GVPN1 - HALSA - GREMLIN Contacts

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GVPN1 - Gas vesicle protein GvpN 1

UniProt:	Q9HI16	Sequences: MTNESRKRKVRGSQIRSSRGDKKQGRSQSRDDKEIERLERQNDARGQESSTHVDEGFVPEEQSFIETESVNRVESRMERWLDVGRPVHLIGPTGCGKTSLAMHVARERDRPVVWINGDAELTTSDLVGEYAEKERISEHDQFIHNVVKSKDIIRDRWVDNPLTLAVQEGATLVYNEFSRTKPVANNVLLSVFEEGVLELPGKRGKSRYVDVHPEFRTILTSNSVEYAGVHEPQDALLDRLIGIYMDFYDLDTEIEIVRAHVDKSADTNVEDIVRVLRELRERLDITVGTRAAIMANEGATTVDTVDQAVLTDICTDVLASKVAQRSDVRGLREEIESAIDDMEVALS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	347 (280)
Sequences:	7525 (4412)
Seq/√Len:	263.7

ECOLI - YEHL MCRB
BACSU - YOJN
HALSA - GVPN1 GVPN2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
276_L	279_L	4.422	1.00
249_D	252_T	2.783	1.00
35_I	38_L	2.561	1.00
219_L	240_L	2.372	1.00
18_S	22_K	2.331	1.00
196_V	208_Y	2.323	1.00
276_L	280_R	2.249	1.00
25_G	28_Q	2.189	1.00
17_S	35_I	2.145	1.00
24_Q	28_Q	2.114	1.00
26_R	30_R	2.113	1.00
277_R	280_R	2.050	1.00
199_L	202_K	2.012	1.00
19_R	23_K	1.978	1.00
18_S	21_D	1.968	1.00
195_G	199_L	1.967	1.00
280_R	283_L	1.960	1.00
57_F	60_E	1.938	1.00
278_E	281_E	1.937	1.00
25_G	35_I	1.926	1.00
20_G	25_G	1.878	1.00
163_T	166_V	1.875	1.00
45_R	49_S	1.870	1.00
258_R	280_R	1.864	1.00
101_A	218_I	1.864	1.00
27_S	31_D	1.864	1.00
255_E	259_A	1.864	1.00
59_P	62_Q	1.862	1.00
57_F	61_E	1.856	1.00
31_D	34_E	1.847	1.00
195_G	198_E	1.743	1.00
55_E	59_P	1.729	1.00
25_G	29_S	1.704	1.00
24_Q	35_I	1.704	1.00
38_L	41_Q	1.670	1.00
194_E	199_L	1.655	1.00
44_A	48_E	1.640	1.00
194_E	197_L	1.622	1.00
31_D	35_I	1.594	1.00
20_G	24_Q	1.538	1.00
279_L	283_L	1.533	1.00
27_S	30_R	1.515	1.00
28_Q	42_N	1.502	1.00
59_P	63_S	1.493	1.00
67_T	70_V	1.488	1.00
31_D	38_L	1.487	1.00
254_I	281_E	1.485	1.00
39_E	42_N	1.482	1.00
88_H	240_L	1.477	1.00
122_T	125_D	1.467	1.00
223_S	231_E	1.463	1.00
21_D	25_G	1.462	1.00
195_G	201_G	1.452	1.00
196_V	199_L	1.445	1.00
55_E	58_V	1.435	1.00
255_E	258_R	1.434	1.00
237_L	242_G	1.432	1.00
66_E	70_V	1.428	1.00
277_R	281_E	1.427	1.00
38_L	42_N	1.427	1.00
36_E	40_R	1.421	1.00
46_G	49_S	1.413	1.00
33_K	37_R	1.413	1.00
278_E	282_R	1.411	1.00
57_F	64_F	1.399	1.00
22_K	25_G	1.391	1.00
23_K	29_S	1.387	1.00
28_Q	35_I	1.380	1.00
250_L	281_E	1.377	1.00
37_R	40_R	1.370	1.00
166_V	169_G	1.359	1.00
19_R	36_E	1.359	1.00
105_A	112_V	1.358	1.00
17_S	21_D	1.351	1.00
35_I	43_D	1.348	1.00
260_H	263_K	1.344	1.00
35_I	41_Q	1.339	1.00
23_K	27_S	1.339	1.00
36_E	43_D	1.333	1.00
24_Q	27_S	1.317	1.00
165_A	172_L	1.314	1.00
17_S	24_Q	1.308	1.00
320_S	323_A	1.300	1.00
27_S	34_E	1.300	1.00
160_N	164_L	1.295	1.00
34_E	43_D	1.294	1.00
48_E	51_T	1.288	1.00
30_R	34_E	1.278	1.00
32_D	35_I	1.272	1.00
79_R	302_V	1.269	1.00
33_K	36_E	1.268	1.00
21_D	28_Q	1.268	1.00
55_E	60_E	1.264	1.00
39_E	43_D	1.256	1.00
28_Q	38_L	1.251	1.00
49_S	53_V	1.243	1.00
19_R	22_K	1.238	1.00
305_V	309_V	1.236	1.00
35_I	39_E	1.232	1.00
17_S	20_G	1.230	1.00
20_G	28_Q	1.229	1.00
275_V	279_L	1.227	1.00
18_S	25_G	1.216	1.00
29_S	33_K	1.214	1.00
28_Q	32_D	1.213	1.00
65_I	71_N	1.210	1.00
23_K	35_I	1.210	1.00
22_K	28_Q	1.205	1.00
44_A	47_Q	1.203	1.00
194_E	202_K	1.203	1.00
32_D	36_E	1.193	1.00
72_R	76_R	1.187	1.00
38_L	43_D	1.184	1.00
37_R	42_N	1.183	1.00
311_T	315_T	1.181	1.00
25_G	38_L	1.179	1.00
74_E	77_M	1.175	1.00
176_E	222_N	1.175	1.00
35_I	42_N	1.172	1.00
195_G	202_K	1.169	1.00
76_R	79_R	1.165	1.00
88_H	177_F	1.159	1.00
56_G	60_E	1.154	1.00
309_V	314_C	1.151	1.00
165_A	169_G	1.147	1.00
49_S	52_H	1.141	1.00
28_Q	33_K	1.141	1.00
293_I	297_E	1.135	1.00
163_T	209_V	1.124	1.00
161_P	165_A	1.123	1.00
319_A	322_V	1.104	1.00
40_R	43_D	1.100	1.00
34_E	42_N	1.100	1.00
74_E	79_R	1.096	1.00
309_V	313_I	1.094	1.00
26_R	29_S	1.093	1.00
29_S	42_N	1.092	1.00
18_S	29_S	1.085	1.00
18_S	38_L	1.084	1.00
32_D	37_R	1.084	1.00
30_R	33_K	1.080	1.00
36_E	41_Q	1.078	1.00
31_D	43_D	1.076	1.00
22_K	26_R	1.072	1.00
48_E	52_H	1.067	1.00
17_S	28_Q	1.064	1.00
36_E	39_E	1.064	1.00
197_L	201_G	1.060	1.00
23_K	34_E	1.058	1.00
58_V	61_E	1.056	1.00
270_E	273_V	1.054	1.00
173_V	220_T	1.054	1.00
318_L	322_V	1.052	1.00
55_E	62_Q	1.049	1.00
66_E	69_S	1.047	1.00
223_S	228_G	1.045	1.00
34_E	37_R	1.040	1.00
71_N	74_E	1.039	1.00
194_E	201_G	1.039	1.00
306_D	309_V	1.035	1.00
46_G	52_H	1.034	1.00
20_G	26_R	1.032	1.00
18_S	24_Q	1.029	1.00
54_D	57_F	1.028	1.00
73_V	76_R	1.019	1.00
30_R	38_L	1.016	1.00
316_D	320_S	1.011	1.00
34_E	40_R	1.010	1.00
25_G	32_D	1.009	1.00
22_K	40_R	1.008	1.00
23_K	26_R	1.006	1.00
27_S	41_Q	1.002	1.00
269_V	272_I	0.995	1.00
98_T	175_N	0.991	1.00
18_S	35_I	0.989	1.00
21_D	24_Q	0.978	1.00
36_E	42_N	0.975	1.00
56_G	59_P	0.972	1.00
29_S	36_E	0.971	1.00
17_S	25_G	0.962	1.00
164_L	167_Q	0.959	1.00
28_Q	34_E	0.958	1.00
274_R	278_E	0.957	1.00
45_R	48_E	0.952	1.00
44_A	51_T	0.951	1.00
180_T	188_L	0.950	1.00
159_D	163_T	0.945	1.00
70_V	73_V	0.944	1.00
299_A	303_D	0.939	1.00
20_G	23_K	0.938	1.00
18_S	28_Q	0.935	1.00
76_R	80_W	0.934	1.00
308_A	312_D	0.932	1.00
60_E	63_S	0.932	1.00
21_D	35_I	0.923	1.00
74_E	80_W	0.923	1.00
37_R	43_D	0.921	1.00
45_R	50_S	0.921	1.00
19_R	24_Q	0.921	1.00
277_R	283_L	0.915	1.00
319_A	323_A	0.915	1.00
22_K	27_S	0.912	1.00
24_Q	31_D	0.911	1.00
262_D	265_A	0.911	1.00
31_D	42_N	0.909	1.00
196_V	201_G	0.906	1.00
34_E	38_L	0.902	1.00
25_G	30_R	0.902	1.00
18_S	26_R	0.901	1.00
52_H	55_E	0.899	1.00
31_D	36_E	0.899	1.00
18_S	27_S	0.897	1.00
23_K	43_D	0.896	1.00
306_D	313_I	0.892	1.00
19_R	25_G	0.890	1.00
79_R	82_D	0.889	1.00
26_R	32_D	0.888	1.00
23_K	28_Q	0.886	1.00
25_G	36_E	0.884	1.00
317_V	320_S	0.875	1.00
27_S	42_N	0.874	1.00
315_T	319_A	0.874	1.00
19_R	27_S	0.873	1.00
64_F	67_T	0.868	1.00
17_S	22_K	0.862	1.00
308_A	315_T	0.861	1.00
19_R	34_E	0.846	0.99
315_T	318_L	0.842	0.99
65_I	70_V	0.842	0.99
304_T	307_Q	0.841	0.99
37_R	41_Q	0.837	0.99
73_V	79_R	0.834	0.99
19_R	32_D	0.833	0.99
23_K	38_L	0.827	0.99
275_V	280_R	0.822	0.99
55_E	64_F	0.819	0.99
29_S	35_I	0.815	0.99
60_E	64_F	0.813	0.99
34_E	39_E	0.807	0.99
23_K	36_E	0.807	0.99
160_N	163_T	0.806	0.99
24_Q	41_Q	0.805	0.99
26_R	33_K	0.798	0.99
22_K	36_E	0.798	0.99
73_V	77_M	0.797	0.99
22_K	43_D	0.795	0.99
80_W	87_V	0.792	0.99
21_D	39_E	0.791	0.99
32_D	39_E	0.790	0.99
34_E	41_Q	0.789	0.99
18_S	36_E	0.785	0.99
24_Q	38_L	0.782	0.99
19_R	29_S	0.781	0.99
198_E	202_K	0.778	0.99
21_D	27_S	0.775	0.99
260_H	293_I	0.774	0.99
27_S	36_E	0.774	0.99
276_L	283_L	0.773	0.99
160_N	165_A	0.772	0.99
48_E	55_E	0.767	0.99
20_G	27_S	0.765	0.99
71_N	75_S	0.764	0.99
26_R	42_N	0.762	0.99
24_Q	30_R	0.761	0.99
22_K	37_R	0.758	0.99
25_G	31_D	0.756	0.99
164_L	168_E	0.754	0.99
165_A	168_E	0.753	0.99
307_Q	317_V	0.752	0.99
295_A	299_A	0.750	0.99
46_G	50_S	0.750	0.99
28_Q	36_E	0.749	0.99
24_Q	33_K	0.748	0.99
197_L	200_P	0.744	0.99
71_N	252_T	0.742	0.99
266_D	269_V	0.742	0.99
27_S	35_I	0.740	0.99
111_P	169_G	0.736	0.99
159_D	164_L	0.734	0.99
25_G	33_K	0.730	0.99
23_K	31_D	0.729	0.99
19_R	28_Q	0.728	0.98
19_R	33_K	0.726	0.98
51_T	55_E	0.721	0.98
19_R	35_I	0.721	0.98
60_E	107_E	0.719	0.98
23_K	30_R	0.717	0.98
309_V	320_S	0.714	0.98
73_V	80_W	0.714	0.98
252_T	255_E	0.713	0.98
47_Q	51_T	0.711	0.98
62_Q	65_I	0.708	0.98
186_N	189_L	0.707	0.98
223_S	230_H	0.706	0.98
272_I	276_L	0.706	0.98
18_S	31_D	0.706	0.98
77_M	80_W	0.706	0.98
22_K	33_K	0.705	0.98
73_V	81_L	0.704	0.98
47_Q	50_S	0.703	0.98
76_R	82_D	0.703	0.98
27_S	38_L	0.701	0.98
22_K	29_S	0.701	0.98
46_G	53_V	0.700	0.98
27_S	43_D	0.698	0.98
314_C	320_S	0.698	0.98
103_H	106_R	0.697	0.98
73_V	78_E	0.696	0.98
159_D	165_A	0.696	0.98
30_R	37_R	0.696	0.98
21_D	42_N	0.694	0.98
112_V	171_T	0.688	0.98
75_S	79_R	0.686	0.98
18_S	23_K	0.683	0.98
194_E	198_E	0.680	0.98
29_S	32_D	0.674	0.98
27_S	32_D	0.674	0.98
78_E	82_D	0.671	0.97
29_S	38_L	0.663	0.97
21_D	32_D	0.662	0.97
59_P	64_F	0.662	0.97
235_A	239_R	0.661	0.97
19_R	31_D	0.658	0.97
195_G	200_P	0.651	0.97
45_R	53_V	0.649	0.97
55_E	63_S	0.645	0.97
20_G	35_I	0.645	0.97
33_K	43_D	0.644	0.97
306_D	320_S	0.643	0.97
26_R	35_I	0.642	0.97
45_R	51_T	0.637	0.97
17_S	41_Q	0.637	0.97
20_G	29_S	0.636	0.96
313_I	317_V	0.634	0.96
31_D	39_E	0.629	0.96
73_V	245_M	0.628	0.96
312_D	316_D	0.626	0.96
61_E	65_I	0.625	0.96
162_L	165_A	0.625	0.96
33_K	38_L	0.623	0.96
312_D	315_T	0.622	0.96
19_R	42_N	0.622	0.96
254_I	258_R	0.619	0.96
307_Q	310_L	0.614	0.96
57_F	62_Q	0.614	0.96
251_D	254_I	0.614	0.96
304_T	311_T	0.613	0.96
21_D	26_R	0.611	0.96
197_L	202_K	0.607	0.95
265_A	272_I	0.605	0.95
227_A	230_H	0.603	0.95
311_T	314_C	0.601	0.95
89_L	245_M	0.601	0.95
20_G	32_D	0.601	0.95
59_P	65_I	0.600	0.95
163_T	167_Q	0.598	0.95
309_V	315_T	0.595	0.95
18_S	41_Q	0.594	0.95
177_F	219_L	0.591	0.95
17_S	34_E	0.589	0.95
161_P	169_G	0.587	0.95
25_G	42_N	0.584	0.94
32_D	40_R	0.584	0.94
44_A	49_S	0.582	0.94
58_V	62_Q	0.581	0.94
26_R	36_E	0.579	0.94
194_E	200_P	0.575	0.94
29_S	43_D	0.574	0.94
75_S	78_E	0.573	0.94
27_S	37_R	0.571	0.94
19_R	39_E	0.570	0.94
69_S	73_V	0.568	0.94
30_R	35_I	0.568	0.94
23_K	33_K	0.566	0.93
310_L	313_I	0.563	0.93
196_V	202_K	0.563	0.93
78_E	81_L	0.560	0.93
65_I	69_S	0.558	0.93
29_S	37_R	0.558	0.93
24_Q	42_N	0.557	0.93
17_S	38_L	0.557	0.93
26_R	38_L	0.557	0.93
161_P	168_E	0.556	0.93
90_I	242_G	0.552	0.93
17_S	29_S	0.551	0.92
315_T	322_V	0.551	0.92
120_E	161_P	0.548	0.92
23_K	40_R	0.547	0.92
186_N	233_Q	0.546	0.92
76_R	83_V	0.546	0.92
21_D	36_E	0.545	0.92
30_R	41_Q	0.545	0.92
79_R	83_V	0.545	0.92
63_S	70_V	0.543	0.92
32_D	43_D	0.541	0.92
20_G	33_K	0.539	0.92
30_R	42_N	0.538	0.92
129_E	174_Y	0.537	0.92
60_E	65_I	0.534	0.91
80_W	83_V	0.533	0.91
53_V	56_G	0.529	0.91
22_K	32_D	0.528	0.91
47_Q	53_V	0.527	0.91
267_T	270_E	0.526	0.91
23_K	37_R	0.524	0.91
309_V	318_L	0.522	0.90
159_D	169_G	0.520	0.90
25_G	34_E	0.520	0.90
19_R	40_R	0.519	0.90
50_S	53_V	0.515	0.90
30_R	36_E	0.513	0.90
22_K	31_D	0.512	0.90
161_P	164_L	0.511	0.89
265_A	276_L	0.509	0.89
318_L	321_K	0.509	0.89
22_K	41_Q	0.507	0.89
51_T	54_D	0.506	0.89
18_S	40_R	0.505	0.89
268_N	272_I	0.504	0.89
311_T	319_A	0.500	0.88

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
4akgA	2	0.902	100	0.314	Contact Map
3vkgA	2	0.8818	100	0.324	Contact Map
4rh7A	1	0.9337	100	0.465	Contact Map
2r44A	1	0.8127	99.9	0.615	Contact Map
1r6bX	1	0.8876	99.9	0.651	Contact Map
3ja86	1	0.7839	99.8	0.674	Contact Map
3ja87	1	0.8386	99.8	0.674	Contact Map
3pxiA	3	0.8213	99.8	0.676	Contact Map
4r7yA	3	0.8617	99.8	0.677	Contact Map
1qvrA	3	0.8213	99.8	0.678	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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