PGRR - ECOLI - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

PGRR - HTH-type transcriptional regulator PgrR

UniProt:	P77333	Sequences: MKREEIADLMAFVVVAEERSFTRAAARLSMAQSALSQIVRRIEERLGLRLLTRTTRSVVPTEAGEHLLSVLGPMLHDIDSAMASLSDLQNRPSGTIRITTVEHAAKTILLPAMRTFLKSHPEIDIQLTIDYGLTDVVSERFDAGVRLGGEMDKDMIAIRIGPDIPMAIVGSPDYFSRRSVPTSVSQLIDHQAINLYLPTSGTANRWRLIRGGREVRVRMEGQLLLNTIDLIIDAAIDGHGLAYLPYDQVERAIKEKKLIRVLDKFTPDLPGYHLYYPHRRHAGSAFSLFIDRLKYKGAV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13923
Length:	299 (287)
Sequences:	79646 (58181)
Seq/√Len:	3434.3

ECOLI - PGRR LYSR OXYR AAER YAFC LEUO DSDC YHJC TTDR DMLR YBHD YDCI YBDO CYSB YBEF YCAN TDCA CYNR YNFL NAC CBL YFER YIDZ ILVY ABGR GCVA YEIE NHAR HCAR XAPR ICIA YGFI YEEY YAHB YFIE METR YDHB YNEJ ALLS YHAJ YIAU PERR YJIE LRHA HDFR
BACSU - CYSL YWBI YCGK YYBE GLTC CITR YWQM ALSR BSDA GLTR YTLI YVBU YOFA YUST YKUM CZCR YXJO YRAN YOAU

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
73_P	77_D	3.589	1.00
18_E	27_R	3.376	1.00
158_I	294_K	2.661	1.00
99_T	141_F	2.582	1.00
70_V	84_S	2.425	1.00
235_A	242_A	2.281	1.00
14_V	27_R	2.265	1.00
174_Y	190_H	2.221	1.00
159_R	162_P	2.190	1.00
165_P	246_Y	2.170	1.00
162_P	271_G	2.168	1.00
95_T	126_Q	2.161	1.00
23_R	26_A	2.121	1.00
159_R	271_G	2.120	1.00
95_T	124_D	2.066	1.00
48_L	63_A	2.048	1.00
17_E	72_G	2.048	1.00
11_A	38_I	2.039	1.00
183_S	186_Q	2.008	1.00
70_V	77_D	1.970	1.00
13_V	68_L	1.964	1.00
115_T	292_R	1.961	1.00
236_I	257_K	1.957	1.00
13_V	72_G	1.954	1.00
232_I	252_A	1.951	1.00
162_P	269_L	1.950	1.00
97_R	126_Q	1.934	1.00
14_V	17_E	1.910	1.00
13_V	17_E	1.909	1.00
193_I	240_G	1.907	1.00
11_A	35_L	1.903	1.00
14_V	18_E	1.885	1.00
16_A	60_P	1.876	1.00
167_A	246_Y	1.871	1.00
74_M	78_I	1.858	1.00
170_G	261_V	1.853	1.00
236_I	252_A	1.843	1.00
68_L	72_G	1.821	1.00
21_F	39_V	1.791	1.00
52_T	59_V	1.725	1.00
191_Q	222_Q	1.710	1.00
67_L	81_A	1.704	1.00
167_A	260_R	1.681	1.00
66_H	84_S	1.677	1.00
157_A	273_H	1.668	1.00
135_D	140_R	1.631	1.00
16_A	68_L	1.609	1.00
116_F	289_F	1.591	1.00
17_E	27_R	1.586	1.00
18_E	23_R	1.576	1.00
156_I	278_H	1.572	1.00
13_V	71_L	1.565	1.00
12_F	68_L	1.562	1.00
11_A	30_M	1.527	1.00
179_S	186_Q	1.525	1.00
134_T	138_S	1.516	1.00
8_D	38_I	1.510	1.00
91_R	122_E	1.506	1.00
22_T	32_Q	1.497	1.00
8_D	45_R	1.473	1.00
158_I	276_Y	1.464	1.00
62_E	65_E	1.455	1.00
5_E	8_D	1.452	1.00
116_F	123_I	1.450	1.00
70_V	73_P	1.448	1.00
31_A	34_A	1.447	1.00
20_S	23_R	1.446	1.00
205_R	209_I	1.440	1.00
8_D	41_R	1.439	1.00
49_R	52_T	1.438	1.00
14_V	28_L	1.422	1.00
146_R	275_Y	1.403	1.00
13_V	75_L	1.403	1.00
282_A	286_F	1.402	1.00
156_I	276_Y	1.386	1.00
148_G	273_H	1.377	1.00
70_V	80_S	1.377	1.00
290_I	294_K	1.364	1.00
74_M	81_A	1.357	1.00
106_K	229_D	1.355	1.00
276_Y	290_I	1.352	1.00
93_S	122_E	1.349	1.00
172_P	257_K	1.339	1.00
6_I	78_I	1.338	1.00
137_V	154_D	1.325	1.00
136_V	144_G	1.321	1.00
274_L	290_I	1.312	1.00
97_R	128_T	1.310	1.00
288_L	291_D	1.307	1.00
164_I	247_D	1.306	1.00
135_D	141_F	1.303	1.00
143_A	286_F	1.301	1.00
54_T	59_V	1.299	1.00
67_L	82_M	1.286	1.00
115_T	119_S	1.284	1.00
77_D	80_S	1.278	1.00
143_A	274_L	1.272	1.00
45_R	82_M	1.269	1.00
231_I	242_A	1.266	1.00
190_H	241_L	1.266	1.00
170_G	241_L	1.261	1.00
117_L	222_Q	1.261	1.00
252_A	257_K	1.242	1.00
119_S	292_R	1.234	1.00
246_Y	250_E	1.232	1.00
69_S	73_P	1.231	1.00
117_L	191_Q	1.220	1.00
233_D	236_I	1.212	1.00
250_E	254_K	1.212	1.00
70_V	81_A	1.210	1.00
114_R	118_K	1.196	1.00
66_H	69_S	1.194	1.00
172_P	259_I	1.192	1.00
65_E	69_S	1.189	1.00
40_R	44_E	1.186	1.00
159_R	273_H	1.186	1.00
246_Y	260_R	1.183	1.00
12_F	51_L	1.182	1.00
180_V	259_I	1.178	1.00
129_I	132_G	1.167	1.00
212_G	217_V	1.160	1.00
157_A	275_Y	1.159	1.00
30_M	34_A	1.155	1.00
175_F	190_H	1.154	1.00
12_F	16_A	1.143	1.00
193_I	231_I	1.135	1.00
37_Q	41_R	1.125	1.00
37_Q	40_R	1.123	1.00
115_T	118_K	1.118	1.00
12_F	50_L	1.117	1.00
96_I	289_F	1.116	1.00
114_R	237_D	1.114	1.00
181_P	264_K	1.107	1.00
191_Q	220_E	1.096	1.00
73_P	80_S	1.096	1.00
21_F	58_V	1.089	1.00
36_S	40_R	1.085	1.00
116_F	292_R	1.083	1.00
9_L	71_L	1.081	1.00
126_Q	224_L	1.076	1.00
120_H	288_L	1.073	1.00
15_V	24_A	1.072	1.00
232_I	236_I	1.068	1.00
291_D	294_K	1.068	1.00
225_L	231_I	1.065	1.00
14_V	24_A	1.064	1.00
74_M	77_D	1.057	1.00
7_A	10_M	1.056	1.00
10_M	79_D	1.055	1.00
169_V	260_R	1.054	1.00
66_H	70_V	1.054	1.00
111_P	237_D	1.046	1.00
38_I	41_R	1.045	1.00
287_S	291_D	1.045	1.00
260_R	263_D	1.043	1.00
137_V	152_D	1.024	1.00
60_P	64_G	1.020	1.00
158_I	290_I	1.019	1.00
171_S	238_G	1.016	1.00
112_A	293_L	1.013	1.00
182_T	186_Q	1.007	1.00
233_D	237_D	1.006	1.00
168_I	241_L	1.000	1.00
82_M	86_S	0.994	1.00
79_D	82_M	0.989	1.00
165_P	269_L	0.987	1.00
251_R	255_E	0.982	1.00
30_M	35_L	0.979	1.00
16_A	51_L	0.979	1.00
184_V	265_F	0.978	1.00
11_A	28_L	0.978	1.00
79_D	83_A	0.970	1.00
116_F	120_H	0.967	1.00
169_V	249_V	0.963	1.00
76_H	80_S	0.961	1.00
15_V	21_F	0.955	1.00
67_L	71_L	0.953	1.00
194_N	221_G	0.952	1.00
12_F	60_P	0.942	1.00
170_G	174_Y	0.942	1.00
283_G	286_F	0.930	1.00
112_A	292_R	0.926	1.00
135_D	138_S	0.925	1.00
12_F	42_I	0.924	1.00
24_A	35_L	0.922	1.00
225_L	234_A	0.921	1.00
41_R	44_E	0.921	1.00
119_S	295_Y	0.914	1.00
124_D	220_E	0.906	1.00
51_L	58_V	0.905	1.00
128_T	135_D	0.901	1.00
206_W	209_I	0.899	1.00
23_R	27_R	0.898	1.00
174_Y	191_Q	0.893	1.00
48_L	85_L	0.892	1.00
66_H	88_L	0.889	1.00
99_T	146_R	0.884	1.00
16_A	64_G	0.884	1.00
141_F	144_G	0.878	1.00
69_S	72_G	0.876	1.00
99_T	144_G	0.871	1.00
277_P	280_R	0.871	1.00
292_R	295_Y	0.871	1.00
102_E	227_T	0.869	1.00
73_P	76_H	0.863	1.00
148_G	271_G	0.856	1.00
154_D	278_H	0.853	1.00
186_Q	189_D	0.851	1.00
155_M	275_Y	0.850	1.00
208_L	212_G	0.849	1.00
19_R	59_V	0.848	1.00
22_T	26_A	0.847	1.00
249_V	252_A	0.844	1.00
7_A	38_I	0.844	1.00
174_Y	177_R	0.842	1.00
191_Q	221_G	0.842	1.00
170_G	175_F	0.842	1.00
123_I	285_A	0.839	1.00
174_Y	178_R	0.839	1.00
178_R	191_Q	0.837	1.00
169_V	242_A	0.837	1.00
98_I	143_A	0.832	1.00
6_I	75_L	0.828	1.00
63_A	88_L	0.827	1.00
28_L	35_L	0.824	1.00
54_T	57_S	0.824	1.00
175_F	180_V	0.822	1.00
282_A	287_S	0.820	1.00
206_W	210_R	0.815	1.00
176_S	190_H	0.815	1.00
156_I	159_R	0.813	1.00
133_L	137_V	0.812	1.00
16_A	19_R	0.809	1.00
161_G	164_I	0.804	1.00
12_F	67_L	0.801	1.00
19_R	65_E	0.800	1.00
94_G	285_A	0.799	1.00
63_A	85_L	0.799	1.00
132_G	144_G	0.796	1.00
128_T	141_F	0.796	1.00
252_A	255_E	0.794	1.00
40_R	49_R	0.794	1.00
291_D	295_Y	0.793	1.00
114_R	239_H	0.792	1.00
32_Q	36_S	0.789	1.00
78_I	81_A	0.787	1.00
15_V	39_V	0.786	1.00
17_E	68_L	0.778	1.00
15_V	51_L	0.777	1.00
192_A	219_M	0.777	1.00
18_E	24_A	0.777	1.00
63_A	66_H	0.774	1.00
183_S	264_K	0.774	1.00
185_S	188_I	0.773	1.00
80_S	84_S	0.772	1.00
77_D	81_A	0.768	1.00
171_S	239_H	0.767	1.00
253_I	256_K	0.766	1.00
284_S	288_L	0.765	1.00
8_D	11_A	0.764	1.00
211_G	215_V	0.763	1.00
19_R	57_S	0.762	1.00
78_I	82_M	0.758	1.00
165_P	267_P	0.757	1.00
92_P	120_H	0.756	1.00
165_P	262_L	0.751	1.00
143_A	289_F	0.750	1.00
173_D	177_R	0.750	1.00
117_L	239_H	0.745	1.00
185_S	215_V	0.744	1.00
249_V	253_I	0.742	1.00
234_A	239_H	0.742	1.00
119_S	288_L	0.738	1.00
86_S	89_Q	0.737	1.00
169_V	244_L	0.731	1.00
188_I	217_V	0.727	1.00
137_V	155_M	0.725	1.00
100_T	105_A	0.725	1.00
169_V	253_I	0.723	1.00
10_M	14_V	0.722	1.00
81_A	85_L	0.721	1.00
21_F	35_L	0.720	1.00
71_L	74_M	0.720	1.00
52_T	61_T	0.715	1.00
15_V	35_L	0.714	1.00
59_V	65_E	0.713	1.00
245_P	248_Q	0.711	1.00
60_P	65_E	0.711	1.00
72_G	76_H	0.711	1.00
116_F	288_L	0.710	1.00
253_I	260_R	0.708	1.00
177_R	259_I	0.708	1.00
97_R	141_F	0.704	1.00
170_G	259_I	0.699	1.00
205_R	224_L	0.694	1.00
171_S	174_Y	0.693	1.00
227_T	230_L	0.692	1.00
34_A	38_I	0.690	1.00
170_G	176_S	0.685	1.00
63_A	67_L	0.683	1.00
97_R	142_D	0.682	1.00
211_G	214_E	0.682	1.00
195_L	231_I	0.682	1.00
65_E	68_L	0.678	1.00
183_S	265_F	0.677	1.00
142_D	286_F	0.676	1.00
62_E	66_H	0.676	1.00
196_Y	224_L	0.675	1.00
43_E	48_L	0.675	1.00
210_R	214_E	0.669	1.00
181_P	262_L	0.666	1.00
189_D	220_E	0.666	1.00
145_V	293_L	0.664	1.00
52_T	57_S	0.664	1.00
94_G	123_I	0.664	1.00
124_D	224_L	0.662	1.00
288_L	292_R	0.662	1.00
209_I	213_R	0.660	1.00
115_T	295_Y	0.659	1.00
76_H	79_D	0.655	1.00
80_S	83_A	0.654	1.00
207_R	211_G	0.652	1.00
223_L	234_A	0.652	1.00
251_R	254_K	0.651	1.00
100_T	109_L	0.649	1.00
10_M	13_V	0.648	1.00
173_D	176_S	0.648	1.00
39_V	43_E	0.646	1.00
192_A	241_L	0.646	1.00
67_L	85_L	0.646	1.00
173_D	238_G	0.645	1.00
139_E	277_P	0.642	1.00
43_E	53_R	0.642	1.00
70_V	74_M	0.640	1.00
96_I	285_A	0.639	1.00
7_A	41_R	0.638	1.00
71_L	75_L	0.634	1.00
21_F	57_S	0.633	1.00
26_A	29_S	0.632	1.00
210_R	213_R	0.628	1.00
136_V	275_Y	0.623	1.00
24_A	28_L	0.620	1.00
173_D	259_I	0.619	1.00
280_R	283_G	0.618	1.00
161_G	272_Y	0.617	1.00
106_K	233_D	0.617	1.00
206_W	211_G	0.614	1.00
172_P	256_K	0.611	1.00
15_V	20_S	0.610	1.00
212_G	219_M	0.609	1.00
168_I	187_L	0.608	1.00
175_F	179_S	0.604	1.00
109_L	112_A	0.602	1.00
168_I	192_A	0.600	1.00
208_L	211_G	0.600	1.00
66_H	85_L	0.598	1.00
231_I	235_A	0.596	1.00
105_A	129_I	0.595	1.00
164_I	270_P	0.595	1.00
83_A	87_D	0.595	1.00
175_F	178_R	0.594	1.00
284_S	287_S	0.593	1.00
143_A	290_I	0.592	1.00
147_L	270_P	0.590	1.00
196_Y	226_N	0.590	1.00
168_I	243_Y	0.586	1.00
111_P	114_R	0.584	1.00
10_M	75_L	0.582	1.00
176_S	182_T	0.582	1.00
33_S	37_Q	0.581	1.00
46_L	67_L	0.581	1.00
136_V	155_M	0.580	1.00
96_I	143_A	0.579	1.00
31_A	37_Q	0.578	1.00
60_P	68_L	0.576	1.00
289_F	293_L	0.576	1.00
7_A	11_A	0.575	1.00
225_L	230_L	0.575	1.00
276_Y	287_S	0.574	1.00
34_A	37_Q	0.573	1.00
156_I	279_R	0.572	1.00
166_M	243_Y	0.569	1.00
234_A	240_G	0.568	1.00
46_L	85_L	0.568	1.00
93_S	124_D	0.565	1.00
207_R	210_R	0.562	1.00
51_L	60_P	0.562	1.00
205_R	208_L	0.561	1.00
48_L	52_T	0.560	1.00
5_E	45_R	0.560	1.00
174_Y	241_L	0.552	1.00
75_L	79_D	0.550	1.00
134_T	140_R	0.550	1.00
205_R	211_G	0.549	1.00
111_P	115_T	0.546	1.00
204_N	208_L	0.546	1.00
176_S	179_S	0.543	1.00
69_S	84_S	0.542	1.00
209_I	212_G	0.540	1.00
204_N	207_R	0.540	1.00
228_I	245_P	0.539	1.00
11_A	39_V	0.538	1.00
104_A	108_I	0.538	1.00
200_S	224_L	0.537	1.00
12_F	64_G	0.535	1.00
46_L	49_R	0.533	1.00
160_I	274_L	0.528	1.00
181_P	186_Q	0.525	1.00
75_L	78_I	0.525	1.00
99_T	128_T	0.525	1.00
11_A	24_A	0.524	1.00
30_M	38_I	0.522	1.00
70_V	85_L	0.522	1.00
49_R	63_A	0.521	1.00
244_L	249_V	0.520	1.00
145_V	274_L	0.519	1.00
39_V	51_L	0.518	1.00
120_H	123_I	0.517	1.00
71_L	78_I	0.510	1.00
113_M	125_I	0.510	1.00
94_G	120_H	0.509	1.00
94_G	122_E	0.509	1.00
108_I	112_A	0.508	1.00
286_F	290_I	0.508	1.00
83_A	86_S	0.508	1.00
16_A	65_E	0.507	1.00
21_F	32_Q	0.507	1.00
106_K	227_T	0.506	1.00
87_D	92_P	0.505	1.00
195_L	228_I	0.500	1.00

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
2esnA	3	0.9799	100	0.072	Contact Map
1uthA	2	0.7358	100	0.075	Contact Map
3fzvA	4	0.9565	100	0.076	Contact Map
3fxqA	3	0.9699	100	0.091	Contact Map
1ixcA	4	0.9732	100	0.091	Contact Map
3szpA	3	0.9699	100	0.093	Contact Map
1al3A	1	0.689	100	0.097	Contact Map
3hhgA	3	0.9799	100	0.097	Contact Map
2h98A	2	0.6756	100	0.098	Contact Map
4x6gA	4	0.9799	100	0.099	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.

Page generated in 0.0104 seconds.