.00
149_V	189_I	0.681	0.99
199_V	223_L	0.680	0.99
25_L	54_F	0.676	0.99
143_L	195_K	0.674	0.99
128_I	258_L	0.672	0.99
53_K	57_K	0.672	0.99
139_Q	165_A	0.667	0.99
60_A	65_E	0.666	0.99
32_L	35_V	0.666	0.99
71_I	75_S	0.665	0.99
126_Q	261_G	0.663	0.99
177_S	208_Q	0.661	0.99
187_I	213_I	0.656	0.99
21_I	51_I	0.654	0.99
14_F	19_Q	0.651	0.99
216_T	230_T	0.647	0.99
131_V	135_A	0.644	0.99
48_Q	52_V	0.642	0.99
264_Q	271_L	0.641	0.99
154_S	262_L	0.641	0.99
194_S	217_S	0.639	0.99
136_P	163_R	0.636	0.99
121_D	125_L	0.634	0.99
140_I	157_L	0.630	0.99
178_Q	204_A	0.629	0.99
29_V	32_L	0.627	0.99
183_G	211_T	0.625	0.99
233_T	254_V	0.624	0.99
109_K	249_T	0.622	0.99
53_K	56_Q	0.622	0.99
22_A	26_Q	0.622	0.99
253_S	256_D	0.621	0.99
36_S	41_A	0.620	0.99
106_N	116_T	0.619	0.99
213_I	229_F	0.619	0.99
151_R	155_F	0.618	0.99
123_A	127_K	0.615	0.99
125_L	257_L	0.614	0.99
105_L	253_S	0.611	0.99
163_R	167_E	0.609	0.99
221_S	224_R	0.609	0.99
106_N	109_K	0.608	0.99
227_A	230_T	0.607	0.99
15_T	40_M	0.607	0.99
149_V	251_Q	0.605	0.99
25_L	32_L	0.604	0.99
39_Q	42_K	0.600	0.99
142_G	147_A	0.600	0.99
248_R	252_N	0.599	0.99
89_H	92_I	0.596	0.99
199_V	226_L	0.595	0.99
216_T	221_S	0.593	0.99
129_I	262_L	0.593	0.99
140_I	189_I	0.592	0.99
107_R	111_L	0.590	0.99
54_F	58_L	0.590	0.99
154_S	162_Y	0.589	0.99
177_S	210_A	0.588	0.99
15_T	56_Q	0.587	0.99
222_P	226_L	0.581	0.98
142_G	146_S	0.581	0.98
146_S	251_Q	0.578	0.98
200_L	204_A	0.573	0.98
35_V	40_M	0.571	0.98
214_A	221_S	0.569	0.98
241_R	248_R	0.568	0.98
116_T	254_V	0.567	0.98
59_G	63_F	0.566	0.98
260_V	263_V	0.566	0.98
192_S	195_K	0.565	0.98
66_L	71_I	0.563	0.98
182_K	209_G	0.562	0.98
141_T	188_A	0.561	0.98
109_K	256_D	0.560	0.98
66_L	74_Y	0.559	0.98
125_L	261_G	0.559	0.98
63_F	76_A	0.558	0.98
20_K	48_Q	0.557	0.98
242_S	245_M	0.556	0.98
267_D	270_S	0.555	0.98
21_I	46_I	0.553	0.98
20_K	51_I	0.552	0.98
44_L	51_I	0.552	0.98
105_L	109_K	0.549	0.98
110_E	117_C	0.549	0.98
244_S	249_T	0.548	0.98
241_R	247_T	0.547	0.98
115_Q	234_V	0.545	0.98
88_L	91_S	0.544	0.98
155_F	158_M	0.541	0.97
223_L	227_A	0.540	0.97
70_L	73_E	0.536	0.97
145_G	155_F	0.535	0.97
244_S	248_R	0.535	0.97
260_V	264_Q	0.534	0.97
128_I	187_I	0.534	0.97
188_A	214_A	0.534	0.97
143_L	197_E	0.533	0.97
224_R	227_A	0.532	0.97
39_Q	43_Q	0.529	0.97
136_P	182_K	0.529	0.97
150_G	153_L	0.528	0.97
168_A	172_V	0.527	0.97
141_T	180_L	0.525	0.97
139_Q	167_E	0.524	0.97
157_L	259_F	0.524	0.97
263_V	270_S	0.524	0.97
190_S	221_S	0.524	0.97
85_A	89_H	0.520	0.97
88_L	93_T	0.519	0.97
55_A	60_A	0.517	0.97
116_T	119_L	0.517	0.97
71_I	76_A	0.515	0.97
233_T	250_A	0.515	0.97
206_R	212_V	0.512	0.97
258_L	262_L	0.512	0.97
159_K	178_Q	0.511	0.96
217_S	233_T	0.511	0.96
38_R	42_K	0.510	0.96
141_T	201_C	0.510	0.96
177_S	204_A	0.510	0.96
43_Q	53_K	0.510	0.96
247_T	250_A	0.510	0.96
267_D	271_L	0.510	0.96
18_E	66_L	0.510	0.96
251_Q	255_T	0.508	0.96
62_G	66_L	0.506	0.96
239_E	242_S	0.506	0.96
101_I	104_K	0.506	0.96
234_V	237_E	0.504	0.96
117_C	253_S	0.503	0.96
119_L	122_Y	0.502	0.96
266_N	270_S	0.501	0.96
231_L	258_L	0.500	0.96
237_E	240_W	0.500	0.96

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
4ivnA	2	0.9228	100	0.183	Contact Map
3shoA	4	0.6491	100	0.525	Contact Map
2xhzA	4	0.6	100	0.549	Contact Map
3fxaA	4	0.6596	100	0.555	Contact Map
3etnA	4	0.6561	100	0.563	Contact Map
2pocA	4	0.6561	100	0.571	Contact Map
3tbfA	2	0.6737	99.9	0.574	Contact Map
1m3sA	4	0.6246	99.9	0.574	Contact Map
1moqA	2	0.6667	99.9	0.577	Contact Map
1jeoA	4	0.6035	99.9	0.582	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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