MHPR - ECOLI - GREMLIN Contacts

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MHPR - Mhp operon transcriptional activator

UniProt:	P77569	Sequences: MQNNEQTEYKTVRGLTRGLMLLNMLNKLDGGASVGLLAELSGLHRTTVRRLLETLQEEGYVRRSPSDDSFRLTIKVRQLSEGFRDEQWISALAAPLLGDLLREVVWPTDVSTLDVDAMVVRETTHRFSRLSFHRAMVGRRLPLLKTASGLTWLAFCPEQDRKELIEMLASRPGDDYQLAREPLKLEAILARARKEGYGQNYRGWDQEEKIASIAVPLRSEQRVIGCLNLVYMASAMTIEQAAEKHLPALQRVAKQIEEGVESQAILVAGRRSGMHLR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG20276
Length:	277 (245)
Sequences:	12655 (9313)
Seq/√Len:	595.0

ECOLI - MHPR ALLR YIAJ YJHI ICLR KDGR RHMR YAGI
BACSU - KIPR
HALSA - Q9HHM8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
15_L	18_G	3.360	1.00
103_E	248_A	3.166	1.00
111_S	148_S	2.891	1.00
96_L	252_V	2.836	1.00
16_T	58_E	2.824	1.00
191_R	195_E	2.625	1.00
23_N	75_K	2.557	1.00
150_L	188_I	2.429	1.00
94_A	122_E	2.410	1.00
162_K	186_E	2.391	1.00
19_L	60_Y	2.361	1.00
150_L	203_G	2.353	1.00
117_A	140_R	2.205	1.00
106_W	235_A	2.163	1.00
96_L	255_Q	2.105	1.00
25_L	61_V	2.074	1.00
20_M	58_E	2.066	1.00
64_S	67_D	2.057	1.00
98_G	124_T	2.040	1.00
200_N	212_S	1.969	1.00
156_C	160_D	1.964	1.00
201_Y	211_A	1.933	1.00
113_L	143_L	1.933	1.00
155_F	218_R	1.930	1.00
215_V	249_L	1.906	1.00
215_V	253_A	1.854	1.00
96_L	259_G	1.825	1.00
211_A	233_A	1.818	1.00
99_D	255_Q	1.768	1.00
23_N	58_E	1.756	1.00
62_R	71_R	1.731	1.00
181_E	184_K	1.721	1.00
93_A	256_I	1.712	1.00
246_L	250_Q	1.705	1.00
21_L	37_L	1.692	1.00
101_L	108_T	1.687	1.00
24_M	41_S	1.682	1.00
99_D	103_E	1.679	1.00
231_Y	236_M	1.670	1.00
52_L	61_V	1.667	1.00
24_M	32_A	1.666	1.00
182_P	186_E	1.653	1.00
24_M	37_L	1.653	1.00
229_L	245_H	1.583	1.00
215_V	250_Q	1.577	1.00
24_M	40_L	1.572	1.00
202_R	233_A	1.570	1.00
188_I	191_R	1.548	1.00
52_L	70_F	1.544	1.00
157_P	160_D	1.537	1.00
32_A	40_L	1.537	1.00
96_L	99_D	1.521	1.00
240_Q	244_K	1.515	1.00
33_S	36_L	1.508	1.00
197_Y	246_L	1.504	1.00
37_L	48_V	1.500	1.00
161_R	186_E	1.483	1.00
248_A	251_R	1.476	1.00
202_R	209_K	1.476	1.00
104_V	248_A	1.453	1.00
31_G	71_R	1.452	1.00
31_G	69_S	1.439	1.00
43_L	48_V	1.438	1.00
162_K	182_P	1.430	1.00
125_H	131_S	1.429	1.00
192_A	198_G	1.427	1.00
118_M	143_L	1.417	1.00
118_M	152_W	1.402	1.00
75_K	78_Q	1.402	1.00
218_R	257_E	1.397	1.00
90_S	122_E	1.381	1.00
101_L	124_T	1.364	1.00
100_L	248_A	1.362	1.00
23_N	60_Y	1.355	1.00
25_L	32_A	1.355	1.00
56_Q	61_V	1.352	1.00
25_L	31_G	1.318	1.00
97_L	110_V	1.316	1.00
253_A	257_E	1.312	1.00
19_L	58_E	1.306	1.00
56_Q	63_R	1.300	1.00
93_A	110_V	1.291	1.00
64_S	71_R	1.284	1.00
44_H	47_T	1.284	1.00
28_L	40_L	1.270	1.00
49_R	53_E	1.250	1.00
28_L	32_A	1.238	1.00
251_R	255_Q	1.238	1.00
100_L	252_V	1.238	1.00
158_E	186_E	1.235	1.00
116_D	167_M	1.230	1.00
174_D	178_L	1.227	1.00
145_K	178_L	1.226	1.00
38_A	48_V	1.222	1.00
155_F	216_P	1.209	1.00
158_E	162_K	1.200	1.00
94_A	98_G	1.200	1.00
166_E	182_P	1.200	1.00
179_A	188_I	1.198	1.00
37_L	52_L	1.196	1.00
104_V	245_H	1.182	1.00
218_R	223_V	1.182	1.00
145_K	173_G	1.174	1.00
111_S	118_M	1.167	1.00
34_V	49_R	1.164	1.00
215_V	246_L	1.153	1.00
189_L	192_A	1.152	1.00
154_A	192_A	1.141	1.00
144_L	178_L	1.129	1.00
250_Q	254_K	1.122	1.00
112_T	225_G	1.122	1.00
155_F	223_V	1.118	1.00
16_T	57_E	1.109	1.00
98_G	102_R	1.093	1.00
176_Y	202_R	1.087	1.00
113_L	116_D	1.086	1.00
243_E	247_P	1.075	1.00
33_S	69_S	1.074	1.00
35_G	39_E	1.071	1.00
165_I	182_P	1.066	1.00
12_V	54_T	1.065	1.00
76_V	83_F	1.065	1.00
114_D	140_R	1.065	1.00
158_E	161_R	1.064	1.00
161_R	193_R	1.063	1.00
104_V	229_L	1.057	1.00
26_N	29_D	1.056	1.00
158_E	190_A	1.056	1.00
16_T	54_T	1.054	1.00
146_T	149_G	1.052	1.00
110_V	217_L	1.052	1.00
110_V	225_G	1.052	1.00
255_Q	259_G	1.049	1.00
148_S	226_C	1.038	1.00
227_L	256_I	1.038	1.00
97_L	108_T	1.030	1.00
247_P	251_R	1.029	1.00
34_V	38_A	1.028	1.00
113_L	156_C	1.013	1.00
219_S	222_R	1.013	1.00
175_D	208_E	1.003	1.00
173_G	178_L	0.994	1.00
162_K	166_E	0.993	1.00
36_L	39_E	0.990	1.00
237_T	240_Q	0.983	1.00
60_Y	79_L	0.979	1.00
89_I	225_G	0.972	1.00
254_K	258_E	0.965	1.00
94_A	124_T	0.959	1.00
13_R	17_R	0.957	1.00
111_S	120_V	0.952	1.00
103_E	251_R	0.949	1.00
35_G	45_R	0.943	1.00
147_A	212_S	0.938	1.00
160_D	163_E	0.936	1.00
190_A	194_K	0.919	1.00
22_L	76_V	0.917	1.00
192_A	195_E	0.914	1.00
187_A	191_R	0.906	1.00
27_K	40_L	0.904	1.00
153_L	185_L	0.902	1.00
216_P	223_V	0.901	1.00
184_K	188_I	0.900	1.00
119_V	140_R	0.899	1.00
151_T	155_F	0.898	1.00
97_L	122_E	0.897	1.00
213_I	246_L	0.892	1.00
187_A	190_A	0.883	1.00
21_L	41_S	0.878	1.00
31_G	64_S	0.876	1.00
108_T	229_L	0.875	1.00
11_T	57_E	0.871	1.00
172_P	180_R	0.864	1.00
92_L	259_G	0.862	1.00
201_Y	233_A	0.859	1.00
17_R	47_T	0.858	1.00
36_L	40_L	0.857	1.00
163_E	167_M	0.856	1.00
214_A	228_N	0.853	1.00
99_D	252_V	0.852	1.00
90_S	94_A	0.847	1.00
109_D	230_V	0.846	1.00
184_K	187_A	0.844	1.00
173_G	206_Q	0.843	1.00
97_L	227_L	0.841	1.00
202_R	208_E	0.841	1.00
46_T	49_R	0.834	1.00
151_T	192_A	0.833	1.00
195_E	246_L	0.831	1.00
219_S	224_I	0.828	1.00
148_S	228_N	0.827	1.00
151_T	223_V	0.822	1.00
160_D	164_L	0.820	1.00
249_L	253_A	0.819	1.00
188_I	192_A	0.818	1.00
186_E	190_A	0.816	1.00
96_L	256_I	0.812	1.00
161_R	189_L	0.812	1.00
41_S	48_V	0.810	1.00
25_L	28_L	0.808	1.00
34_V	52_L	0.803	1.00
188_I	195_E	0.802	1.00
56_Q	70_F	0.800	1.00
191_R	194_K	0.794	1.00
21_L	51_L	0.791	1.00
106_W	128_S	0.789	1.00
232_M	235_A	0.775	1.00
179_A	185_L	0.772	1.00
212_S	230_V	0.772	1.00
244_K	248_A	0.768	1.00
22_L	60_Y	0.761	1.00
72_L	76_V	0.756	1.00
114_D	119_V	0.753	1.00
113_L	160_D	0.752	1.00
11_T	16_T	0.750	1.00
14_G	18_G	0.742	1.00
147_A	214_A	0.739	1.00
161_R	164_L	0.739	1.00
212_S	228_N	0.739	1.00
179_A	184_K	0.738	1.00
152_W	226_C	0.737	1.00
76_V	79_L	0.736	1.00
89_I	93_A	0.720	1.00
154_A	189_L	0.719	1.00
109_D	123_T	0.718	1.00
252_V	255_Q	0.716	1.00
25_L	30_G	0.712	1.00
43_L	47_T	0.710	1.00
97_L	124_T	0.708	1.00
76_V	80_S	0.706	1.00
145_K	206_Q	0.704	1.00
63_R	68_D	0.703	1.00
88_W	91_A	0.701	1.00
109_D	135_A	0.701	1.00
62_R	73_T	0.694	1.00
128_S	235_A	0.686	1.00
34_V	48_V	0.684	1.00
21_L	48_V	0.684	1.00
53_E	56_Q	0.683	1.00
113_L	152_W	0.677	1.00
63_R	67_D	0.677	1.00
32_A	37_L	0.676	1.00
190_A	193_R	0.675	1.00
116_D	164_L	0.674	1.00
164_L	168_L	0.673	1.00
34_V	70_F	0.670	1.00
53_E	57_E	0.670	1.00
247_P	250_Q	0.669	1.00
34_V	45_R	0.658	1.00
180_R	184_K	0.658	1.00
161_R	165_I	0.658	1.00
38_A	41_S	0.655	1.00
170_S	174_D	0.655	1.00
15_L	51_L	0.650	1.00
26_N	79_L	0.649	1.00
156_C	161_R	0.647	1.00
227_L	253_A	0.647	1.00
158_E	193_R	0.645	1.00
254_K	257_E	0.645	1.00
15_L	19_L	0.644	1.00
255_Q	258_E	0.641	1.00
80_S	83_F	0.641	1.00
101_L	126_R	0.641	1.00
25_L	29_D	0.638	1.00
250_Q	253_A	0.636	1.00
161_R	190_A	0.635	1.00
150_L	192_A	0.635	1.00
99_D	102_R	0.634	1.00
251_R	254_K	0.630	1.00
100_L	229_L	0.629	1.00
201_Y	238_I	0.629	1.00
152_W	156_C	0.628	1.00
146_T	212_S	0.626	1.00
109_D	212_S	0.626	1.00
17_R	43_L	0.625	1.00
176_Y	208_E	0.625	1.00
244_K	247_P	0.623	1.00
62_R	74_I	0.623	1.00
153_L	189_L	0.622	1.00
106_W	231_Y	0.618	1.00
14_G	51_L	0.618	1.00
153_L	161_R	0.616	1.00
112_T	121_R	0.616	1.00
252_V	256_I	0.614	1.00
218_R	224_I	0.614	1.00
142_P	145_K	0.604	1.00
227_L	252_V	0.603	1.00
100_L	104_V	0.602	1.00
98_G	122_E	0.599	1.00
215_V	257_E	0.597	1.00
92_L	95_P	0.595	1.00
23_N	78_Q	0.588	1.00
183_L	186_E	0.588	1.00
111_S	146_T	0.586	1.00
60_Y	75_K	0.585	1.00
150_L	200_N	0.582	1.00
95_P	259_G	0.579	1.00
63_R	70_F	0.576	1.00
36_L	69_S	0.575	1.00
240_Q	245_H	0.575	1.00
100_L	108_T	0.575	1.00
29_D	40_L	0.574	1.00
202_R	211_A	0.574	1.00
151_T	216_P	0.572	1.00
38_A	45_R	0.569	1.00
172_P	175_D	0.568	1.00
26_N	72_L	0.566	1.00
152_W	225_G	0.561	1.00
123_T	137_V	0.558	0.99
23_N	79_L	0.558	0.99
130_L	234_S	0.556	0.99
118_M	146_T	0.556	0.99
151_T	214_A	0.555	0.99
136_M	139_R	0.554	0.99
118_M	148_S	0.552	0.99
248_A	252_V	0.552	0.99
120_V	135_A	0.551	0.99
144_L	170_S	0.551	0.99
196_G	218_R	0.550	0.99
174_D	179_A	0.550	0.99
106_W	229_L	0.549	0.99
123_T	135_A	0.549	0.99
33_S	45_R	0.549	0.99
59_G	75_K	0.548	0.99
172_P	178_L	0.546	0.99
245_H	248_A	0.545	0.99
151_T	198_G	0.544	0.99
108_T	124_T	0.544	0.99
118_M	141_L	0.543	0.99
105_V	127_F	0.543	0.99
120_V	148_S	0.543	0.99
20_M	23_N	0.541	0.99
102_R	127_F	0.541	0.99
17_R	51_L	0.541	0.99
227_L	249_L	0.538	0.99
107_P	123_T	0.538	0.99
15_L	54_T	0.537	0.99
165_I	169_A	0.537	0.99
213_I	241_A	0.536	0.99
64_S	69_S	0.532	0.99
170_S	178_L	0.532	0.99
125_H	136_M	0.531	0.99
18_G	51_L	0.529	0.99
20_M	24_M	0.527	0.99
185_L	189_L	0.527	0.99
217_L	225_G	0.527	0.99
53_E	63_R	0.526	0.99
12_V	51_L	0.525	0.99
197_Y	250_Q	0.524	0.99
148_S	212_S	0.523	0.99
215_V	227_L	0.522	0.99
28_L	31_G	0.522	0.99
77_R	84_R	0.519	0.99
122_E	137_V	0.519	0.99
220_E	257_E	0.519	0.99
13_R	54_T	0.515	0.99
214_A	226_C	0.515	0.99
93_A	97_L	0.513	0.99
183_L	187_A	0.512	0.99
217_L	256_I	0.510	0.99
65_P	68_D	0.504	0.99
109_D	228_N	0.503	0.99
24_M	28_L	0.503	0.99
120_V	146_T	0.502	0.99
135_A	139_R	0.502	0.99
22_L	79_L	0.501	0.99
218_R	225_G	0.501	0.99
81_E	84_R	0.500	0.99

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
3mq0A	2	0.9025	100	0.149	Contact Map
2ia2A	4	0.8989	100	0.149	Contact Map
2g7uA	6	0.9061	100	0.154	Contact Map
3r4kA	2	0.917	100	0.161	Contact Map
1mkmA	4	0.8881	100	0.166	Contact Map
2xrnA	3	0.87	100	0.185	Contact Map
2o0yA	4	0.9097	100	0.207	Contact Map
1ysqA	1	0.639	100	0.447	Contact Map
1tf1A	1	0.6606	100	0.448	Contact Map
1yspA	1	0.5884	100	0.457	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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