QOX3 - BACSU - GREMLIN Contacts

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QOX3 - Quinol oxidase subunit 3

UniProt:	P34958	Sequences: MEHAEHGNSNAPMEYQSETGRLNILGFWIFLGAEIVLFSTLFATFFVLKNRTAGGVLPDELFEVNLVMIMTFLLLISSFTCGIAVHEMRRGSLKGVVIWTIITLLLGAGFVGCEINEFVHYVHEGAALSTSAFWSGFFVLLGTHGTHVTIGIFWITGILIQLKKRGLTPQTSSKIFISSLYWHFLDVVWIFIFTGVYLMGLGGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	204 (183)
Sequences:	5378 (2739)
Seq/√Len:	202.5

ECOLI - CYOC
BACSU - QOX3 COX3
HALSA - Q9HRK1
SULSO - Q97UN0

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_L	109_G	3.923	1.00
80_T	103_T	3.337	1.00
101_I	159_L	3.292	1.00
92_S	95_G	3.089	1.00
96_V	162_L	3.063	1.00
173_S	177_I	2.961	1.00
83_I	99_W	2.864	1.00
36_V	39_S	2.765	1.00
93_L	97_V	2.509	1.00
104_L	152_I	2.419	1.00
48_L	132_A	2.414	1.00
66_L	113_C	2.254	1.00
87_E	95_G	2.188	1.00
66_L	116_N	2.091	1.00
118_F	141_L	2.057	1.00
112_G	116_N	2.016	1.00
154_W	178_S	2.012	1.00
140_L	196_V	1.969	1.00
68_M	72_F	1.965	1.00
156_T	160_I	1.914	1.00
119_V	123_H	1.907	1.00
111_V	149_T	1.894	1.00
115_I	119_V	1.866	1.00
97_V	163_K	1.842	1.00
80_T	102_I	1.774	1.00
93_L	165_R	1.754	1.00
37_L	143_T	1.710	1.00
155_I	178_S	1.687	1.00
44_T	136_G	1.671	1.00
94_K	98_I	1.671	1.00
73_L	113_C	1.641	1.00
140_L	192_I	1.639	1.00
81_C	155_I	1.630	1.00
84_A	96_V	1.624	1.00
81_C	179_S	1.593	1.00
97_V	159_L	1.570	1.00
158_I	178_S	1.562	1.00
104_L	156_T	1.559	1.00
84_A	100_T	1.534	1.00
31_L	180_L	1.532	1.00
183_H	186_D	1.526	1.00
53_A	56_V	1.523	1.00
97_V	162_L	1.465	1.00
72_F	76_I	1.462	1.00
111_V	152_I	1.449	1.00
70_M	113_C	1.431	1.00
101_I	105_L	1.405	1.00
78_S	183_H	1.385	1.00
65_N	69_I	1.366	1.00
175_I	179_S	1.359	1.00
111_V	145_G	1.354	1.00
98_I	102_I	1.336	1.00
112_G	115_I	1.333	1.00
107_G	152_I	1.317	1.00
79_F	83_I	1.292	1.00
91_G	169_P	1.291	1.00
46_F	195_G	1.287	1.00
80_T	106_L	1.270	1.00
93_L	162_L	1.265	1.00
108_A	152_I	1.249	1.00
83_I	87_E	1.191	1.00
146_T	150_I	1.188	1.00
89_R	176_F	1.179	1.00
98_I	101_I	1.171	1.00
88_M	96_V	1.168	1.00
66_L	70_M	1.162	1.00
95_G	99_W	1.149	1.00
19_T	22_L	1.142	1.00
34_E	117_E	1.133	1.00
149_T	153_F	1.126	1.00
87_E	99_W	1.105	1.00
152_I	156_T	1.096	1.00
49_K	52_T	1.091	1.00
194_T	198_L	1.082	1.00
84_A	175_I	1.081	1.00
84_A	162_L	1.078	1.00
136_G	140_L	1.078	1.00
21_R	25_L	1.066	1.00
20_G	24_I	1.066	1.00
88_M	175_I	1.064	1.00
95_G	98_I	1.060	1.00
70_M	192_I	1.055	1.00
82_G	85_V	1.054	1.00
117_E	197_Y	1.048	1.00
17_S	21_R	1.040	1.00
69_I	113_C	1.034	1.00
86_H	90_R	1.022	1.00
82_G	86_H	1.021	1.00
41_L	143_T	1.018	1.00
45_F	49_K	1.001	1.00
137_F	145_G	0.999	1.00
161_Q	174_K	0.990	1.00
92_S	98_I	0.987	1.00
181_Y	185_L	0.987	1.00
43_A	47_V	0.985	1.00
85_V	89_R	0.972	1.00
153_F	157_G	0.966	0.99
76_I	79_F	0.962	0.99
108_A	112_G	0.960	0.99
18_E	21_R	0.960	0.99
160_I	164_K	0.959	0.99
48_L	136_G	0.958	0.99
73_L	106_L	0.956	0.99
27_F	31_L	0.955	0.99
104_L	155_I	0.950	0.99
99_W	102_I	0.948	0.99
36_V	40_T	0.945	0.99
30_F	181_Y	0.943	0.99
88_M	172_S	0.936	0.99
161_Q	166_G	0.932	0.99
84_A	99_W	0.917	0.99
36_V	46_F	0.902	0.99
16_Q	19_T	0.899	0.99
137_F	141_L	0.896	0.99
114_E	194_T	0.894	0.99
105_L	109_G	0.893	0.99
54_G	57_L	0.892	0.99
127_A	134_W	0.888	0.99
167_L	174_K	0.870	0.99
83_I	95_G	0.868	0.99
41_L	140_L	0.867	0.99
14_E	18_E	0.863	0.99
87_E	92_S	0.855	0.99
80_T	99_W	0.854	0.99
126_A	134_W	0.853	0.99
139_V	143_T	0.852	0.99
150_I	154_W	0.848	0.99
67_V	114_E	0.848	0.99
98_I	163_K	0.846	0.99
17_S	20_G	0.844	0.99
45_F	48_L	0.842	0.99
104_L	159_L	0.840	0.99
124_E	127_A	0.833	0.98
130_T	134_W	0.823	0.98
41_L	139_V	0.820	0.98
150_I	181_Y	0.818	0.98
32_G	36_V	0.817	0.98
116_N	123_H	0.811	0.98
96_V	100_T	0.810	0.98
30_F	34_E	0.809	0.98
126_A	130_T	0.806	0.98
160_I	163_K	0.805	0.98
144_H	147_H	0.801	0.98
26_G	30_F	0.800	0.98
19_T	23_N	0.795	0.98
85_V	176_F	0.792	0.98
94_K	97_V	0.778	0.98
68_M	193_F	0.775	0.98
14_E	17_S	0.775	0.98
58_P	61_L	0.775	0.98
87_E	90_R	0.774	0.98
100_T	159_L	0.773	0.98
182_W	189_W	0.772	0.98
56_V	60_E	0.768	0.97
74_L	137_F	0.768	0.97
159_L	163_K	0.754	0.97
109_G	113_C	0.752	0.97
130_T	138_F	0.744	0.97
15_Y	19_T	0.744	0.97
25_L	29_I	0.743	0.97
118_F	138_F	0.738	0.97
157_G	160_I	0.734	0.97
139_V	142_G	0.733	0.97
45_F	55_G	0.733	0.97
114_E	137_F	0.732	0.97
24_I	176_F	0.731	0.97
51_R	190_I	0.730	0.97
47_V	51_R	0.728	0.96
47_V	50_N	0.725	0.96
28_W	32_G	0.717	0.96
101_I	163_K	0.710	0.96
57_L	61_L	0.708	0.96
59_D	62_F	0.701	0.96
111_V	115_I	0.691	0.95
191_F	195_G	0.690	0.95
58_P	131_S	0.688	0.95
67_V	70_M	0.688	0.95
61_L	126_A	0.687	0.95
32_G	35_I	0.687	0.95
77_S	106_L	0.684	0.95
61_L	134_W	0.681	0.95
50_N	199_M	0.680	0.95
85_V	179_S	0.671	0.94
35_I	184_F	0.665	0.94
117_E	185_L	0.663	0.94
184_F	188_V	0.662	0.94
81_C	84_A	0.650	0.93
108_A	149_T	0.648	0.93
39_S	43_A	0.646	0.93
64_V	193_F	0.646	0.93
100_T	175_I	0.645	0.93
23_N	173_S	0.640	0.93
100_T	162_L	0.640	0.93
85_V	175_I	0.639	0.93
117_E	186_D	0.639	0.93
131_S	134_W	0.639	0.93
101_I	160_I	0.638	0.93
33_A	40_T	0.637	0.93
89_R	172_S	0.635	0.93
64_V	68_M	0.635	0.93
34_E	197_Y	0.634	0.93
114_E	145_G	0.634	0.93
18_E	22_L	0.628	0.92
126_A	131_S	0.622	0.92
64_V	67_V	0.618	0.92
65_N	68_M	0.613	0.91
77_S	103_T	0.612	0.91
27_F	177_I	0.611	0.91
187_V	194_T	0.607	0.91
91_G	94_K	0.606	0.91
94_K	112_G	0.605	0.91
26_G	42_F	0.605	0.91
41_L	180_L	0.602	0.91
57_L	126_A	0.601	0.91
114_E	134_W	0.599	0.90
158_I	175_I	0.596	0.90
14_E	25_L	0.593	0.90
165_R	169_P	0.590	0.90
78_S	198_L	0.590	0.90
143_T	148_V	0.588	0.90
42_F	133_F	0.586	0.89
158_I	174_K	0.586	0.89
151_G	182_W	0.586	0.89
162_L	165_R	0.585	0.89
75_L	79_F	0.585	0.89
70_M	117_E	0.582	0.89
119_V	125_G	0.578	0.89
116_N	119_V	0.575	0.89
77_S	186_D	0.575	0.89
58_P	62_F	0.573	0.88
20_G	171_T	0.572	0.88
195_G	199_M	0.572	0.88
135_S	139_V	0.570	0.88
27_F	30_F	0.569	0.88
14_E	56_V	0.565	0.88
21_R	32_G	0.563	0.88
74_L	197_Y	0.563	0.88
151_G	184_F	0.556	0.87
148_V	185_L	0.555	0.87
78_S	186_D	0.554	0.87
26_G	34_E	0.551	0.86
165_R	170_Q	0.550	0.86
14_E	20_G	0.549	0.86
118_F	192_I	0.546	0.86
75_L	167_L	0.543	0.86
128_L	135_S	0.542	0.85
101_I	108_A	0.541	0.85
77_S	185_L	0.537	0.85
94_K	105_L	0.537	0.85
162_L	167_L	0.536	0.85
86_H	89_R	0.534	0.85
151_G	183_H	0.533	0.85
35_I	39_S	0.532	0.84
35_I	188_V	0.530	0.84
27_F	154_W	0.529	0.84
129_S	181_Y	0.527	0.84
73_L	77_S	0.525	0.84
117_E	133_F	0.524	0.84
149_T	152_I	0.522	0.83
76_I	106_L	0.521	0.83
14_E	21_R	0.521	0.83
45_F	196_V	0.521	0.83
187_V	191_F	0.520	0.83
34_E	185_L	0.517	0.83
96_V	175_I	0.515	0.82
185_L	192_I	0.514	0.82
70_M	114_E	0.509	0.82
92_S	116_N	0.509	0.82
174_K	177_I	0.505	0.81
104_L	107_G	0.504	0.81
30_F	74_L	0.504	0.81
46_F	181_Y	0.503	0.81
127_A	130_T	0.502	0.81
75_L	190_I	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
1fftC	1	0.9069	100	0.164	Contact Map
1m56C	2	0.9706	100	0.166	Contact Map
1qleC	1	0.9706	100	0.166	Contact Map
2yevA	1	0.9657	100	0.173	Contact Map
1v54C	1	0.9706	100	0.174	Contact Map
2jafA	3	0.8529	15.5	0.949	Contact Map
1xioA	2	0.7843	10.3	0.953	Contact Map
4fbzA	3	0.8529	8	0.955	Contact Map
3qbgA	3	0.8971	7.6	0.955	Contact Map
3ddlA	2	0.8578	6	0.958	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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