YFEX - ECOLI - GREMLIN Contacts

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YFEX - Probable deferrochelatase/peroxidase YfeX

UniProt:	P76536	Sequences: MSQVQSGILPEHCRAAIWIEANVKGEVDALRAASKTFADKLATFEAKFPDAHLGAVVAFGNNTWRALSGGVGAEELKDFPGYGKGLAPTTQFDVLIHILSLRHDVNFSVAQAAMEAFGDCIEVKEEIHGFRWVEERDLSGFVDGTENPAGEETRREVAVIKDGVDAGGSYVFVQRWEHNLKQLNRMSVHDQEMVIGRTKEANEEIDGDERPETSHLTRVDLKEDGKGLKIVRQSLPYGTASGTHGLYFCAYCARLHNIEQQLLSMFGDTDGKRDAMLRFTKPVTGGYYFAPSLDKLMAL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14165
Length:	299 (285)
Sequences:	1931 (1185)
Seq/√Len:	70.2

ECOLI - YFEX EFEB
BACSU - EFEN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
100_S	106_N	3.903	1.00
22_N	124_K	3.811	1.00
26_E	29_A	3.757	1.00
230_I	262_L	3.757	1.00
21_A	114_M	3.623	1.00
198_T	201_A	3.602	1.00
214_S	217_T	3.374	1.00
59_F	291_P	3.319	1.00
58_A	290_A	3.312	1.00
23_V	63_T	3.290	1.00
65_R	72_G	3.274	1.00
173_V	247_Y	3.139	1.00
206_D	209_E	3.023	1.00
6_S	45_E	2.943	1.00
117_F	121_I	2.919	1.00
75_E	254_R	2.782	1.00
141_F	192_E	2.691	1.00
191_Q	199_K	2.514	1.00
91_Q	288_Y	2.498	1.00
98_I	106_N	2.331	1.00
92_F	288_Y	2.299	1.00
95_L	171_V	2.282	1.00
20_E	92_F	2.256	1.00
77_K	256_H	2.205	1.00
179_N	182_Q	2.154	1.00
66_A	69_G	2.136	1.00
24_K	122_E	2.090	1.00
19_I	123_V	2.054	1.00
171_V	249_C	2.051	1.00
173_V	249_C	2.044	1.00
169_S	251_Y	1.990	1.00
34_S	59_F	1.957	1.00
61_N	72_G	1.956	1.00
175_R	283_V	1.954	1.00
52_H	101_L	1.928	1.00
18_W	249_C	1.913	1.00
139_S	276_M	1.905	1.00
98_I	110_A	1.890	1.00
4_V	167_G	1.821	1.00
111_Q	184_N	1.805	1.00
21_A	96_I	1.787	1.00
75_E	170_Y	1.785	1.00
139_S	178_H	1.777	1.00
30_L	63_T	1.774	1.00
186_M	190_D	1.763	1.00
21_A	123_V	1.762	1.00
62_N	66_A	1.722	1.00
205_I	210_R	1.703	1.00
75_E	256_H	1.668	1.00
255_L	287_Y	1.663	0.99
179_N	281_K	1.640	0.99
127_I	239_T	1.635	0.99
36_T	116_A	1.635	0.99
115_E	184_N	1.607	0.99
61_N	65_R	1.595	0.99
40_K	116_A	1.584	0.99
79_F	82_Y	1.570	0.99
213_T	275_A	1.529	0.99
220_D	227_G	1.517	0.99
239_T	243_T	1.503	0.99
211_P	275_A	1.500	0.99
187_S	190_D	1.495	0.99
16_A	247_Y	1.481	0.99
160_I	163_G	1.479	0.99
21_A	121_I	1.468	0.99
19_I	110_A	1.463	0.99
62_N	78_D	1.448	0.99
83_G	267_G	1.434	0.98
230_I	250_A	1.424	0.98
186_M	194_V	1.420	0.98
97_H	251_Y	1.415	0.98
51_A	105_V	1.389	0.98
77_K	259_E	1.373	0.98
27_V	31_R	1.369	0.98
33_A	94_V	1.367	0.98
177_E	243_T	1.365	0.98
16_A	235_L	1.356	0.98
118_G	181_K	1.345	0.98
130_F	138_L	1.323	0.97
24_K	119_D	1.318	0.97
57_V	96_I	1.312	0.97
95_L	251_Y	1.310	0.97
41_L	57_V	1.295	0.97
99_L	235_L	1.288	0.97
154_R	158_A	1.285	0.97
8_I	290_A	1.281	0.97
234_S	246_L	1.255	0.96
142_V	202_N	1.251	0.96
275_A	278_R	1.244	0.96
42_A	46_A	1.230	0.96
83_G	282_P	1.225	0.96
83_G	280_T	1.217	0.96
112_A	203_E	1.216	0.96
41_L	55_A	1.200	0.95
13_C	235_L	1.183	0.95
82_Y	263_L	1.182	0.95
23_V	30_L	1.174	0.95
193_M	211_P	1.166	0.95
61_N	79_F	1.163	0.95
73_A	76_L	1.161	0.95
17_I	110_A	1.157	0.94
39_D	43_T	1.153	0.94
31_R	35_K	1.149	0.94
58_A	95_L	1.144	0.94
65_R	70_G	1.138	0.94
214_S	220_D	1.137	0.94
160_I	253_A	1.137	0.94
277_L	280_T	1.136	0.94
18_W	95_L	1.136	0.94
160_I	166_A	1.135	0.94
89_T	175_R	1.128	0.94
234_S	250_A	1.128	0.94
220_D	223_E	1.108	0.93
177_E	283_V	1.105	0.93
128_H	239_T	1.103	0.93
17_I	106_N	1.098	0.93
190_D	193_M	1.092	0.93
10_P	13_C	1.087	0.92
213_T	218_R	1.082	0.92
14_R	135_E	1.063	0.92
76_L	170_Y	1.056	0.91
211_P	217_T	1.053	0.91
20_E	286_G	1.043	0.91
197_R	232_R	1.029	0.90
192_E	198_T	1.017	0.90
230_I	258_I	1.016	0.90
213_T	217_T	1.014	0.89
37_F	117_F	1.010	0.89
158_A	231_V	1.006	0.89
78_D	91_Q	1.002	0.89
60_G	63_T	1.001	0.89
193_M	205_I	0.996	0.89
171_V	251_Y	0.994	0.89
103_H	128_H	0.991	0.88
159_V	289_F	0.988	0.88
194_V	281_K	0.980	0.88
8_I	169_S	0.979	0.88
22_N	122_E	0.977	0.88
127_I	175_R	0.976	0.88
198_T	205_I	0.971	0.87
67_L	70_G	0.970	0.87
192_E	199_K	0.968	0.87
163_G	166_A	0.968	0.87
10_P	235_L	0.968	0.87
10_P	99_L	0.965	0.87
64_W	72_G	0.964	0.87
20_E	91_Q	0.963	0.87
141_F	199_K	0.960	0.87
63_T	94_V	0.960	0.87
223_E	226_K	0.959	0.87
212_E	217_T	0.951	0.86
171_V	290_A	0.948	0.86
90_T	284_T	0.941	0.86
216_L	219_V	0.940	0.86
276_M	280_T	0.932	0.85
150_G	153_T	0.929	0.85
115_E	181_K	0.919	0.84
20_E	288_Y	0.917	0.84
33_A	116_A	0.905	0.83
14_R	133_V	0.904	0.83
34_S	291_P	0.900	0.83
86_L	89_T	0.899	0.83
15_A	103_H	0.899	0.83
187_S	194_V	0.898	0.83
33_A	117_F	0.893	0.83
221_L	225_G	0.889	0.82
255_L	282_P	0.886	0.82
176_W	266_F	0.886	0.82
73_A	183_L	0.886	0.82
156_E	253_A	0.879	0.81
102_R	105_V	0.879	0.81
85_G	281_K	0.878	0.81
213_T	273_R	0.878	0.81
51_A	101_L	0.876	0.81
256_H	264_S	0.875	0.81
274_D	277_L	0.873	0.81
14_R	101_L	0.872	0.81
53_L	109_V	0.867	0.81
16_A	95_L	0.866	0.81
13_C	99_L	0.864	0.80
260_Q	287_Y	0.854	0.80
170_Y	191_Q	0.850	0.79
141_F	195_I	0.842	0.79
225_G	262_L	0.840	0.78
210_R	216_L	0.838	0.78
183_L	191_Q	0.837	0.78
246_L	250_A	0.836	0.78
210_R	217_T	0.833	0.78
79_F	87_A	0.833	0.78
142_V	145_T	0.832	0.78
138_L	178_H	0.828	0.77
61_N	78_D	0.827	0.77
59_F	94_V	0.827	0.77
112_A	116_A	0.826	0.77
32_A	36_T	0.823	0.77
32_A	35_K	0.818	0.77
59_F	63_T	0.817	0.77
252_C	258_I	0.814	0.76
232_R	248_F	0.811	0.76
219_V	266_F	0.804	0.75
75_E	255_L	0.802	0.75
12_H	131_R	0.798	0.75
89_T	284_T	0.793	0.74
22_N	92_F	0.792	0.74
182_Q	185_R	0.787	0.74
170_Y	255_L	0.784	0.74
263_L	266_F	0.781	0.73
89_T	283_V	0.780	0.73
76_L	255_L	0.775	0.73
50_D	101_L	0.775	0.73
168_G	289_F	0.771	0.72
189_H	193_M	0.770	0.72
4_V	158_A	0.767	0.72
188_V	199_K	0.766	0.72
80_P	263_L	0.764	0.72
74_E	162_D	0.763	0.71
257_N	261_Q	0.763	0.71
57_V	94_V	0.760	0.71
162_D	165_D	0.758	0.71
7_G	56_V	0.757	0.71
20_E	95_L	0.754	0.71
157_V	230_I	0.747	0.70
138_L	180_L	0.742	0.69
220_D	228_L	0.736	0.69
221_L	260_Q	0.733	0.68
23_V	121_I	0.726	0.68
58_A	115_E	0.726	0.68
30_L	155_R	0.723	0.67
208_D	236_P	0.722	0.67
13_C	101_L	0.722	0.67
144_G	248_F	0.721	0.67
55_A	113_A	0.720	0.67
261_Q	265_M	0.717	0.67
37_F	112_A	0.716	0.67
175_R	247_Y	0.712	0.66
264_S	268_D	0.710	0.66
73_A	165_D	0.710	0.66
156_E	229_K	0.709	0.66
158_A	167_G	0.709	0.66
254_R	257_N	0.708	0.66
28_D	31_R	0.707	0.66
36_T	39_D	0.704	0.65
225_G	265_M	0.704	0.65
219_V	263_L	0.703	0.65
207_G	217_T	0.702	0.65
143_D	232_R	0.701	0.65
112_A	115_E	0.701	0.65
18_W	130_F	0.695	0.64
161_K	166_A	0.694	0.64
97_H	249_C	0.694	0.64
225_G	228_L	0.689	0.64
87_A	266_F	0.688	0.64
227_G	257_N	0.687	0.63
237_Y	280_T	0.687	0.63
108_S	111_Q	0.687	0.63
28_D	70_G	0.687	0.63
153_T	156_E	0.684	0.63
17_I	128_H	0.683	0.63
15_A	102_R	0.680	0.63
194_V	275_A	0.678	0.62
216_L	220_D	0.677	0.62
38_A	45_E	0.675	0.62
139_S	214_S	0.675	0.62
97_H	235_L	0.674	0.62
116_A	120_C	0.670	0.61
264_S	267_G	0.670	0.61
172_F	252_C	0.669	0.61
260_Q	263_L	0.668	0.61
90_T	288_Y	0.667	0.61
190_D	240_A	0.667	0.61
41_L	113_A	0.666	0.61
149_A	153_T	0.666	0.61
19_I	96_I	0.666	0.61
221_L	228_L	0.663	0.61
218_R	268_D	0.662	0.61
118_G	121_I	0.661	0.60
165_D	289_F	0.658	0.60
107_F	244_H	0.658	0.60
79_F	285_G	0.655	0.60
172_F	258_I	0.655	0.60
230_I	248_F	0.655	0.60
13_C	54_G	0.653	0.60
128_H	238_G	0.647	0.59
224_D	228_L	0.645	0.59
204_E	265_M	0.645	0.59
159_V	162_D	0.641	0.58
171_V	234_S	0.641	0.58
18_W	247_Y	0.640	0.58
30_L	67_L	0.639	0.58
18_W	171_V	0.639	0.58
258_I	262_L	0.638	0.58
207_G	210_R	0.638	0.58
76_L	191_Q	0.636	0.57
82_Y	262_L	0.635	0.57
36_T	40_K	0.635	0.57
76_L	159_V	0.633	0.57
178_H	280_T	0.629	0.57
182_Q	194_V	0.629	0.57
172_F	250_A	0.629	0.57
5_Q	8_I	0.628	0.57
50_D	155_R	0.626	0.56
160_I	164_V	0.625	0.56
159_V	170_Y	0.623	0.56
23_V	67_L	0.623	0.56
237_Y	276_M	0.623	0.56
57_V	116_A	0.620	0.56
60_G	286_G	0.618	0.55
190_D	194_V	0.617	0.55
6_S	10_P	0.615	0.55
79_F	274_D	0.615	0.55
92_F	124_K	0.614	0.55
60_G	140_G	0.614	0.55
197_R	248_F	0.613	0.55
98_I	148_P	0.611	0.55
177_E	237_Y	0.610	0.54
76_L	289_F	0.607	0.54
124_K	231_V	0.606	0.54
266_F	277_L	0.605	0.54
65_R	68_S	0.604	0.54
146_E	204_E	0.602	0.53
153_T	267_G	0.600	0.53
35_K	38_A	0.599	0.53
145_T	246_L	0.599	0.53
250_A	258_I	0.595	0.53
246_L	280_T	0.595	0.53
194_V	218_R	0.593	0.52
181_K	242_G	0.593	0.52
148_P	156_E	0.593	0.52
126_E	238_G	0.591	0.52
32_A	120_C	0.590	0.52
39_D	42_A	0.590	0.52
99_L	233_Q	0.588	0.52
194_V	211_P	0.587	0.52
277_L	290_A	0.584	0.51
61_N	286_G	0.584	0.51
230_I	261_Q	0.583	0.51
11_E	46_A	0.583	0.51
204_E	210_R	0.582	0.51
205_I	216_L	0.582	0.51
282_P	285_G	0.581	0.51
131_R	142_V	0.580	0.51
122_E	291_P	0.579	0.51
28_D	155_R	0.578	0.51
12_H	133_V	0.577	0.50
55_A	189_H	0.576	0.50
146_E	234_S	0.576	0.50
188_V	279_F	0.575	0.50
7_G	97_H	0.575	0.50
60_G	91_Q	0.574	0.50
214_S	275_A	0.574	0.50
9_L	260_Q	0.572	0.50
139_S	216_L	0.571	0.50
37_F	113_A	0.570	0.50
114_M	118_G	0.570	0.50
15_A	101_L	0.569	0.49
83_G	218_R	0.568	0.49
57_V	291_P	0.567	0.49
36_T	120_C	0.566	0.49
195_I	234_S	0.565	0.49
64_W	73_A	0.565	0.49
228_L	262_L	0.564	0.49
23_V	66_A	0.564	0.49
149_A	155_R	0.563	0.49
53_L	255_L	0.562	0.49
72_G	75_E	0.562	0.49
172_F	263_L	0.561	0.48
195_I	231_V	0.560	0.48
194_V	279_F	0.558	0.48
195_I	280_T	0.557	0.48
173_V	284_T	0.556	0.48
183_L	288_Y	0.555	0.48
144_G	232_R	0.555	0.48
131_R	148_P	0.555	0.48
194_V	205_I	0.553	0.47
52_H	57_V	0.552	0.47
82_Y	266_F	0.552	0.47
34_S	80_P	0.551	0.47
55_A	109_V	0.550	0.47
252_C	280_T	0.548	0.47
188_V	192_E	0.548	0.47
58_A	171_V	0.546	0.47
57_V	121_I	0.546	0.47
275_A	279_F	0.545	0.47
191_Q	279_F	0.545	0.47
227_G	250_A	0.542	0.46
66_A	70_G	0.541	0.46
26_E	94_V	0.541	0.46
144_G	197_R	0.538	0.46
7_G	233_Q	0.537	0.46
198_T	214_S	0.537	0.46
143_D	246_L	0.536	0.45
237_Y	282_P	0.535	0.45
175_R	274_D	0.534	0.45
133_V	234_S	0.534	0.45
17_I	126_E	0.534	0.45
221_L	229_K	0.533	0.45
7_G	13_C	0.533	0.45
55_A	172_F	0.532	0.45
256_H	261_Q	0.532	0.45
262_L	291_P	0.530	0.45
83_G	281_K	0.528	0.44
40_K	112_A	0.526	0.44
145_T	202_N	0.525	0.44
27_V	30_L	0.524	0.44
16_A	131_R	0.522	0.44
253_A	258_I	0.522	0.44
54_G	99_L	0.521	0.44
60_G	130_F	0.520	0.44
79_F	287_Y	0.519	0.43
159_V	169_S	0.518	0.43
57_V	117_F	0.517	0.43
161_K	253_A	0.516	0.43
45_E	54_G	0.515	0.43
40_K	44_F	0.512	0.43
89_T	277_L	0.511	0.42
262_L	267_G	0.509	0.42
126_E	225_G	0.509	0.42
135_E	148_P	0.509	0.42
19_I	156_E	0.507	0.42
202_N	216_L	0.506	0.42
96_I	240_A	0.505	0.42
31_R	65_R	0.504	0.42
186_M	280_T	0.504	0.42
141_F	191_Q	0.503	0.41
186_M	279_F	0.503	0.41
18_W	267_G	0.502	0.41
147_N	291_P	0.502	0.41
172_F	255_L	0.500	0.41

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
2iizA	2	0.9967	100	0.134	Contact Map
3qnsA	5	1	100	0.144	Contact Map
4gu7A	2	0.9933	100	0.149	Contact Map
2gvkA	5	0.9799	100	0.16	Contact Map
4grcA	2	0.9699	100	0.194	Contact Map
3o72A	2	0.9833	100	0.196	Contact Map
4gs1A	2	0.9833	100	0.202	Contact Map
4gt2B	2	0.9833	100	0.206	Contact Map
4g2cA	2	0.99	100	0.31	Contact Map
3vxjA	1	0.99	100	0.337	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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