Q7LY06 - SULSO - GREMLIN Contacts

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Q7LY06 - Hydrogenase expression/formation protein (HypE)

UniProt:	Q7LY06	Sequences: MYSLYKSLTSTITLVIYANYFIIVNVNFGKVPINKFIYNLPIGDCLTCPSIGEDAAVLEAKDKYLIVHSDPITEAKSDSGFLSIAVACNDINMKGAQCRWVNSIILLSDISHLNATISAISEACNLIGCKVVGGHTEVSDKVKQDIIITTAIGVSNKFLSYKNVKEGMKVVLVGSPGIEGTWILAKDYDQLLLEKGISREIIEKAKEFKKDIVVQPKALSILDYVVAMHDATEGGIMQAMLEVAKASGYTVSINLDKIVLRRETKIITKALNIDPLRLISSGSFIAVSNTPEKILERISEAYIIGEIKRGDPVLEIKGVGTFNQDFEEELVKFESNYLGWGKG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	343 (281)
Sequences:	13579 (8847)
Seq/√Len:	527.7

ECOLI - HYPE SELD THIL
BACSU - THIL PURL
HALSA - Q9HSM1 THIL PURL Q9HHP1
SULSO - Q7LY06 Q97VC5 Q980P9 PURL

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
169_K	303_I	3.393	1.00
252_S	306_E	3.311	1.00
252_S	308_K	3.202	1.00
166_E	309_R	2.761	1.00
254_N	257_K	2.586	1.00
290_T	293_K	2.559	1.00
168_M	226_V	2.557	1.00
115_A	118_S	2.494	1.00
288_S	294_I	2.489	1.00
171_V	303_I	2.464	1.00
169_K	306_E	2.453	1.00
77_S	115_A	2.390	1.00
77_S	122_E	2.366	1.00
170_V	287_V	2.336	1.00
244_A	251_V	2.326	1.00
249_Y	307_I	2.288	1.00
171_V	301_A	2.189	1.00
240_M	251_V	2.115	1.00
121_S	125_N	2.100	1.00
171_V	295_L	2.091	1.00
250_T	308_K	2.079	1.00
66_I	96_A	2.063	1.00
240_M	253_I	2.058	1.00
292_E	296_E	2.050	1.00
77_S	118_S	2.039	1.00
291_P	295_L	1.972	1.00
170_V	251_V	1.931	1.00
169_K	291_P	1.924	1.00
166_E	249_Y	1.914	1.00
250_T	310_G	1.912	1.00
87_A	151_A	1.857	1.00
224_Y	290_T	1.847	1.00
243_V	287_V	1.831	1.00
122_E	125_N	1.808	1.00
76_K	145_D	1.803	1.00
293_K	296_E	1.743	1.00
291_P	303_I	1.736	1.00
99_R	154_V	1.735	1.00
81_F	123_A	1.731	1.00
295_L	301_A	1.704	1.00
171_V	288_S	1.678	1.00
57_V	66_I	1.669	1.00
303_I	306_E	1.652	1.00
63_K	154_V	1.629	1.00
62_D	156_N	1.627	1.00
252_S	316_I	1.624	1.00
122_E	126_L	1.613	1.00
252_S	314_L	1.609	1.00
178_I	186_K	1.596	1.00
33_I	37_I	1.589	1.00
205_A	208_F	1.571	1.00
226_V	287_V	1.556	1.00
68_H	151_A	1.546	1.00
207_E	210_K	1.536	1.00
164_V	227_A	1.535	1.00
222_L	297_R	1.533	1.00
251_V	307_I	1.511	1.00
91_I	151_A	1.508	1.00
78_D	81_F	1.504	1.00
208_F	211_D	1.498	1.00
227_A	243_V	1.498	1.00
103_S	120_I	1.486	1.00
293_K	297_R	1.463	1.00
165_K	226_V	1.460	1.00
279_I	282_G	1.459	1.00
118_S	122_E	1.457	1.00
105_I	113_L	1.445	1.00
207_E	211_D	1.435	1.00
55_A	94_K	1.416	1.00
91_I	96_A	1.409	1.00
164_V	307_I	1.395	1.00
102_N	133_G	1.394	1.00
206_K	209_K	1.391	1.00
48_C	64_Y	1.383	1.00
171_V	291_P	1.381	1.00
292_E	295_L	1.379	1.00
159_L	228_M	1.367	1.00
204_K	211_D	1.362	1.00
231_A	285_I	1.349	1.00
56_A	132_V	1.349	1.00
228_M	284_F	1.344	1.00
288_S	291_P	1.341	1.00
93_M	228_M	1.336	1.00
178_I	261_R	1.313	1.00
84_I	120_I	1.309	1.00
78_D	119_A	1.303	1.00
123_A	126_L	1.299	1.00
164_V	287_V	1.298	1.00
228_M	286_A	1.294	1.00
276_L	281_S	1.289	1.00
208_F	212_I	1.284	1.00
32_P	36_F	1.276	1.00
294_I	298_I	1.275	1.00
310_G	314_L	1.269	1.00
205_A	209_K	1.264	1.00
295_L	303_I	1.260	1.00
254_N	306_E	1.257	1.00
175_S	178_I	1.256	1.00
107_L	113_L	1.256	1.00
295_L	299_S	1.250	1.00
71_P	76_K	1.249	1.00
198_S	201_I	1.248	1.00
155_S	158_F	1.241	1.00
170_V	285_I	1.241	1.00
231_A	239_A	1.235	1.00
168_M	307_I	1.234	1.00
169_K	288_S	1.233	1.00
67_V	102_N	1.232	1.00
69_S	150_T	1.228	1.00
81_F	126_L	1.215	1.00
106_L	139_S	1.210	1.00
250_T	311_D	1.204	1.00
34_N	37_I	1.197	1.00
240_M	285_I	1.191	1.00
287_V	307_I	1.184	1.00
71_P	74_E	1.172	1.00
204_K	208_F	1.166	1.00
275_P	279_I	1.162	1.00
171_V	294_I	1.162	1.00
206_K	210_K	1.159	1.00
250_T	313_V	1.158	1.00
160_S	163_N	1.152	1.00
83_S	147_I	1.151	1.00
176_P	179_E	1.150	1.00
64_Y	158_F	1.149	1.00
124_C	131_V	1.148	1.00
197_I	200_E	1.135	1.00
88_C	151_A	1.134	1.00
102_N	150_T	1.130	1.00
85_A	123_A	1.130	1.00
67_V	152_I	1.123	1.00
160_S	164_V	1.119	1.00
101_V	151_A	1.114	1.00
163_N	226_V	1.112	1.00
69_S	104_I	1.111	1.00
37_I	40_L	1.108	1.00
55_A	66_I	1.107	1.00
88_C	129_C	1.104	1.00
68_H	91_I	1.103	1.00
100_W	132_V	1.067	1.00
64_Y	155_S	1.063	1.00
164_V	243_V	1.049	1.00
229_H	242_E	1.049	1.00
111_S	115_A	1.048	1.00
97_Q	221_I	1.043	1.00
139_S	146_I	1.041	1.00
298_I	301_A	1.036	1.00
57_V	158_F	1.036	1.00
71_P	144_Q	1.034	1.00
218_A	222_L	1.034	1.00
45_C	48_C	1.024	1.00
84_I	101_V	1.024	1.00
277_R	280_S	1.017	1.00
66_I	91_I	1.010	1.00
127_I	214_V	1.009	1.00
260_L	265_K	1.003	1.00
31_V	35_K	0.997	1.00
84_I	124_C	0.997	1.00
196_G	199_R	0.997	1.00
296_E	299_S	0.996	1.00
204_K	207_E	0.990	1.00
73_T	205_A	0.977	1.00
218_A	221_I	0.972	1.00
236_I	285_I	0.971	1.00
60_A	154_V	0.970	1.00
168_M	287_V	0.968	1.00
259_V	302_Y	0.964	1.00
222_L	293_K	0.954	1.00
107_L	116_T	0.947	1.00
81_F	122_E	0.940	1.00
227_A	287_V	0.939	1.00
173_V	217_K	0.937	1.00
100_W	152_I	0.929	1.00
201_I	204_K	0.927	1.00
81_F	85_A	0.926	1.00
202_I	205_A	0.917	1.00
82_L	281_S	0.917	1.00
53_E	94_K	0.916	1.00
166_E	169_K	0.915	1.00
104_I	148_I	0.901	1.00
80_G	116_T	0.899	1.00
240_M	244_A	0.897	1.00
39_N	125_N	0.896	1.00
113_L	138_V	0.895	1.00
101_V	149_T	0.890	1.00
164_V	247_S	0.883	1.00
75_A	78_D	0.879	1.00
157_K	223_D	0.871	1.00
157_K	221_I	0.866	1.00
67_V	150_T	0.864	1.00
277_R	282_G	0.862	1.00
54_D	229_H	0.860	1.00
96_A	155_S	0.860	1.00
46_L	49_P	0.852	1.00
294_I	297_R	0.852	1.00
100_W	130_K	0.851	1.00
30_K	33_I	0.848	1.00
206_K	211_D	0.844	1.00
97_Q	128_G	0.844	1.00
274_D	277_R	0.844	1.00
32_P	35_K	0.844	1.00
199_R	202_I	0.843	1.00
80_G	119_A	0.842	1.00
41_P	44_D	0.841	1.00
274_D	278_L	0.837	1.00
76_K	112_H	0.836	1.00
170_V	307_I	0.836	1.00
120_I	149_T	0.836	1.00
212_I	215_Q	0.830	1.00
199_R	203_E	0.828	1.00
167_G	306_E	0.826	1.00
239_A	285_I	0.826	1.00
200_E	203_E	0.825	1.00
220_S	223_D	0.823	1.00
268_T	275_P	0.820	1.00
265_K	269_K	0.818	1.00
33_I	36_F	0.816	1.00
210_K	213_V	0.816	1.00
116_T	120_I	0.814	1.00
244_A	307_I	0.813	1.00
166_E	308_K	0.813	1.00
275_P	280_S	0.807	1.00
278_L	282_G	0.806	1.00
59_E	64_Y	0.803	1.00
73_T	76_K	0.798	1.00
277_R	281_S	0.792	1.00
286_A	294_I	0.790	1.00
179_E	280_S	0.790	1.00
124_C	129_C	0.788	1.00
80_G	120_I	0.787	1.00
71_P	75_A	0.782	1.00
275_P	278_L	0.779	1.00
229_H	285_I	0.776	1.00
38_Y	41_P	0.773	1.00
254_N	316_I	0.772	1.00
59_E	62_D	0.768	1.00
274_D	280_S	0.768	1.00
252_S	255_L	0.765	1.00
83_S	149_T	0.764	1.00
84_I	88_C	0.764	1.00
72_I	75_A	0.755	1.00
173_V	284_F	0.752	1.00
278_L	281_S	0.751	1.00
57_V	94_K	0.750	1.00
313_V	316_I	0.749	1.00
216_P	220_S	0.743	1.00
310_G	313_V	0.739	1.00
53_E	161_Y	0.738	1.00
71_P	82_L	0.738	1.00
223_D	297_R	0.735	1.00
203_E	206_K	0.735	1.00
259_V	265_K	0.732	1.00
34_N	38_Y	0.731	1.00
292_E	303_I	0.730	1.00
174_G	300_E	0.730	1.00
186_K	189_D	0.730	1.00
250_T	312_P	0.726	1.00
97_Q	154_V	0.722	1.00
274_D	279_I	0.720	1.00
197_I	203_E	0.719	1.00
204_K	209_K	0.718	1.00
184_L	187_D	0.717	1.00
88_C	123_A	0.716	1.00
161_Y	164_V	0.716	1.00
266_I	269_K	0.715	1.00
66_I	155_S	0.713	1.00
244_A	313_V	0.713	1.00
276_L	279_I	0.712	1.00
236_I	240_M	0.710	1.00
219_L	294_I	0.710	1.00
116_T	147_I	0.709	1.00
58_L	100_W	0.708	1.00
159_L	163_N	0.705	1.00
159_L	225_V	0.705	1.00
231_A	236_I	0.704	1.00
105_I	147_I	0.704	1.00
106_L	137_E	0.701	1.00
40_L	43_G	0.701	1.00
202_I	208_F	0.700	1.00
159_L	220_S	0.697	1.00
101_V	120_I	0.695	1.00
114_N	118_S	0.693	1.00
173_V	286_A	0.693	1.00
238_Q	277_R	0.692	1.00
44_D	59_E	0.691	1.00
57_V	64_Y	0.691	1.00
292_E	299_S	0.691	1.00
185_A	189_D	0.688	1.00
101_V	124_C	0.683	1.00
280_S	283_S	0.679	1.00
34_N	40_L	0.677	1.00
216_P	219_L	0.675	1.00
248_G	310_G	0.671	1.00
69_S	102_N	0.666	1.00
77_S	119_A	0.664	1.00
291_P	294_I	0.663	1.00
88_C	127_I	0.662	1.00
69_S	148_I	0.662	1.00
175_S	179_E	0.661	1.00
217_K	221_I	0.661	1.00
219_L	223_D	0.658	1.00
37_I	41_P	0.658	1.00
224_Y	293_K	0.649	1.00
33_I	40_L	0.645	1.00
35_K	38_Y	0.644	1.00
209_K	212_I	0.644	1.00
93_M	284_F	0.642	1.00
244_A	247_S	0.640	1.00
109_D	138_V	0.640	1.00
79_S	116_T	0.638	1.00
224_Y	297_R	0.637	1.00
36_F	39_N	0.637	1.00
35_K	39_N	0.635	1.00
230_D	242_E	0.635	1.00
231_A	283_S	0.631	1.00
212_I	216_P	0.622	1.00
174_G	302_Y	0.622	1.00
172_L	259_V	0.622	1.00
173_V	298_I	0.621	1.00
54_D	230_D	0.620	1.00
67_V	100_W	0.617	1.00
275_P	281_S	0.616	1.00
255_L	276_L	0.615	1.00
49_P	160_S	0.614	1.00
209_K	213_V	0.614	1.00
196_G	201_I	0.613	1.00
257_K	302_Y	0.613	1.00
120_I	147_I	0.613	1.00
165_K	168_M	0.612	1.00
276_L	280_S	0.612	1.00
106_L	146_I	0.610	1.00
164_V	226_V	0.609	1.00
174_G	179_E	0.608	1.00
205_A	211_D	0.608	1.00
35_K	40_L	0.608	1.00
101_V	131_V	0.607	1.00
42_I	58_L	0.605	1.00
197_I	202_I	0.603	1.00
61_K	156_N	0.599	1.00
118_S	121_S	0.599	1.00
217_K	220_S	0.598	1.00
60_A	63_K	0.597	1.00
169_K	289_N	0.597	1.00
84_I	123_A	0.596	1.00
64_Y	156_N	0.596	1.00
37_I	43_G	0.595	1.00
44_D	58_L	0.592	0.99
161_Y	246_A	0.591	0.99
112_H	116_T	0.591	0.99
238_Q	242_E	0.590	0.99
215_Q	218_A	0.585	0.99
196_G	200_E	0.584	0.99
163_N	170_V	0.583	0.99
68_H	87_A	0.582	0.99
266_I	270_A	0.582	0.99
262_R	265_K	0.581	0.99
30_K	34_N	0.579	0.99
158_F	161_Y	0.578	0.99
224_Y	294_I	0.578	0.99
78_D	210_K	0.577	0.99
72_I	76_K	0.576	0.99
140_D	144_Q	0.574	0.99
170_V	174_G	0.572	0.99
172_L	176_P	0.572	0.99
204_K	210_K	0.571	0.99
31_V	34_N	0.568	0.99
164_V	249_Y	0.568	0.99
171_V	286_A	0.566	0.99
202_I	207_E	0.566	0.99
110_I	113_L	0.565	0.99
221_I	224_Y	0.565	0.99
87_A	149_T	0.563	0.99
32_P	40_L	0.558	0.99
185_A	188_Y	0.558	0.99
197_I	201_I	0.557	0.99
112_H	115_A	0.556	0.99
32_P	37_I	0.554	0.99
223_D	294_I	0.553	0.99
202_I	210_K	0.552	0.99
295_L	298_I	0.551	0.99
274_D	281_S	0.549	0.99
90_D	230_D	0.549	0.99
244_A	250_T	0.546	0.99
203_E	207_E	0.544	0.99
162_K	246_A	0.543	0.99
111_S	114_N	0.541	0.99
275_P	282_G	0.541	0.99
55_A	68_H	0.541	0.99
64_Y	67_V	0.539	0.99
103_S	117_I	0.539	0.99
211_D	215_Q	0.539	0.99
75_A	206_K	0.538	0.99
249_Y	309_R	0.536	0.99
170_V	243_V	0.536	0.99
30_K	37_I	0.534	0.99
181_T	233_E	0.533	0.99
182_W	185_A	0.529	0.99
198_S	202_I	0.529	0.99
180_G	183_I	0.529	0.99
183_I	187_D	0.525	0.99
126_L	214_V	0.524	0.99
175_S	300_E	0.524	0.99
207_E	212_I	0.524	0.99
276_L	282_G	0.523	0.99
238_Q	241_L	0.523	0.99
112_H	143_K	0.522	0.99
36_F	40_L	0.522	0.99
32_P	39_N	0.521	0.99
220_S	224_Y	0.521	0.99
48_C	59_E	0.517	0.99
205_A	212_I	0.517	0.99
120_I	131_V	0.516	0.99
170_V	253_I	0.516	0.99
239_A	242_E	0.512	0.99
179_E	182_W	0.510	0.98
259_V	300_E	0.510	0.98
63_K	67_V	0.509	0.98
139_S	144_Q	0.507	0.98
241_L	313_V	0.506	0.98
158_F	163_N	0.505	0.98
39_N	114_N	0.502	0.98
178_I	183_I	0.500	0.98

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
3fd5A	2	0.9038	100	0.335	Contact Map
3viuA	1	0.9096	100	0.348	Contact Map
3wjpA	2	0.9038	100	0.354	Contact Map
1vk3A	1	0.9009	100	0.359	Contact Map
4lgyA	1	0.93	100	0.366	Contact Map
2zodA	2	0.8251	100	0.368	Contact Map
2z1uA	2	0.8863	100	0.369	Contact Map
2rb9A	2	0.8659	100	0.372	Contact Map
3vtiC	2	0.8222	100	0.384	Contact Map
3u0oA	2	0.8484	100	0.387	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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