COX2 - BACSU - GREMLIN Contacts

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COX2 - Cytochrome c oxidase subunit 2

UniProt:	P24011	Sequences: MVKHWRLILLLALVPLLLSGCGKPFLSTLKPAGEVADKQYDLTVLSTLIMVVVVAVVSVIFFYVIVRFRRSRVGENTIPKQVEGNKFLEITWTVIPILLLIILVIPVVLYTLELADTSPMDKKGRKAEDALVVNVRANLYWWEFEYPDYGIITSQELIVPTDQRVYFNLKASDVKHSFWIPSVGGKLDTNTDNENKFFLTFDSKRSKEAGDMFFGKCAELCGPSHALMDFKVKTMSAKEFQGWTKEMKNYKSTAESDLAKQGEELFKEKNCLSCHAVEPNDKRAEAARTAPNLATFGERTKVAGVKEANKENVKAWLKDPDSIKPGNKMTGTYPKLSDSETNALYEYLKGLKAESK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	356 (311)
Sequences:	1213 (856)
Seq/√Len:	48.5

ECOLI - CYOA
BACSU - COX2 QOX2
HALSA - Q9HRJ9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
236_S	239_E	5.555	1.00
237_A	241_Q	5.286	1.00
159_V	201_F	5.054	1.00
209_A	234_T	4.977	1.00
265_L	344_L	4.718	1.00
158_I	235_M	4.431	1.00
163_Q	237_A	4.407	1.00
161_T	234_T	4.236	1.00
133_V	157_L	3.698	1.00
161_T	237_A	3.499	1.00
235_M	239_E	3.484	1.00
134_N	145_E	3.400	1.00
201_F	234_T	3.361	1.00
131_L	240_F	3.311	1.00
138_N	143_E	3.049	1.00
161_T	209_A	3.004	1.00
169_L	189_T	2.987	1.00
263_E	267_K	2.746	1.00
209_A	236_S	2.742	1.00
151_I	244_T	2.691	1.00
165_V	201_F	2.644	1.00
293_L	348_L	2.433	1.00
144_F	157_L	2.238	1.00
87_F	91_T	2.199	1.00
18_L	21_C	2.177	1.00
188_D	219_E	2.097	1.00
177_S	219_E	2.028	1.00
149_Y	240_F	2.023	1.00
184_G	199_L	2.020	1.00
46_S	103_L	1.988	0.99
167_F	199_L	1.984	0.99
34_E	202_D	1.970	0.99
209_A	213_F	1.966	0.99
98_L	102_I	1.951	0.99
337_S	340_E	1.951	0.99
309_N	312_N	1.947	0.99
315_A	323_I	1.945	0.99
258_L	343_A	1.907	0.99
159_V	199_L	1.884	0.99
167_F	197_F	1.823	0.99
214_F	229_D	1.821	0.99
314_K	342_N	1.819	0.99
63_Y	67_R	1.808	0.99
258_L	346_E	1.796	0.99
92_W	96_P	1.791	0.99
336_L	341_T	1.783	0.99
158_I	233_K	1.729	0.98
155_Q	247_M	1.711	0.98
241_Q	245_K	1.682	0.98
169_L	187_L	1.663	0.98
48_L	51_V	1.651	0.98
162_D	237_A	1.647	0.98
135_V	167_F	1.626	0.98
34_E	200_T	1.626	0.98
138_N	172_S	1.619	0.98
137_A	189_T	1.598	0.97
180_I	232_V	1.568	0.97
94_V	98_L	1.550	0.97
247_M	250_Y	1.534	0.97
312_N	315_A	1.515	0.96
143_E	152_I	1.510	0.96
261_Q	343_A	1.509	0.96
135_V	177_S	1.506	0.96
183_V	201_F	1.498	0.96
40_Y	44_V	1.495	0.96
89_E	92_W	1.492	0.96
295_T	298_E	1.490	0.96
31_P	36_A	1.474	0.96
238_K	241_Q	1.473	0.96
313_V	316_W	1.471	0.96
318_K	338_D	1.450	0.95
90_I	94_V	1.403	0.95
323_I	327_N	1.401	0.94
130_A	164_R	1.400	0.94
49_I	103_L	1.383	0.94
266_F	293_L	1.374	0.94
319_D	322_S	1.365	0.94
316_W	319_D	1.357	0.93
29_L	182_S	1.357	0.93
37_D	202_D	1.351	0.93
216_K	229_D	1.348	0.93
261_Q	340_E	1.346	0.93
278_E	292_N	1.345	0.93
127_A	130_A	1.316	0.92
239_E	242_G	1.315	0.92
91_T	95_I	1.302	0.92
133_V	159_V	1.287	0.92
53_V	57_V	1.285	0.91
20_G	23_K	1.282	0.91
85_N	89_E	1.274	0.91
319_D	324_K	1.267	0.91
159_V	234_T	1.261	0.91
109_L	113_E	1.260	0.91
186_K	219_E	1.255	0.90
31_P	111_T	1.254	0.90
166_Y	196_K	1.252	0.90
296_F	299_R	1.238	0.90
149_Y	244_T	1.235	0.90
177_S	188_D	1.235	0.90
260_K	263_E	1.234	0.90
183_V	232_V	1.221	0.89
258_L	261_Q	1.208	0.89
341_T	345_Y	1.207	0.89
134_N	170_K	1.189	0.88
310_K	349_K	1.183	0.88
136_R	145_E	1.180	0.88
44_V	48_L	1.171	0.87
155_Q	190_N	1.170	0.87
134_N	168_N	1.170	0.87
220_L	223_P	1.162	0.87
215_G	230_F	1.154	0.86
94_V	97_I	1.145	0.86
280_N	294_A	1.138	0.86
297_G	350_G	1.121	0.85
311_E	315_A	1.118	0.85
132_V	166_Y	1.111	0.84
117_T	198_F	1.111	0.84
100_L	179_W	1.110	0.84
327_N	330_T	1.109	0.84
316_W	320_P	1.108	0.84
82_V	96_P	1.108	0.84
338_D	341_T	1.106	0.84
259_A	350_G	1.101	0.84
179_W	218_A	1.099	0.83
48_L	52_V	1.090	0.83
68_F	89_E	1.067	0.82
163_Q	241_Q	1.067	0.82
100_L	115_A	1.065	0.82
321_D	330_T	1.062	0.81
316_W	348_L	1.061	0.81
315_A	319_D	1.054	0.81
325_P	330_T	1.051	0.81
187_L	197_F	1.046	0.80
148_D	244_T	1.038	0.80
269_K	340_E	1.029	0.79
321_D	327_N	1.022	0.79
161_T	201_F	1.021	0.79
277_V	347_Y	1.009	0.78
320_P	323_I	1.008	0.78
89_E	93_T	1.006	0.78
212_M	233_K	1.005	0.78
135_V	144_F	0.998	0.77
62_F	66_V	0.997	0.77
276_A	290_A	0.996	0.77
244_T	248_K	0.991	0.77
209_A	235_M	0.985	0.76
324_K	327_N	0.981	0.76
164_R	200_T	0.976	0.75
280_N	287_A	0.973	0.75
293_L	299_R	0.973	0.75
104_V	108_V	0.971	0.75
290_A	293_L	0.970	0.75
168_N	194_E	0.964	0.75
278_E	294_A	0.964	0.75
294_A	299_R	0.954	0.74
34_E	234_T	0.950	0.73
309_N	313_V	0.944	0.73
308_A	312_N	0.941	0.73
177_S	218_A	0.937	0.72
100_L	106_P	0.936	0.72
213_F	234_T	0.934	0.72
45_L	49_I	0.930	0.72
130_A	163_Q	0.929	0.72
35_V	39_Q	0.924	0.71
19_S	22_G	0.918	0.71
257_D	261_Q	0.914	0.71
312_N	316_W	0.913	0.70
90_I	93_T	0.905	0.70
251_K	295_T	0.904	0.70
309_N	316_W	0.904	0.70
201_F	209_A	0.900	0.69
150_G	241_Q	0.898	0.69
332_T	335_K	0.898	0.69
320_P	326_G	0.896	0.69
18_L	22_G	0.894	0.69
38_K	113_E	0.888	0.68
42_L	110_Y	0.884	0.68
311_E	314_K	0.880	0.68
139_L	214_F	0.880	0.68
292_N	295_T	0.873	0.67
261_Q	264_E	0.870	0.67
104_V	107_V	0.862	0.66
52_V	56_V	0.859	0.66
202_D	209_A	0.855	0.65
341_T	344_L	0.853	0.65
81_Q	84_G	0.849	0.65
54_V	58_S	0.848	0.65
249_N	253_T	0.840	0.64
22_G	25_F	0.837	0.64
143_E	240_F	0.835	0.64
46_S	220_L	0.834	0.63
59_V	306_K	0.832	0.63
38_K	41_D	0.817	0.62
79_P	84_G	0.816	0.62
17_L	22_G	0.814	0.62
95_I	99_L	0.813	0.61
239_E	256_S	0.808	0.61
134_N	147_P	0.806	0.61
296_F	340_E	0.804	0.61
255_E	264_E	0.801	0.60
138_N	190_N	0.797	0.60
52_V	317_L	0.792	0.59
238_K	246_E	0.790	0.59
141_W	324_K	0.782	0.58
209_A	212_M	0.780	0.58
133_V	254_A	0.777	0.58
45_L	102_I	0.776	0.58
308_A	316_W	0.776	0.58
293_L	324_K	0.776	0.58
88_L	92_W	0.773	0.58
316_W	324_K	0.772	0.57
92_W	95_I	0.770	0.57
81_Q	85_N	0.767	0.57
256_S	260_K	0.764	0.57
29_L	33_G	0.762	0.56
140_Y	220_L	0.760	0.56
310_K	314_K	0.749	0.55
252_S	286_A	0.749	0.55
269_K	336_L	0.748	0.55
135_V	169_L	0.747	0.55
65_I	218_A	0.747	0.55
208_E	255_E	0.744	0.55
214_F	231_K	0.740	0.54
331_G	345_Y	0.740	0.54
55_A	245_K	0.740	0.54
141_W	316_W	0.739	0.54
188_D	218_A	0.737	0.54
202_D	208_E	0.736	0.54
209_A	239_E	0.734	0.54
34_E	38_K	0.730	0.53
168_N	196_K	0.726	0.53
134_N	137_A	0.726	0.53
41_D	45_L	0.724	0.53
127_A	164_R	0.724	0.53
35_V	114_L	0.723	0.53
311_E	345_Y	0.723	0.53
265_L	340_E	0.720	0.52
170_K	190_N	0.719	0.52
191_T	210_G	0.717	0.52
240_F	294_A	0.716	0.52
60_I	91_T	0.715	0.52
135_V	142_W	0.712	0.51
47_T	51_V	0.708	0.51
279_P	290_A	0.706	0.51
247_M	295_T	0.701	0.50
161_T	236_S	0.697	0.50
245_K	248_K	0.695	0.50
309_N	318_K	0.692	0.49
212_M	231_K	0.692	0.49
130_A	200_T	0.690	0.49
43_T	46_S	0.688	0.49
245_K	249_N	0.683	0.49
88_L	96_P	0.681	0.48
336_L	340_E	0.681	0.48
276_A	287_A	0.680	0.48
252_S	255_E	0.680	0.48
131_L	226_A	0.677	0.48
146_Y	153_T	0.676	0.48
266_F	325_P	0.676	0.48
21_C	26_L	0.674	0.48
187_L	196_K	0.673	0.48
242_G	264_E	0.673	0.48
279_P	294_A	0.672	0.47
133_V	149_Y	0.671	0.47
146_Y	240_F	0.671	0.47
45_L	52_V	0.666	0.47
79_P	97_I	0.666	0.47
57_V	322_S	0.664	0.47
107_V	110_Y	0.663	0.47
157_L	161_T	0.660	0.46
108_V	112_L	0.656	0.46
139_L	281_D	0.654	0.46
76_N	79_P	0.653	0.46
346_E	350_G	0.652	0.45
320_P	327_N	0.650	0.45
136_R	172_S	0.649	0.45
200_T	234_T	0.647	0.45
227_L	305_V	0.643	0.45
84_G	103_L	0.643	0.45
302_V	306_K	0.642	0.44
67_R	81_Q	0.642	0.44
299_R	308_A	0.641	0.44
17_L	21_C	0.641	0.44
94_V	159_V	0.641	0.44
279_P	351_L	0.639	0.44
288_R	293_L	0.638	0.44
83_E	89_E	0.638	0.44
105_I	289_T	0.638	0.44
111_T	166_Y	0.637	0.44
69_R	72_R	0.637	0.44
309_N	315_A	0.636	0.44
85_N	92_W	0.634	0.44
141_W	154_S	0.634	0.44
106_P	220_L	0.633	0.44
279_P	287_A	0.632	0.43
130_A	165_V	0.632	0.43
315_A	324_K	0.629	0.43
157_L	167_F	0.629	0.43
86_K	91_T	0.629	0.43
101_I	350_G	0.628	0.43
310_K	316_W	0.625	0.43
160_P	201_F	0.624	0.43
297_G	313_V	0.623	0.43
96_P	104_V	0.622	0.42
17_L	20_G	0.622	0.42
162_D	202_D	0.622	0.42
84_G	88_L	0.621	0.42
215_G	304_G	0.620	0.42
54_V	137_A	0.620	0.42
175_K	191_T	0.619	0.42
80_K	264_E	0.619	0.42
30_K	37_D	0.618	0.42
175_K	192_D	0.617	0.42
19_S	23_K	0.615	0.42
175_K	188_D	0.615	0.42
292_N	325_P	0.613	0.42
50_M	58_S	0.610	0.41
145_E	152_I	0.609	0.41
99_L	102_I	0.608	0.41
59_V	72_R	0.607	0.41
310_K	346_E	0.607	0.41
102_I	128_E	0.606	0.41
97_I	213_F	0.605	0.41
215_G	324_K	0.604	0.41
46_S	50_M	0.604	0.41
258_L	339_S	0.603	0.41
117_T	127_A	0.603	0.41
31_P	54_V	0.603	0.41
39_Q	184_G	0.602	0.40
302_V	313_V	0.602	0.40
187_L	195_N	0.599	0.40
276_A	294_A	0.595	0.40
293_L	297_G	0.595	0.40
252_S	256_S	0.593	0.40
140_Y	301_K	0.592	0.39
98_L	178_F	0.592	0.39
148_D	315_A	0.592	0.39
145_E	240_F	0.590	0.39
340_E	343_A	0.589	0.39
140_Y	216_K	0.588	0.39
68_F	71_S	0.587	0.39
48_L	246_E	0.587	0.39
17_L	25_F	0.585	0.39
33_G	108_V	0.585	0.39
151_I	240_F	0.582	0.39
79_P	247_M	0.582	0.39
29_L	36_A	0.581	0.38
21_C	24_P	0.580	0.38
177_S	326_G	0.580	0.38
171_A	265_L	0.579	0.38
266_F	347_Y	0.579	0.38
313_V	319_D	0.577	0.38
169_L	197_F	0.576	0.38
31_P	232_V	0.576	0.38
66_V	80_K	0.572	0.38
299_R	348_L	0.572	0.38
115_A	132_V	0.572	0.38
20_G	25_F	0.572	0.38
276_A	280_N	0.572	0.38
20_G	218_A	0.571	0.37
265_L	300_T	0.571	0.37
146_Y	158_I	0.569	0.37
111_T	115_A	0.568	0.37
135_V	185_G	0.568	0.37
208_E	213_F	0.568	0.37
310_K	315_A	0.567	0.37
58_S	62_F	0.567	0.37
165_V	235_M	0.566	0.37
202_D	234_T	0.566	0.37
251_K	278_E	0.566	0.37
253_T	258_L	0.565	0.37
138_N	141_W	0.564	0.37
139_L	173_D	0.562	0.37
312_N	327_N	0.562	0.37
28_T	180_I	0.562	0.37
166_Y	198_F	0.561	0.37
256_S	259_A	0.560	0.36
254_A	259_A	0.560	0.36
32_A	213_F	0.560	0.36
144_F	230_F	0.559	0.36
323_I	326_G	0.557	0.36
144_F	178_F	0.557	0.36
293_L	349_K	0.556	0.36
180_I	183_V	0.556	0.36
260_K	264_E	0.555	0.36
287_A	290_A	0.555	0.36
310_K	313_V	0.554	0.36
54_V	182_S	0.553	0.36
183_V	216_K	0.552	0.36
218_A	340_E	0.552	0.36
83_E	102_I	0.552	0.36
38_K	110_Y	0.551	0.36
322_S	330_T	0.545	0.35
53_V	93_T	0.545	0.35
323_I	330_T	0.544	0.35
159_V	200_T	0.544	0.35
242_G	246_E	0.543	0.35
158_I	189_T	0.541	0.35
279_P	292_N	0.540	0.35
96_P	247_M	0.540	0.35
156_E	233_K	0.539	0.35
287_A	294_A	0.538	0.34
96_P	170_K	0.536	0.34
337_S	344_L	0.535	0.34
335_K	340_E	0.535	0.34
165_V	342_N	0.535	0.34
183_V	340_E	0.534	0.34
115_A	138_N	0.533	0.34
297_G	310_K	0.532	0.34
52_V	161_T	0.531	0.34
265_L	341_T	0.530	0.34
143_E	172_S	0.529	0.34
84_G	93_T	0.528	0.34
281_D	288_R	0.527	0.33
183_V	209_A	0.527	0.33
220_L	296_F	0.527	0.33
318_K	322_S	0.527	0.33
171_A	190_N	0.526	0.33
161_T	202_D	0.524	0.33
189_T	230_F	0.523	0.33
128_E	260_K	0.523	0.33
56_V	102_I	0.522	0.33
22_G	40_Y	0.522	0.33
132_V	317_L	0.522	0.33
263_E	277_V	0.520	0.33
308_A	313_V	0.520	0.33
297_G	345_Y	0.519	0.33
317_L	321_D	0.519	0.33
55_A	266_F	0.519	0.33
138_N	145_E	0.518	0.33
115_A	187_L	0.518	0.33
24_P	183_V	0.516	0.32
34_E	201_F	0.516	0.32
98_L	317_L	0.515	0.32
235_M	238_K	0.515	0.32
189_T	273_S	0.515	0.32
141_W	146_Y	0.514	0.32
152_I	281_D	0.514	0.32
141_W	230_F	0.514	0.32
67_R	72_R	0.512	0.32
101_I	267_K	0.512	0.32
93_T	97_I	0.511	0.32
234_T	237_A	0.511	0.32
56_V	60_I	0.510	0.32
294_A	298_E	0.509	0.32
277_V	318_K	0.508	0.32
92_W	106_P	0.508	0.32
20_G	169_L	0.508	0.32
51_V	55_A	0.508	0.32
252_S	341_T	0.508	0.32
253_T	256_S	0.507	0.32
82_V	92_W	0.507	0.32
292_N	299_R	0.506	0.32
307_E	312_N	0.506	0.32
72_R	311_E	0.506	0.32
18_L	24_P	0.505	0.31
18_L	133_V	0.505	0.31
141_W	266_F	0.505	0.31
17_L	128_E	0.505	0.31
224_S	227_L	0.504	0.31
39_Q	331_G	0.504	0.31
133_V	167_F	0.502	0.31
161_T	183_V	0.501	0.31
233_K	246_E	0.501	0.31
37_D	41_D	0.501	0.31
60_I	79_P	0.500	0.31

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
2yevB	1	0.8708	100	0.354	Contact Map
1fftB	1	0.6713	100	0.461	Contact Map
3hb3B	1	0.6096	100	0.497	Contact Map
2gsmB	1	0.6124	100	0.524	Contact Map
1v54B	1	0.5787	100	0.556	Contact Map
4txvB	1	0.3567	100	0.652	Contact Map
1cyxA	1	0.382	100	0.665	Contact Map
3s8fB	1	0.4073	100	0.713	Contact Map
2cuaA	1	0.3371	100	0.785	Contact Map
3ziyA	3	0.6854	100	0.793	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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