GVPN2 - HALSA - GREMLIN Contacts

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GVPN2 - Gas vesicle protein GvpN 2

UniProt:	Q9HHS9	Sequences: MTDTSRNRKVRGSKIRSSRSDKRQSRGSEDKELKRLADARDTDSEQAGDRVGDAFIPDEQSFIETDAVARVTDRMRRWLSVDRPVHLIGPTGCGKTAVAMHVARTRDRPVVWVNGDADLTTSDLVGEYAETERISEHDQFIHNVVKRKDIVRDRWVDNPLTLAVQEGATLVYNEFSRTKPVANNVLLSVFEEGVLELPGKRGASRYVDVHPAFRTILTSNSVEYAGVHEPQDALLDRLVGLHMDFYDAETETAIVRAHVEAADVPVAAIVGMMRELRERLEITVGTRAAIMAAEGLTAADDPDADTVVDVCTDVLASKVSQRSDVEALRDVIEETLADRGVTLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	344 (264)
Sequences:	10928 (5861)
Seq/√Len:	360.7

ECOLI - YEHL
BACSU - YOJN
HALSA - GVPN2 GVPN1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
274_R	278_E	3.449	1.00
194_V	206_Y	3.447	1.00
273_M	276_L	3.405	1.00
247_D	250_T	3.336	1.00
256_R	277_R	3.331	1.00
57_P	60_Q	3.296	1.00
55_F	59_E	2.862	1.00
59_E	63_I	2.857	1.00
16_R	19_R	2.585	1.00
274_R	277_R	2.573	1.00
252_T	278_E	2.564	1.00
217_L	238_L	2.564	1.00
275_E	278_E	2.448	1.00
53_D	56_I	2.388	1.00
86_H	238_L	2.361	1.00
57_P	62_F	2.270	1.00
99_A	216_I	2.240	1.00
54_A	59_E	2.135	1.00
43_D	47_A	2.110	1.00
29_E	32_E	2.087	1.00
272_M	276_L	2.060	1.00
58_D	61_S	2.048	1.00
223_E	226_G	2.009	1.00
54_A	57_P	1.964	1.00
54_A	58_D	1.956	1.00
59_E	62_F	1.946	1.00
19_R	22_K	1.938	1.00
221_S	229_E	1.931	1.00
53_D	57_P	1.869	1.00
77_R	299_A	1.865	1.00
58_D	63_I	1.825	1.00
171_V	218_T	1.802	1.00
44_S	48_G	1.716	1.00
62_F	65_T	1.707	1.00
22_K	26_R	1.704	1.00
56_I	59_E	1.702	1.00
248_A	278_E	1.699	1.00
273_M	277_R	1.674	1.00
253_A	256_R	1.671	1.00
14_K	18_S	1.636	1.00
15_I	19_R	1.635	1.00
38_D	41_D	1.635	1.00
36_L	40_R	1.627	1.00
18_S	22_K	1.623	1.00
58_D	62_F	1.618	1.00
48_G	52_G	1.602	1.00
41_D	44_S	1.600	1.00
42_T	45_E	1.584	1.00
292_A	296_L	1.563	1.00
22_K	25_S	1.547	1.00
225_A	228_H	1.544	1.00
25_S	29_E	1.541	1.00
55_F	62_F	1.528	1.00
65_T	68_V	1.514	1.00
55_F	63_I	1.479	1.00
235_L	240_G	1.471	1.00
263_D	266_V	1.462	1.00
54_A	62_F	1.458	1.00
17_S	21_D	1.455	1.00
162_L	166_E	1.452	1.00
42_T	46_Q	1.418	1.00
109_P	167_G	1.400	1.00
26_R	29_E	1.399	1.00
41_D	45_E	1.394	1.00
29_E	33_L	1.390	1.00
55_F	58_D	1.383	1.00
33_L	37_A	1.382	1.00
15_I	18_S	1.364	1.00
253_A	257_A	1.359	1.00
40_R	44_S	1.322	1.00
64_E	68_V	1.322	1.00
57_P	61_S	1.322	1.00
19_R	23_R	1.322	1.00
30_D	34_K	1.305	1.00
78_W	81_V	1.304	1.00
221_S	226_G	1.303	1.00
56_I	60_Q	1.287	1.00
86_H	175_F	1.283	1.00
68_V	71_V	1.283	1.00
174_E	220_N	1.280	1.00
19_R	24_Q	1.279	1.00
258_H	290_I	1.275	1.00
64_E	67_A	1.271	1.00
192_E	195_L	1.267	1.00
86_H	226_G	1.267	1.00
24_Q	28_S	1.267	1.00
60_Q	63_I	1.264	1.00
252_T	256_R	1.261	1.00
54_A	63_I	1.255	1.00
120_T	123_D	1.250	1.00
88_I	219_S	1.245	1.00
14_K	17_S	1.243	1.00
16_R	20_S	1.239	1.00
45_E	48_G	1.233	1.00
54_A	61_S	1.231	1.00
49_D	52_G	1.229	1.00
27_G	32_E	1.198	1.00
28_S	37_A	1.179	1.00
189_V	195_L	1.169	1.00
43_D	51_V	1.168	1.00
15_I	20_S	1.166	1.00
37_A	41_D	1.153	1.00
111_V	168_A	1.150	1.00
24_Q	29_E	1.149	1.00
74_R	77_R	1.148	1.00
14_K	20_S	1.146	1.00
161_T	164_V	1.143	1.00
38_D	42_T	1.131	1.00
40_R	43_D	1.129	1.00
261_A	293_A	1.127	1.00
28_S	33_L	1.127	1.00
24_Q	27_G	1.121	1.00
61_S	64_E	1.119	1.00
34_K	38_D	1.118	1.00
196_E	200_K	1.107	1.00
25_S	32_E	1.092	1.00
28_S	32_E	1.087	1.00
44_S	47_A	1.085	1.00
36_L	43_D	1.074	1.00
197_L	200_K	1.074	1.00
103_A	110_V	1.069	1.00
23_R	27_G	1.058	1.00
41_D	48_G	1.058	1.00
250_T	253_A	1.058	1.00
87_L	243_M	1.054	1.00
38_D	45_E	1.050	1.00
32_E	37_A	1.044	1.00
37_A	48_G	1.043	1.00
73_D	77_R	1.039	1.00
20_S	24_Q	1.039	1.00
249_E	252_T	1.033	1.00
244_D	250_T	1.033	1.00
20_S	23_R	1.033	1.00
163_A	167_G	1.029	1.00
175_F	217_L	1.021	1.00
68_V	75_M	1.017	1.00
45_E	52_G	1.013	1.00
272_M	277_R	1.012	1.00
65_T	69_A	1.003	1.00
67_A	79_L	1.001	1.00
37_A	43_D	0.992	1.00
46_Q	50_R	0.981	1.00
35_R	38_D	0.977	1.00
63_I	66_D	0.977	1.00
33_L	36_L	0.975	1.00
28_S	42_T	0.960	1.00
110_V	169_T	0.951	1.00
33_L	48_G	0.941	1.00
271_G	275_E	0.938	1.00
37_A	45_E	0.936	1.00
35_R	39_A	0.935	1.00
18_S	21_D	0.930	1.00
32_E	36_L	0.928	1.00
21_D	25_S	0.924	1.00
54_A	60_Q	0.917	1.00
255_V	289_A	0.915	1.00
25_S	36_L	0.909	1.00
33_L	44_S	0.909	1.00
32_E	39_A	0.905	1.00
41_D	46_Q	0.901	1.00
36_L	44_S	0.899	1.00
226_G	235_L	0.899	1.00
70_R	74_R	0.898	1.00
186_L	189_V	0.898	1.00
26_R	49_D	0.896	1.00
36_L	42_T	0.888	1.00
77_R	80_S	0.887	1.00
96_T	173_N	0.885	1.00
30_D	33_L	0.884	1.00
101_H	104_R	0.880	1.00
14_K	19_R	0.877	1.00
33_L	40_R	0.876	1.00
252_T	274_R	0.875	1.00
35_R	46_Q	0.873	1.00
75_M	78_W	0.871	1.00
35_R	40_R	0.870	1.00
290_I	294_E	0.870	1.00
16_R	21_D	0.870	1.00
15_I	22_K	0.870	1.00
33_L	42_T	0.868	1.00
16_R	22_K	0.866	1.00
272_M	275_E	0.862	1.00
26_R	40_R	0.859	1.00
56_I	61_S	0.859	1.00
32_E	40_R	0.858	1.00
73_D	76_R	0.857	1.00
22_K	32_E	0.857	1.00
32_E	35_R	0.853	1.00
17_S	29_E	0.849	1.00
39_A	42_T	0.847	1.00
42_T	47_A	0.839	1.00
161_T	207_V	0.838	1.00
37_A	44_S	0.838	1.00
42_T	48_G	0.837	1.00
37_A	40_R	0.834	1.00
56_I	63_I	0.834	1.00
54_A	105_T	0.824	1.00
195_L	198_P	0.819	1.00
42_T	49_D	0.819	1.00
224_Y	228_H	0.817	1.00
34_K	37_A	0.815	1.00
28_S	36_L	0.810	1.00
69_A	250_T	0.809	1.00
19_R	26_R	0.809	1.00
118_D	159_P	0.805	1.00
15_I	21_D	0.798	1.00
76_R	79_L	0.793	1.00
17_S	23_R	0.785	1.00
20_S	27_G	0.785	1.00
233_A	237_R	0.782	1.00
67_A	71_V	0.782	1.00
65_T	75_M	0.781	1.00
67_A	70_R	0.781	1.00
23_R	30_D	0.779	1.00
224_Y	227_V	0.779	1.00
72_T	98_V	0.771	1.00
28_S	35_R	0.771	1.00
266_V	269_I	0.769	1.00
57_P	63_I	0.768	1.00
68_V	74_R	0.767	1.00
259_V	262_A	0.764	1.00
68_V	72_T	0.762	1.00
184_N	187_L	0.761	1.00
53_D	58_D	0.760	1.00
164_V	167_G	0.758	1.00
76_R	80_S	0.757	1.00
106_R	214_R	0.749	1.00
23_R	26_R	0.748	1.00
40_R	46_Q	0.747	1.00
44_S	52_G	0.743	1.00
39_A	49_D	0.742	1.00
15_I	24_Q	0.740	1.00
18_S	26_R	0.738	1.00
46_Q	52_G	0.734	1.00
248_A	252_T	0.734	1.00
15_I	28_S	0.733	1.00
163_A	170_L	0.732	1.00
45_E	50_R	0.730	1.00
38_D	43_D	0.730	1.00
40_R	48_G	0.730	1.00
56_I	62_F	0.728	1.00
24_Q	32_E	0.724	1.00
43_D	46_Q	0.722	1.00
71_V	243_M	0.721	0.99
21_D	24_Q	0.720	0.99
25_S	30_D	0.720	0.99
120_T	128_Y	0.717	0.99
185_V	189_V	0.716	0.99
16_R	24_Q	0.715	0.99
18_S	24_Q	0.714	0.99
223_E	242_H	0.712	0.99
43_D	48_G	0.712	0.99
33_L	43_D	0.709	0.99
296_L	300_D	0.708	0.99
19_R	25_S	0.706	0.99
75_M	79_L	0.706	0.99
26_R	32_E	0.705	0.99
14_K	25_S	0.705	0.99
251_E	280_L	0.701	0.99
38_D	48_G	0.700	0.99
37_A	42_T	0.699	0.99
69_A	73_D	0.699	0.99
40_R	49_D	0.695	0.99
45_E	49_D	0.691	0.99
267_A	270_V	0.689	0.99
39_A	46_Q	0.684	0.99
265_P	268_A	0.683	0.99
31_K	34_K	0.682	0.99
279_R	292_A	0.680	0.99
65_T	71_V	0.679	0.99
28_S	41_D	0.678	0.99
32_E	38_D	0.677	0.99
36_L	48_G	0.676	0.99
59_E	69_A	0.674	0.99
34_K	42_T	0.673	0.99
28_S	40_R	0.671	0.99
38_D	44_S	0.669	0.99
248_A	274_R	0.669	0.99
55_F	61_S	0.668	0.99
74_R	241_L	0.667	0.99
72_T	75_M	0.665	0.99
159_P	163_A	0.664	0.99
264_V	268_A	0.664	0.99
15_I	23_R	0.660	0.99
35_R	42_T	0.659	0.99
22_K	29_E	0.659	0.99
14_K	21_D	0.657	0.99
259_V	293_A	0.657	0.99
21_D	29_E	0.657	0.99
29_E	40_R	0.657	0.99
28_S	43_D	0.656	0.99
266_V	273_M	0.655	0.99
27_G	39_A	0.654	0.99
31_K	36_L	0.653	0.99
36_L	45_E	0.651	0.99
86_H	217_L	0.650	0.99
162_L	165_Q	0.642	0.99
17_S	20_S	0.641	0.99
184_N	231_Q	0.641	0.99
69_A	78_W	0.638	0.99
36_L	51_V	0.633	0.99
74_R	81_V	0.633	0.99
42_T	51_V	0.631	0.99
41_D	52_G	0.628	0.99
31_K	40_R	0.628	0.99
22_K	33_L	0.628	0.99
221_S	228_H	0.627	0.99
20_S	33_L	0.625	0.99
32_E	44_S	0.620	0.98
22_K	27_G	0.620	0.98
119_L	184_N	0.617	0.98
40_R	51_V	0.617	0.98
271_G	274_R	0.615	0.98
15_I	26_R	0.613	0.98
29_E	37_A	0.611	0.98
39_A	48_G	0.611	0.98
42_T	50_R	0.609	0.98
68_V	76_R	0.607	0.98
28_S	38_D	0.606	0.98
191_E	290_I	0.605	0.98
164_V	213_F	0.605	0.98
27_G	35_R	0.604	0.98
16_R	29_E	0.604	0.98
125_V	185_V	0.596	0.98
18_S	25_S	0.596	0.98
29_E	36_L	0.592	0.98
298_A	302_P	0.592	0.98
17_S	22_K	0.590	0.98
28_S	44_S	0.587	0.98
113_V	172_Y	0.587	0.98
36_L	41_D	0.586	0.98
170_L	215_T	0.586	0.98
272_M	278_E	0.583	0.98
33_L	41_D	0.582	0.98
29_E	45_E	0.581	0.98
29_E	41_D	0.581	0.98
27_G	31_K	0.581	0.98
21_D	27_G	0.580	0.98
78_W	85_V	0.580	0.98
74_R	79_L	0.580	0.98
34_K	48_G	0.580	0.98
199_G	205_R	0.578	0.98
178_T	186_L	0.570	0.97
22_K	35_R	0.569	0.97
20_S	31_K	0.566	0.97
65_T	74_R	0.566	0.97
21_D	28_S	0.565	0.97
196_E	206_Y	0.565	0.97
16_R	32_E	0.565	0.97
269_I	273_M	0.563	0.97
68_V	78_W	0.563	0.97
34_K	45_E	0.563	0.97
122_S	125_V	0.560	0.97
189_V	215_T	0.559	0.97
64_E	69_A	0.558	0.97
164_V	209_V	0.557	0.97
24_Q	33_L	0.557	0.97
88_I	240_G	0.557	0.97
14_K	24_Q	0.556	0.97
21_D	26_R	0.555	0.97
32_E	42_T	0.555	0.97
252_T	277_R	0.553	0.97
271_G	277_R	0.549	0.97
76_R	82_D	0.549	0.97
34_K	40_R	0.549	0.97
22_K	28_S	0.548	0.97
75_M	81_V	0.547	0.97
24_Q	37_A	0.546	0.97
27_G	30_D	0.546	0.97
20_S	25_S	0.543	0.97
19_R	32_E	0.542	0.96
25_S	28_S	0.535	0.96
34_K	41_D	0.534	0.96
97_A	101_H	0.534	0.96
256_R	259_V	0.534	0.96
15_I	32_E	0.532	0.96
23_R	35_R	0.532	0.96
48_G	51_V	0.531	0.96
33_L	51_V	0.529	0.96
21_D	46_Q	0.527	0.96
37_A	52_G	0.525	0.96
42_T	52_G	0.525	0.96
32_E	41_D	0.521	0.96
39_A	43_D	0.519	0.96
89_G	95_K	0.517	0.95
66_D	75_M	0.512	0.95
22_K	40_R	0.510	0.95
21_D	39_A	0.508	0.95
269_I	272_M	0.508	0.95
19_R	29_E	0.507	0.95
40_R	47_A	0.505	0.95
68_V	77_R	0.503	0.95
25_S	51_V	0.503	0.95
26_R	30_D	0.503	0.95
64_E	104_R	0.500	0.95
119_L	185_V	0.500	0.95

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
4rh7A	1	0.8808	100	0.438	Contact Map
3vkgA	2	0.9244	100	0.472	Contact Map
4akgA	2	0.8924	100	0.482	Contact Map
2r44A	1	0.8169	99.9	0.602	Contact Map
1r6bX	1	0.8895	99.9	0.64	Contact Map
1qvrA	3	0.8488	99.9	0.657	Contact Map
3ja86	1	0.782	99.9	0.661	Contact Map
3pxiA	3	0.7878	99.9	0.662	Contact Map
4d2uA	3	0.8488	99.9	0.663	Contact Map
1ofhA	3	0.75	99.9	0.668	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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