HIS4 - ECOLI - GREMLIN Contacts

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HIS4 - 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase

UniProt:	P10371	Sequences: MIIPALDLIDGTVVRLHQGDYGKQRDYGNDPLPRLQDYAAQGAEVLHLVDLTGAKDPAKRQIPLIKTLVAGVNVPVQVGGGVRSEEDVAALLEAGVARVVVGSTAVKSQDMVKGWFERFGADALVLALDVRIDEQGNKQVAVSGWQENSGVSLEQLVETYLPVGLKHVLCTDISRDGTLAGSNVSLYEEVCARYPQVAFQSSGGIGDIDDVAALRGTGVRGVIVGRALLEGKFTVKEAIACWQNA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10444
Length:	245 (232)
Sequences:	5976 (3076)
Seq/√Len:	201.9

ECOLI - HIS4 HIS6
BACSU - HIS4 HIS6
HALSA - HIS6 HIS4
SULSO - HIS6 HIS4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
88_V	115_W	3.326	1.00
143_S	147_E	2.550	1.00
113_K	163_V	2.537	1.00
108_S	114_G	2.435	1.00
161_L	197_V	2.401	1.00
128_L	157_V	2.360	1.00
36_Q	71_G	2.350	1.00
126_L	160_Y	2.324	1.00
159_T	163_V	2.316	1.00
84_S	87_D	2.316	1.00
139_Q	148_N	2.284	1.00
36_Q	40_A	2.212	1.00
12_T	26_D	2.170	1.00
234_T	237_E	2.137	1.00
107_K	143_S	2.106	1.00
89_A	93_E	2.088	1.00
209_D	212_A	2.052	1.00
37_D	41_Q	2.028	1.00
139_Q	152_S	2.013	1.00
179_L	232_K	1.942	1.00
209_D	213_A	1.928	1.00
82_V	91_L	1.918	1.00
139_Q	150_G	1.901	1.00
115_W	124_L	1.879	1.00
39_A	73_N	1.877	1.00
88_V	124_L	1.839	1.00
55_K	146_Q	1.838	1.00
62_I	90_A	1.824	1.00
188_E	192_A	1.766	1.00
106_V	142_V	1.734	1.00
170_C	186_L	1.730	1.00
152_S	155_Q	1.722	1.00
89_A	118_R	1.698	1.00
30_D	33_P	1.677	1.00
161_L	196_Q	1.675	1.00
212_A	241_C	1.645	1.00
85_E	115_W	1.642	1.00
158_E	193_R	1.585	1.00
224_V	228_L	1.585	1.00
20_D	23_K	1.566	1.00
184_V	213_A	1.565	1.00
46_L	74_V	1.560	1.00
30_D	67_T	1.551	1.00
208_I	233_F	1.545	1.00
41_Q	236_K	1.533	1.00
224_V	227_A	1.527	1.00
205_I	214_L	1.522	1.00
207_D	210_D	1.518	1.00
21_Y	55_K	1.499	1.00
151_V	159_T	1.490	1.00
10_D	52_T	1.490	1.00
61_Q	64_L	1.486	1.00
101_V	104_T	1.486	1.00
98_R	125_V	1.477	1.00
227_A	233_F	1.474	1.00
9_I	24_Q	1.453	1.00
69_V	76_V	1.441	1.00
127_A	169_L	1.438	1.00
159_T	162_P	1.436	1.00
63_P	66_K	1.416	1.00
28_G	34_R	1.415	1.00
3_I	45_V	1.411	1.00
110_D	114_G	1.404	1.00
67_T	70_A	1.381	1.00
104_T	111_M	1.376	1.00
92_L	123_A	1.376	1.00
191_C	199_F	1.364	1.00
137_N	152_S	1.364	1.00
138_K	189_E	1.363	1.00
141_A	148_N	1.355	1.00
208_I	241_C	1.336	1.00
86_E	89_A	1.330	1.00
233_F	238_A	1.327	1.00
85_E	118_R	1.326	1.00
210_D	213_A	1.326	1.00
4_P	43_A	1.322	1.00
192_A	218_G	1.311	1.00
85_E	114_G	1.293	1.00
48_L	68_L	1.276	1.00
211_V	224_V	1.271	1.00
172_D	183_N	1.262	1.00
45_V	98_R	1.260	1.00
113_K	117_E	1.259	1.00
110_D	113_K	1.243	1.00
211_V	227_A	1.243	1.00
105_A	126_L	1.243	1.00
65_I	78_V	1.232	1.00
88_V	99_V	1.222	1.00
66_K	70_A	1.209	1.00
37_D	40_A	1.207	1.00
157_V	190_V	1.202	1.00
127_A	171_T	1.194	1.00
170_C	190_V	1.184	1.00
41_Q	234_T	1.175	1.00
106_V	151_V	1.171	1.00
236_K	240_A	1.169	1.00
130_V	170_C	1.164	1.00
66_K	94_A	1.164	1.00
103_S	107_K	1.145	1.00
142_V	147_E	1.135	1.00
168_V	197_V	1.125	1.00
27_Y	230_E	1.123	1.00
182_S	205_I	1.120	1.00
166_K	198_A	1.111	1.00
214_L	222_V	1.100	1.00
169_L	223_I	1.099	1.00
125_V	169_L	1.094	1.00
208_I	238_A	1.091	1.00
116_F	121_A	1.088	1.00
126_L	165_L	1.082	1.00
32_L	64_L	1.078	1.00
45_V	75_P	1.070	1.00
158_E	162_P	1.064	1.00
189_E	192_A	1.063	1.00
25_R	230_E	1.061	1.00
130_V	186_L	1.059	1.00
37_D	231_G	1.058	1.00
215_R	218_G	1.047	1.00
190_V	199_F	1.038	1.00
78_V	91_L	1.037	1.00
185_S	188_E	1.036	1.00
237_E	240_A	1.033	1.00
214_L	219_V	1.029	1.00
184_V	188_E	1.028	1.00
13_V	34_R	1.026	1.00
130_V	153_L	1.021	1.00
89_A	119_F	1.014	1.00
41_Q	235_V	1.014	1.00
107_K	147_E	1.013	1.00
187_Y	191_C	1.010	1.00
108_S	111_M	1.005	1.00
69_V	96_V	1.004	1.00
161_L	195_P	1.002	1.00
154_E	193_R	1.002	1.00
9_I	21_Y	0.999	1.00
213_A	216_G	0.992	1.00
191_C	217_T	0.991	1.00
153_L	190_V	0.974	1.00
107_K	142_V	0.970	1.00
153_L	157_V	0.968	0.99
111_M	115_W	0.966	0.99
167_H	198_A	0.964	0.99
32_L	67_T	0.964	0.99
116_F	165_L	0.959	0.99
78_V	96_V	0.955	0.99
66_K	90_A	0.948	0.99
188_E	217_T	0.943	0.99
109_Q	159_T	0.939	0.99
45_V	125_V	0.937	0.99
125_V	167_H	0.936	0.99
34_R	37_D	0.935	0.99
63_P	67_T	0.933	0.99
86_E	90_A	0.932	0.99
157_V	195_P	0.930	0.99
39_A	72_V	0.929	0.99
208_I	237_E	0.929	0.99
54_A	103_S	0.927	0.99
188_E	216_G	0.925	0.99
189_E	193_R	0.921	0.99
226_R	230_E	0.919	0.99
142_V	149_S	0.915	0.99
191_C	219_V	0.909	0.99
38_Y	229_L	0.908	0.99
65_I	96_V	0.893	0.99
208_I	212_A	0.891	0.99
155_Q	159_T	0.891	0.99
69_V	97_A	0.890	0.99
36_Q	39_A	0.890	0.99
154_E	189_E	0.889	0.99
15_R	226_R	0.887	0.99
59_K	90_A	0.886	0.99
131_R	141_A	0.885	0.99
101_V	115_W	0.879	0.99
90_A	94_A	0.874	0.99
77_Q	100_V	0.873	0.99
112_V	126_L	0.865	0.99
92_L	119_F	0.863	0.99
112_V	160_Y	0.862	0.99
88_V	119_F	0.856	0.99
2_I	224_V	0.847	0.99
44_E	75_P	0.842	0.99
131_R	174_S	0.842	0.99
67_T	71_G	0.841	0.99
72_V	75_P	0.838	0.99
154_E	158_E	0.829	0.98
234_T	238_A	0.828	0.98
49_V	169_L	0.825	0.98
59_K	87_D	0.814	0.98
207_D	211_V	0.811	0.98
75_P	97_A	0.809	0.98
141_A	173_I	0.805	0.98
191_C	220_R	0.798	0.98
87_D	90_A	0.794	0.98
106_V	156_L	0.793	0.98
167_H	220_R	0.793	0.98
205_I	222_V	0.788	0.98
39_A	74_V	0.787	0.98
154_E	157_V	0.787	0.98
184_V	217_T	0.784	0.98
206_G	210_D	0.783	0.98
211_V	233_F	0.781	0.98
20_D	178_T	0.771	0.97
85_E	119_F	0.768	0.97
85_E	89_A	0.763	0.97
175_R	180_A	0.760	0.97
185_S	189_E	0.759	0.97
130_V	138_K	0.757	0.97
113_K	159_T	0.755	0.97
175_R	178_T	0.752	0.97
140_V	156_L	0.743	0.97
153_L	186_L	0.740	0.97
187_Y	199_F	0.737	0.97
192_A	217_T	0.737	0.97
9_I	52_T	0.736	0.97
198_A	220_R	0.735	0.97
155_Q	158_E	0.735	0.97
207_D	232_K	0.733	0.97
49_V	171_T	0.732	0.97
3_I	200_Q	0.732	0.97
32_L	71_G	0.731	0.97
98_R	166_K	0.729	0.96
12_T	24_Q	0.726	0.96
59_K	83_R	0.724	0.96
43_A	235_V	0.720	0.96
3_I	125_V	0.713	0.96
62_I	66_K	0.711	0.96
137_N	174_S	0.708	0.96
2_I	222_V	0.708	0.96
33_P	37_D	0.698	0.95
82_V	88_V	0.696	0.95
161_L	168_V	0.693	0.95
158_E	161_L	0.689	0.95
52_T	57_P	0.687	0.95
169_L	200_Q	0.686	0.95
64_L	68_L	0.685	0.95
200_Q	221_G	0.684	0.95
126_L	168_V	0.681	0.95
62_I	91_L	0.681	0.95
182_S	206_G	0.676	0.95
128_L	156_L	0.676	0.95
104_T	108_S	0.674	0.95
117_E	162_P	0.673	0.95
68_L	76_V	0.670	0.94
90_A	93_E	0.668	0.94
183_N	186_L	0.663	0.94
211_V	238_A	0.663	0.94
100_V	169_L	0.662	0.94
69_V	94_A	0.659	0.94
33_P	36_Q	0.656	0.94
66_K	93_E	0.656	0.94
88_V	101_V	0.653	0.94
53_G	58_A	0.652	0.94
88_V	123_A	0.650	0.93
120_G	167_H	0.648	0.93
187_Y	214_L	0.646	0.93
211_V	222_V	0.646	0.93
217_T	220_R	0.644	0.93
97_A	122_D	0.643	0.93
97_A	123_A	0.641	0.93
211_V	228_L	0.639	0.93
214_L	217_T	0.638	0.93
15_R	176_D	0.637	0.93
228_L	238_A	0.636	0.93
128_L	140_V	0.636	0.93
157_V	168_V	0.635	0.93
60_R	65_I	0.633	0.93
116_F	120_G	0.631	0.92
88_V	92_L	0.629	0.92
83_R	107_K	0.628	0.92
21_Y	146_Q	0.626	0.92
56_D	60_R	0.624	0.92
138_K	186_L	0.621	0.92
52_T	61_Q	0.621	0.92
212_A	215_R	0.616	0.91
114_G	117_E	0.616	0.91
82_V	101_V	0.616	0.91
101_V	112_V	0.616	0.91
98_R	167_H	0.615	0.91
59_K	62_I	0.613	0.91
225_G	229_L	0.610	0.91
3_I	77_Q	0.610	0.91
57_P	61_Q	0.599	0.90
8_L	48_L	0.598	0.90
177_G	204_G	0.598	0.90
142_V	146_Q	0.597	0.90
44_E	239_I	0.595	0.90
43_A	238_A	0.594	0.90
104_T	115_W	0.592	0.90
205_I	224_V	0.592	0.90
187_Y	219_V	0.592	0.90
48_L	76_V	0.592	0.90
235_V	239_I	0.591	0.90
151_V	155_Q	0.587	0.89
138_K	152_S	0.587	0.89
78_V	82_V	0.579	0.89
191_C	218_G	0.579	0.89
187_Y	201_S	0.578	0.89
86_E	93_E	0.577	0.89
116_F	126_L	0.576	0.89
167_H	200_Q	0.575	0.88
212_A	242_W	0.572	0.88
35_L	68_L	0.571	0.88
177_G	181_G	0.567	0.88
120_G	123_A	0.561	0.87
182_S	210_D	0.559	0.87
58_A	87_D	0.558	0.87
128_L	160_Y	0.557	0.87
190_V	195_P	0.556	0.87
28_G	37_D	0.549	0.86
181_G	204_G	0.548	0.86
3_I	98_R	0.547	0.86
108_S	117_E	0.546	0.86
9_I	55_K	0.545	0.86
8_L	64_L	0.543	0.86
16_L	145_W	0.538	0.85
127_A	200_Q	0.537	0.85
206_G	232_K	0.534	0.85
53_G	59_K	0.533	0.84
201_S	214_L	0.531	0.84
59_K	91_L	0.531	0.84
15_R	175_R	0.529	0.84
2_I	242_W	0.528	0.84
115_W	119_F	0.528	0.84
72_V	76_V	0.525	0.84
37_D	236_K	0.524	0.83
113_K	162_P	0.523	0.83
182_S	211_V	0.522	0.83
234_T	240_A	0.522	0.83
171_T	202_S	0.521	0.83
231_G	234_T	0.521	0.83
211_V	242_W	0.521	0.83
49_V	127_A	0.520	0.83
114_G	118_R	0.519	0.83
19_G	178_T	0.519	0.83
16_L	102_G	0.519	0.83
35_L	72_V	0.517	0.83
5_A	171_T	0.515	0.82
138_K	153_L	0.513	0.82
91_L	96_V	0.507	0.81
45_V	97_A	0.507	0.81
205_I	233_F	0.507	0.81
8_L	61_Q	0.506	0.81
164_G	197_V	0.504	0.81
92_L	125_V	0.504	0.81
62_I	87_D	0.503	0.81
3_I	220_R	0.503	0.81
38_Y	228_L	0.500	0.81
122_D	166_K	0.500	0.81

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
2agkA	1	0.8816	100	0.245	Contact Map
1jvnA	1	0.951	100	0.296	Contact Map
1qo2A	1	0.9551	100	0.427	Contact Map
4gj1A	1	0.9306	100	0.446	Contact Map
2y88A	1	0.9714	100	0.481	Contact Map
4u28A	1	0.9306	100	0.499	Contact Map
4x2rA	1	0.9388	100	0.5	Contact Map
1thfD	2	0.9796	100	0.501	Contact Map
4evzA	1	0.9796	100	0.504	Contact Map
4axkA	1	0.9592	100	0.525	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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