YEDY - ECOLI - GREMLIN Contacts

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YEDY - Sulfoxide reductase catalytic subunit YedY

UniProt:	P76342	Sequences: MKKNQFLKESDVTAESVFFMKRRQVLKALGISATALSLPHAAHADLLSWFKGNDRPPAPAGKALEFSKPAAWQNNLPLTPADKVSGYNNFYEFGLDKADPAANAGSLKTDPWTLKISGEVAKPLTLDHDDLTRRFPLEERIYRMRCVEAWSMVVPWIGFPLHKLLALAEPTSNAKYVAFETIYAPEQMPGQQDRFIGGGLKYPYVEGLRLDEAMHPLTLMTVGVYGKALPPQNGAPVRLIVPWKYGFKGIKSIVSIKLTRERPPTTWNLAAPDEYGFYANVNPYVDHPRWSQATERFIGSGGILDVQRQPTLLFNGYAAQVASLYRGLDLRENF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14047
Length:	334 (283)
Sequences:	1467 (1023)
Seq/√Len:	60.8

ECOLI - YEDY
BACSU - YUIH
HALSA - Q9HQN1
SULSO - Q97V11 Q97U24

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
121_A	169_E	5.700	1.00
117_S	257_K	4.180	1.00
165_L	258_L	4.139	1.00
119_E	171_T	3.996	1.00
15_E	227_K	3.751	1.00
84_V	224_V	3.650	1.00
144_M	249_G	3.602	1.00
117_S	255_S	3.427	1.00
121_A	171_T	3.326	1.00
221_T	240_I	3.261	1.00
284_Y	313_L	3.179	1.00
127_D	130_D	3.156	1.00
137_L	222_V	3.118	1.00
173_N	260_R	2.836	1.00
163_K	166_A	2.671	1.00
162_H	166_A	2.636	1.00
164_L	220_M	2.630	1.00
115_K	125_T	2.559	1.00
159_F	164_L	2.558	1.00
134_R	167_L	2.527	1.00
124_L	168_A	2.460	1.00
160_P	163_K	2.422	1.00
21_K	24_Q	2.348	1.00
119_E	260_R	2.344	1.00
119_E	173_N	2.342	1.00
179_F	256_I	2.310	1.00
166_A	214_M	2.212	1.00
264_P	268_N	2.198	1.00
178_A	257_K	2.176	1.00
309_Q	312_L	2.152	1.00
114_L	237_V	2.108	1.00
90_F	252_S	2.048	1.00
178_A	264_P	2.013	1.00
115_K	255_S	1.987	1.00
110_D	128_H	1.922	1.00
294_T	308_R	1.914	1.00
180_E	255_S	1.899	1.00
25_V	29_L	1.856	1.00
178_A	268_N	1.853	1.00
81_A	227_K	1.849	1.00
265_T	268_N	1.793	1.00
126_L	167_L	1.781	0.99
136_P	163_K	1.765	0.99
120_V	258_L	1.747	0.99
124_L	167_L	1.744	0.99
120_V	123_P	1.735	0.99
264_P	269_L	1.709	0.99
101_A	105_G	1.704	0.99
135_F	159_F	1.703	0.99
200_L	270_A	1.673	0.99
70_A	73_Q	1.670	0.99
135_F	167_L	1.661	0.99
122_K	169_E	1.602	0.99
300_S	309_Q	1.583	0.99
94_G	100_P	1.551	0.99
69_P	72_W	1.544	0.98
104_A	107_L	1.543	0.98
65_E	69_P	1.515	0.98
40_H	43_H	1.506	0.98
29_L	32_S	1.494	0.98
221_T	239_L	1.490	0.98
318_A	322_A	1.488	0.98
180_E	257_K	1.476	0.98
38_L	42_A	1.471	0.98
108_K	184_A	1.470	0.98
154_V	224_V	1.458	0.98
44_A	48_S	1.424	0.97
299_G	306_V	1.412	0.97
57_P	60_A	1.402	0.97
205_V	269_L	1.401	0.97
86_G	101_A	1.387	0.97
155_P	226_G	1.381	0.97
90_F	154_V	1.376	0.97
128_H	132_T	1.353	0.97
110_D	129_D	1.347	0.96
94_G	252_S	1.340	0.96
85_S	230_P	1.328	0.96
76_L	297_F	1.325	0.96
66_F	69_P	1.304	0.96
165_L	168_A	1.299	0.96
15_E	20_M	1.295	0.96
116_I	124_L	1.291	0.95
137_L	157_I	1.282	0.95
139_E	157_I	1.265	0.95
29_L	33_A	1.261	0.95
116_I	126_L	1.254	0.95
300_S	306_V	1.239	0.94
297_F	309_Q	1.233	0.94
239_L	250_I	1.230	0.94
85_S	233_N	1.220	0.94
24_Q	27_K	1.203	0.93
149_A	279_A	1.195	0.93
151_S	297_F	1.189	0.93
39_P	43_H	1.174	0.92
41_A	44_A	1.168	0.92
221_T	237_V	1.162	0.92
301_G	306_V	1.160	0.92
177_V	258_L	1.147	0.92
78_L	224_V	1.146	0.92
301_G	304_L	1.146	0.92
218_T	241_V	1.145	0.92
163_K	167_L	1.142	0.91
159_F	222_V	1.139	0.91
165_L	177_V	1.138	0.91
161_L	213_A	1.125	0.91
30_G	33_A	1.116	0.90
141_I	153_V	1.115	0.90
70_A	74_N	1.115	0.90
108_K	111_P	1.114	0.90
159_F	220_M	1.109	0.90
62_K	69_P	1.105	0.90
299_G	309_Q	1.087	0.89
69_P	73_Q	1.073	0.89
149_A	152_M	1.072	0.89
215_H	318_A	1.061	0.88
105_G	231_P	1.060	0.88
42_A	45_D	1.057	0.88
300_S	307_Q	1.057	0.88
31_I	35_A	1.056	0.88
130_D	133_R	1.043	0.87
33_A	37_S	1.043	0.87
313_L	318_A	1.027	0.86
276_G	291_S	1.023	0.86
215_H	218_T	1.019	0.86
101_A	104_A	1.014	0.86
205_V	250_I	1.014	0.86
73_Q	78_L	1.014	0.86
132_T	135_F	1.009	0.85
161_L	239_L	1.008	0.85
216_P	219_L	1.007	0.85
162_H	216_P	1.005	0.85
164_L	168_A	1.004	0.85
222_V	237_V	0.996	0.85
28_A	31_I	0.995	0.85
138_E	219_L	0.984	0.84
210_L	258_L	0.982	0.84
122_K	168_A	0.975	0.83
157_I	222_V	0.962	0.83
20_M	27_K	0.960	0.82
80_P	84_V	0.956	0.82
104_A	109_T	0.955	0.82
139_E	155_P	0.951	0.82
38_L	41_A	0.949	0.82
76_L	309_Q	0.948	0.82
113_T	125_T	0.943	0.81
299_G	307_Q	0.928	0.80
220_M	237_V	0.923	0.80
56_P	59_P	0.921	0.80
85_S	224_V	0.919	0.80
25_V	28_A	0.911	0.79
241_V	249_G	0.904	0.78
116_I	120_V	0.897	0.78
63_A	67_S	0.891	0.77
215_H	320_Q	0.891	0.77
262_R	268_N	0.889	0.77
176_Y	207_G	0.889	0.77
69_P	75_N	0.888	0.77
64_L	67_S	0.884	0.77
84_V	141_I	0.880	0.77
28_A	32_S	0.880	0.77
178_A	269_L	0.879	0.76
32_S	36_L	0.878	0.76
161_L	256_I	0.876	0.76
116_I	168_A	0.874	0.76
28_A	35_A	0.872	0.76
76_L	79_T	0.863	0.75
294_T	301_G	0.856	0.75
79_T	84_V	0.855	0.74
301_G	307_Q	0.855	0.74
299_G	308_R	0.851	0.74
72_W	75_N	0.849	0.74
206_E	247_F	0.848	0.74
121_A	172_S	0.844	0.73
165_L	214_M	0.843	0.73
74_N	78_L	0.842	0.73
126_L	168_A	0.836	0.73
73_Q	76_L	0.832	0.72
104_A	182_I	0.832	0.72
120_V	168_A	0.828	0.72
257_K	260_R	0.827	0.72
35_A	38_L	0.826	0.72
222_V	228_A	0.824	0.72
119_E	210_L	0.822	0.71
78_L	84_V	0.822	0.71
157_I	223_G	0.822	0.71
125_T	131_L	0.821	0.71
149_A	300_S	0.820	0.71
124_L	130_D	0.814	0.71
17_V	20_M	0.813	0.71
81_A	85_S	0.811	0.70
37_S	41_A	0.808	0.70
34_T	38_L	0.799	0.69
307_Q	310_P	0.795	0.69
148_E	151_S	0.794	0.69
120_V	124_L	0.789	0.68
208_L	241_V	0.787	0.68
141_I	155_P	0.787	0.68
92_E	232_Q	0.787	0.68
78_L	81_A	0.780	0.67
26_L	29_L	0.779	0.67
35_A	39_P	0.779	0.67
64_L	68_K	0.774	0.67
261_E	264_P	0.773	0.67
206_E	248_K	0.773	0.67
130_D	134_R	0.765	0.66
100_P	105_G	0.763	0.66
64_L	69_P	0.762	0.66
110_D	132_T	0.754	0.65
18_F	224_V	0.750	0.64
36_L	39_P	0.743	0.64
259_T	265_T	0.741	0.63
39_P	44_A	0.739	0.63
168_A	258_L	0.738	0.63
61_G	64_L	0.735	0.63
112_W	218_T	0.735	0.63
72_W	144_M	0.734	0.63
107_L	182_I	0.730	0.62
82_D	86_G	0.730	0.62
31_I	37_S	0.727	0.62
45_D	49_W	0.726	0.62
44_A	47_L	0.726	0.62
220_M	253_I	0.724	0.62
113_T	128_H	0.722	0.61
87_Y	154_V	0.720	0.61
58_A	61_G	0.720	0.61
298_I	306_V	0.714	0.61
15_E	81_A	0.712	0.60
181_T	250_I	0.711	0.60
34_T	42_A	0.711	0.60
109_T	128_H	0.711	0.60
131_L	237_V	0.710	0.60
33_A	181_T	0.708	0.60
172_S	210_L	0.708	0.60
161_L	214_M	0.706	0.60
42_A	46_L	0.705	0.60
178_A	205_V	0.704	0.60
90_F	267_W	0.702	0.59
57_P	63_A	0.701	0.59
223_G	283_P	0.700	0.59
16_S	33_A	0.697	0.59
301_G	305_D	0.696	0.59
45_D	48_S	0.694	0.58
144_M	154_V	0.689	0.58
31_I	34_T	0.689	0.58
33_A	36_L	0.687	0.58
25_V	30_G	0.687	0.58
119_E	259_T	0.686	0.58
30_G	41_A	0.685	0.57
179_F	204_Y	0.685	0.57
283_P	292_Q	0.683	0.57
43_H	46_L	0.682	0.57
168_A	173_N	0.680	0.57
100_P	104_A	0.679	0.57
126_L	169_E	0.678	0.57
110_D	127_D	0.677	0.57
117_S	178_A	0.675	0.56
71_A	74_N	0.668	0.56
20_M	28_A	0.663	0.55
100_P	103_N	0.662	0.55
100_P	201_K	0.661	0.55
160_P	219_L	0.661	0.55
312_L	318_A	0.660	0.55
165_L	170_P	0.659	0.55
34_T	37_S	0.659	0.55
42_A	47_L	0.658	0.54
154_V	297_F	0.656	0.54
26_L	50_F	0.655	0.54
48_S	51_K	0.655	0.54
300_S	304_L	0.654	0.54
41_A	46_L	0.654	0.54
50_F	68_K	0.651	0.54
38_L	48_S	0.648	0.53
276_G	289_R	0.648	0.53
90_F	156_W	0.647	0.53
72_W	76_L	0.647	0.53
180_E	205_V	0.646	0.53
121_A	177_V	0.645	0.53
39_P	46_L	0.645	0.53
176_Y	263_P	0.644	0.53
182_I	254_V	0.643	0.53
154_V	225_Y	0.642	0.53
289_R	292_Q	0.642	0.53
116_I	122_K	0.641	0.52
300_S	308_R	0.641	0.52
134_R	163_K	0.641	0.52
124_L	134_R	0.640	0.52
297_F	300_S	0.638	0.52
151_S	154_V	0.635	0.52
35_A	43_H	0.635	0.52
85_S	297_F	0.632	0.51
301_G	309_Q	0.631	0.51
162_H	168_A	0.631	0.51
27_K	31_I	0.625	0.51
120_V	210_L	0.623	0.50
145_R	206_E	0.622	0.50
177_V	213_A	0.621	0.50
228_A	300_S	0.619	0.50
132_T	228_A	0.617	0.50
283_P	290_W	0.616	0.50
219_L	240_I	0.614	0.49
221_T	233_N	0.614	0.49
56_P	60_A	0.613	0.49
47_L	50_F	0.612	0.49
159_F	219_L	0.611	0.49
57_P	69_P	0.610	0.49
205_V	264_P	0.609	0.49
41_A	45_D	0.605	0.48
90_F	152_M	0.602	0.48
127_D	132_T	0.599	0.48
277_F	280_N	0.598	0.48
39_P	42_A	0.598	0.48
15_E	221_T	0.597	0.48
24_Q	28_A	0.596	0.47
31_I	51_K	0.592	0.47
180_E	250_I	0.592	0.47
159_F	237_V	0.591	0.47
28_A	38_L	0.589	0.47
37_S	47_L	0.587	0.46
42_A	49_W	0.584	0.46
131_L	222_V	0.584	0.46
140_R	217_L	0.583	0.46
160_P	320_Q	0.583	0.46
76_L	80_P	0.582	0.46
313_L	320_Q	0.582	0.46
26_L	42_A	0.581	0.46
224_V	230_P	0.574	0.45
46_L	49_W	0.573	0.45
217_L	226_G	0.572	0.45
199_G	202_Y	0.571	0.45
112_W	128_H	0.570	0.44
181_T	252_S	0.569	0.44
175_K	260_R	0.569	0.44
30_G	39_P	0.567	0.44
21_K	27_K	0.567	0.44
115_K	119_E	0.566	0.44
124_L	128_H	0.564	0.44
139_E	226_G	0.562	0.44
283_P	287_H	0.560	0.43
70_A	75_N	0.560	0.43
157_I	160_P	0.557	0.43
292_Q	295_E	0.557	0.43
284_Y	318_A	0.556	0.43
306_V	309_Q	0.555	0.43
115_K	257_K	0.555	0.43
217_L	242_P	0.554	0.43
284_Y	310_P	0.554	0.43
280_N	289_R	0.553	0.43
48_S	52_G	0.553	0.43
117_S	210_L	0.553	0.43
60_A	63_A	0.552	0.42
150_W	204_Y	0.551	0.42
81_A	86_G	0.551	0.42
32_S	35_A	0.551	0.42
37_S	45_D	0.549	0.42
21_K	25_V	0.549	0.42
245_Y	267_W	0.549	0.42
41_A	47_L	0.549	0.42
136_P	160_P	0.548	0.42
116_I	129_D	0.545	0.42
63_A	69_P	0.545	0.42
41_A	133_R	0.541	0.41
244_K	252_S	0.541	0.41
95_L	105_G	0.540	0.41
26_L	205_V	0.540	0.41
283_P	289_R	0.540	0.41
140_R	223_G	0.539	0.41
212_E	244_K	0.539	0.41
33_A	38_L	0.539	0.41
21_K	166_A	0.537	0.41
299_G	305_D	0.536	0.41
40_H	44_A	0.535	0.41
38_L	45_D	0.535	0.41
26_L	90_F	0.535	0.41
49_W	116_I	0.533	0.40
246_G	287_H	0.533	0.40
32_S	68_K	0.533	0.40
102_A	105_G	0.533	0.40
239_L	256_I	0.531	0.40
218_T	239_L	0.531	0.40
37_S	40_H	0.530	0.40
62_K	67_S	0.529	0.40
39_P	49_W	0.527	0.40
145_R	248_K	0.527	0.40
143_R	153_V	0.525	0.40
93_F	107_L	0.524	0.39
126_L	134_R	0.524	0.39
247_F	267_W	0.524	0.39
45_D	163_K	0.524	0.39
110_D	113_T	0.523	0.39
95_L	270_A	0.522	0.39
107_L	231_P	0.522	0.39
122_K	210_L	0.522	0.39
159_F	250_I	0.521	0.39
121_A	258_L	0.520	0.39
224_V	298_I	0.519	0.39
285_V	288_P	0.519	0.39
130_D	164_L	0.519	0.39
121_A	173_N	0.519	0.39
93_F	145_R	0.516	0.39
66_F	70_A	0.515	0.38
24_Q	29_L	0.515	0.38
44_A	49_W	0.514	0.38
112_W	254_V	0.514	0.38
67_S	73_Q	0.513	0.38
304_L	307_Q	0.513	0.38
64_L	71_A	0.510	0.38
165_L	210_L	0.509	0.38
248_K	267_W	0.509	0.38
68_K	74_N	0.507	0.38
160_P	246_G	0.507	0.38
30_G	34_T	0.507	0.38
140_R	207_G	0.506	0.38
32_S	86_G	0.505	0.37
92_E	142_Y	0.504	0.37
41_A	48_S	0.504	0.37
34_T	172_S	0.503	0.37
170_P	175_K	0.503	0.37
49_W	163_K	0.503	0.37
47_L	51_K	0.503	0.37
113_T	127_D	0.501	0.37
73_Q	318_A	0.501	0.37
20_M	36_L	0.500	0.37
120_V	170_P	0.500	0.37
74_N	141_I	0.500	0.37

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
1xdyA	3	0.7904	100	0.346	Contact Map
2a9dA	2	0.7874	100	0.382	Contact Map
1ogpA	4	0.8084	100	0.388	Contact Map
2blfA	1	0.8263	100	0.392	Contact Map
1soxA	2	0.9162	100	0.393	Contact Map
2biiA	2	0.7335	100	0.412	Contact Map
2bihA	2	0.8443	100	0.413	Contact Map
4pw3A	2	0.7725	100	0.419	Contact Map
2xtsA	2	0.8323	100	0.453	Contact Map
2pq4B	1	0.1048	85.3	0.955	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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