Q9HMU9 - HALSA - GREMLIN Contacts

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Q9HMU9 - Nitrite/nitrate reduction protein

UniProt:	Q9HMU9	Sequences: MSWAAIARKDFSDAVRSKALWALTALFVVFMLGAAAGYGYFFDTTTAVDLLDLLSGPVNFLIPITALLATIHSISGELESGTSKLLLSLPHTRRDVVIGKIVGRSAVMLIAVFIGVMSAGAYVFAVYTTVDAINYLGFAVFALLLALVYTSIGVGLSALARSTSRSTIIAAGFYTLLSFVWPLILSVVAYTTSEDSILNLTPGRRQFLNQIPPTDAITTARAGFTSVMNTPAALATSKWVLLVIAIAWLLGVPAIGYWRFNTRDL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	265 (239)
Sequences:	13627 (10120)
Seq/√Len:	654.6

ECOLI - YADH YBHR YHHJ YBHS
BACSU - YVFS YXLG NATB YFIN TAGG YFIM YDBK
HALSA - Q9HMU9 Q9HRJ5
SULSO - Q97VH7 Q97U55 Q97WP5 Q97Z04 Q7LY08 Q97W41

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
7_A	106_A	4.231	1.00
141_F	220_A	4.134	1.00
8_R	12_S	3.976	1.00
6_I	99_G	3.972	1.00
155_G	255_I	3.473	1.00
10_D	100_K	3.212	1.00
92_T	95_D	2.937	1.00
147_L	249_L	2.845	1.00
7_A	102_V	2.773	1.00
142_A	217_I	2.633	1.00
243_V	247_A	2.545	1.00
4_A	8_R	2.463	1.00
155_G	252_V	2.404	1.00
9_K	77_E	2.375	1.00
77_E	100_K	2.366	1.00
203_G	207_F	2.246	1.00
206_Q	210_Q	2.235	1.00
108_M	146_A	2.101	1.00
79_E	163_T	2.095	1.00
9_K	13_D	2.086	1.00
254_A	258_W	2.083	1.00
113_F	139_A	2.027	1.00
49_D	52_D	2.023	1.00
239_W	243_V	1.938	1.00
12_S	15_V	1.935	1.00
49_D	53_L	1.858	1.00
7_A	99_G	1.837	1.00
109_L	143_L	1.805	1.00
77_E	82_T	1.783	1.00
160_A	169_I	1.778	1.00
75_S	166_S	1.773	1.00
145_L	217_I	1.741	1.00
48_V	51_L	1.705	1.00
151_S	249_L	1.689	1.00
148_V	249_L	1.679	1.00
248_W	252_V	1.652	1.00
162_S	165_R	1.622	1.00
209_N	215_D	1.618	1.00
94_R	98_I	1.607	1.00
99_G	103_G	1.606	1.00
145_L	149_Y	1.572	1.00
11_F	106_A	1.567	1.00
219_T	241_L	1.566	1.00
210_Q	215_D	1.565	1.00
244_I	247_A	1.561	1.00
148_V	252_V	1.553	1.00
78_L	83_S	1.512	1.00
94_R	257_Y	1.502	1.00
136_L	140_V	1.499	1.00
156_L	160_A	1.491	1.00
105_S	143_L	1.472	1.00
33_G	37_G	1.460	1.00
144_L	246_I	1.457	1.00
207_F	211_I	1.450	1.00
117_M	121_A	1.420	1.00
70_T	153_G	1.405	1.00
240_V	244_I	1.397	1.00
105_S	147_L	1.382	1.00
47_A	51_L	1.371	1.00
101_I	154_V	1.360	1.00
155_G	259_R	1.341	1.00
244_I	248_W	1.335	1.00
11_F	15_V	1.329	1.00
207_F	210_Q	1.324	1.00
50_L	53_L	1.314	1.00
249_L	253_P	1.303	1.00
210_Q	216_A	1.288	1.00
48_V	52_D	1.286	1.00
255_I	259_R	1.284	1.00
160_A	165_R	1.256	1.00
152_I	173_F	1.247	1.00
11_F	103_G	1.244	1.00
234_L	237_S	1.223	1.00
76_G	79_E	1.223	1.00
247_A	251_G	1.222	1.00
76_G	80_S	1.218	1.00
7_A	103_G	1.211	1.00
4_A	7_A	1.209	1.00
71_I	166_S	1.204	1.00
15_V	18_K	1.202	1.00
204_R	207_F	1.201	1.00
5_A	8_R	1.197	1.00
223_G	227_V	1.184	1.00
148_V	248_W	1.178	1.00
156_L	173_F	1.176	1.00
100_K	104_R	1.175	1.00
158_A	259_R	1.171	1.00
95_D	99_G	1.166	1.00
87_L	93_R	1.165	1.00
172_G	176_L	1.162	1.00
204_R	208_L	1.160	1.00
112_V	142_A	1.143	1.00
52_D	56_G	1.137	1.00
141_F	242_L	1.135	1.00
255_I	258_W	1.112	1.00
74_I	158_A	1.101	1.00
86_L	96_V	1.099	1.00
137_G	140_V	1.099	1.00
151_S	252_V	1.095	1.00
70_T	104_R	1.090	1.00
219_T	223_G	1.088	1.00
202_P	206_Q	1.088	1.00
52_D	55_S	1.085	1.00
220_A	223_G	1.083	1.00
17_S	20_L	1.082	1.00
240_V	243_V	1.078	1.00
227_V	232_A	1.075	1.00
216_A	241_L	1.073	1.00
155_G	158_A	1.069	1.00
236_T	239_W	1.069	1.00
141_F	224_F	1.060	1.00
159_L	259_R	1.054	1.00
233_A	237_S	1.047	1.00
66_A	108_M	1.047	1.00
148_V	245_A	1.046	1.00
78_L	161_R	1.037	1.00
237_S	240_V	1.034	1.00
140_V	144_L	1.033	1.00
136_L	139_A	1.029	1.00
217_I	220_A	1.025	1.00
241_L	245_A	1.023	1.00
137_G	224_F	1.023	1.00
182_P	187_V	1.021	1.00
46_T	49_D	1.019	1.00
223_G	226_S	1.011	1.00
203_G	206_Q	0.999	1.00
97_V	256_G	0.996	1.00
188_V	209_N	0.988	1.00
91_H	96_V	0.984	1.00
242_L	246_I	0.981	1.00
215_D	219_T	0.980	1.00
216_A	219_T	0.979	1.00
151_S	253_P	0.976	1.00
236_T	240_V	0.972	1.00
10_D	104_R	0.959	1.00
28_V	31_M	0.956	1.00
235_A	240_V	0.954	1.00
63_P	67_L	0.953	1.00
251_G	255_I	0.943	1.00
134_N	137_G	0.943	1.00
154_V	158_A	0.941	1.00
51_L	55_S	0.940	1.00
72_H	76_G	0.929	1.00
45_T	49_D	0.927	1.00
18_K	21_W	0.926	1.00
177_L	212_P	0.925	1.00
210_Q	213_P	0.923	1.00
104_R	150_T	0.918	1.00
104_R	154_V	0.912	1.00
47_A	50_L	0.912	1.00
155_G	256_G	0.911	1.00
173_F	177_L	0.911	1.00
239_W	242_L	0.909	1.00
25_A	28_V	0.909	1.00
181_W	184_I	0.903	1.00
216_A	220_A	0.897	1.00
151_S	256_G	0.896	1.00
258_W	261_N	0.893	1.00
35_A	39_G	0.888	1.00
158_A	256_G	0.882	1.00
85_L	88_S	0.880	1.00
246_I	250_L	0.880	1.00
243_V	246_I	0.880	1.00
58_V	61_L	0.876	1.00
117_M	120_G	0.872	1.00
202_P	205_R	0.870	1.00
144_L	249_L	0.865	1.00
124_F	127_Y	0.861	1.00
174_Y	178_S	0.860	1.00
212_P	215_D	0.852	1.00
82_T	86_L	0.851	1.00
114_I	117_M	0.851	1.00
238_K	241_L	0.849	1.00
101_I	151_S	0.847	1.00
223_G	233_A	0.845	1.00
61_L	65_T	0.837	1.00
86_L	91_H	0.829	1.00
10_D	103_G	0.824	1.00
75_S	78_L	0.816	1.00
51_L	56_G	0.813	1.00
187_V	191_T	0.812	1.00
182_P	186_S	0.806	1.00
45_T	48_V	0.803	1.00
206_Q	209_N	0.799	1.00
116_V	120_G	0.791	1.00
250_L	254_A	0.790	1.00
49_D	57_P	0.785	1.00
83_S	96_V	0.784	1.00
47_A	53_L	0.782	1.00
251_G	254_A	0.781	1.00
209_N	213_P	0.780	1.00
233_A	236_T	0.772	1.00
7_A	11_F	0.771	1.00
118_S	122_Y	0.770	1.00
50_L	55_S	0.764	1.00
184_I	218_T	0.757	1.00
34_A	37_G	0.756	1.00
234_L	238_K	0.756	1.00
83_S	87_L	0.754	1.00
12_S	16_R	0.754	1.00
51_L	54_L	0.753	1.00
123_V	126_V	0.751	1.00
253_P	257_Y	0.748	1.00
97_V	257_Y	0.745	1.00
160_A	166_S	0.745	1.00
157_S	166_S	0.744	1.00
245_A	248_W	0.744	1.00
188_V	191_T	0.743	1.00
156_L	169_I	0.734	1.00
47_A	52_D	0.734	1.00
45_T	52_D	0.734	1.00
62_I	66_A	0.733	1.00
14_A	107_V	0.731	1.00
19_A	22_A	0.727	1.00
91_H	95_D	0.725	1.00
37_G	122_Y	0.720	1.00
28_V	34_A	0.718	1.00
14_A	24_T	0.715	1.00
105_S	150_T	0.713	1.00
104_R	108_M	0.712	1.00
85_L	89_L	0.711	1.00
216_A	244_I	0.710	1.00
224_F	227_V	0.708	1.00
68_L	167_T	0.703	1.00
252_V	256_G	0.700	1.00
77_E	84_K	0.699	1.00
247_A	250_L	0.698	1.00
76_G	163_T	0.696	1.00
98_I	102_V	0.695	1.00
164_S	168_I	0.695	1.00
246_I	249_L	0.690	1.00
145_L	245_A	0.689	1.00
212_P	216_A	0.687	1.00
209_N	212_P	0.683	1.00
237_S	241_L	0.681	1.00
36_A	123_V	0.677	1.00
63_P	149_Y	0.675	1.00
205_R	210_Q	0.674	1.00
218_T	222_A	0.671	1.00
211_I	216_A	0.669	1.00
254_A	257_Y	0.668	1.00
49_D	55_S	0.665	1.00
250_L	253_P	0.656	1.00
146_A	150_T	0.655	1.00
64_I	67_L	0.649	1.00
66_A	70_T	0.646	1.00
143_L	146_A	0.645	1.00
129_T	134_N	0.643	1.00
106_A	110_I	0.642	1.00
57_P	60_F	0.642	1.00
165_R	169_I	0.639	1.00
234_L	239_W	0.636	1.00
50_L	56_G	0.636	1.00
144_L	245_A	0.634	1.00
182_P	189_A	0.633	1.00
72_H	163_T	0.632	1.00
187_V	190_Y	0.631	1.00
63_P	70_T	0.630	1.00
142_A	146_A	0.629	1.00
236_T	241_L	0.624	1.00
49_D	56_G	0.622	1.00
73_S	100_K	0.620	1.00
152_I	252_V	0.618	1.00
248_W	251_G	0.616	1.00
86_L	100_K	0.614	1.00
205_R	209_N	0.613	1.00
219_T	222_A	0.612	1.00
72_H	101_I	0.610	1.00
223_G	241_L	0.610	1.00
46_T	51_L	0.610	1.00
101_I	150_T	0.607	1.00
176_L	179_F	0.605	1.00
220_A	238_K	0.603	1.00
34_A	38_Y	0.598	1.00
208_L	212_P	0.596	1.00
82_T	100_K	0.595	1.00
41_F	190_Y	0.594	1.00
98_I	257_Y	0.586	1.00
101_I	105_S	0.585	1.00
238_K	242_L	0.583	1.00
166_S	177_L	0.583	1.00
181_W	185_L	0.582	1.00
186_S	191_T	0.582	1.00
256_G	259_R	0.579	1.00
171_A	175_T	0.578	1.00
79_E	162_S	0.577	1.00
181_W	186_S	0.577	1.00
111_A	217_I	0.576	1.00
257_Y	261_N	0.576	1.00
116_V	135_Y	0.576	1.00
170_A	174_Y	0.570	1.00
83_S	260_F	0.570	1.00
37_G	40_Y	0.568	1.00
71_I	170_A	0.568	1.00
29_V	118_S	0.567	1.00
19_A	76_G	0.565	1.00
102_V	106_A	0.565	1.00
36_A	40_Y	0.564	1.00
135_Y	139_A	0.562	1.00
75_S	163_T	0.560	1.00
55_S	58_V	0.559	1.00
57_P	63_P	0.559	1.00
147_L	151_S	0.558	1.00
226_S	232_A	0.558	1.00
74_I	97_V	0.558	1.00
101_I	147_L	0.558	1.00
249_L	254_A	0.557	1.00
63_P	174_Y	0.556	1.00
222_A	226_S	0.555	1.00
72_H	167_T	0.555	1.00
48_V	53_L	0.553	1.00
74_I	154_V	0.553	1.00
29_V	33_G	0.552	1.00
234_L	240_V	0.552	1.00
186_S	190_Y	0.550	1.00
165_R	168_I	0.547	1.00
18_K	22_A	0.543	1.00
9_K	82_T	0.541	1.00
55_S	59_N	0.541	1.00
14_A	103_G	0.540	1.00
19_A	72_H	0.540	1.00
116_V	139_A	0.538	1.00
13_D	77_E	0.533	1.00
252_V	255_I	0.530	0.99
45_T	51_L	0.530	0.99
22_A	27_F	0.529	0.99
67_L	170_A	0.529	0.99
156_L	170_A	0.529	0.99
210_Q	219_T	0.529	0.99
247_A	254_A	0.528	0.99
22_A	26_L	0.528	0.99
50_L	57_P	0.527	0.99
188_V	215_D	0.527	0.99
75_S	79_E	0.526	0.99
188_V	210_Q	0.523	0.99
241_L	244_I	0.522	0.99
82_T	96_V	0.522	0.99
99_G	102_V	0.519	0.99
188_V	206_Q	0.518	0.99
84_K	88_S	0.518	0.99
183_L	187_V	0.517	0.99
221_R	224_F	0.516	0.99
67_L	71_I	0.515	0.99
164_S	167_T	0.515	0.99
186_S	189_A	0.515	0.99
16_R	78_L	0.515	0.99
52_D	57_P	0.512	0.99
71_I	75_S	0.512	0.99
65_T	68_L	0.511	0.99
63_P	145_L	0.510	0.99
236_T	243_V	0.510	0.99
159_L	255_I	0.510	0.99
167_T	170_A	0.507	0.99
31_M	35_A	0.505	0.99
59_N	62_I	0.505	0.99
100_K	103_G	0.504	0.99
10_D	82_T	0.502	0.99
42_F	46_T	0.500	0.99

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
2a65A	2	0.3208	10.2	0.931	Contact Map
3ixzA	1	0.3358	4.6	0.941	Contact Map
1iijA	1	0.1321	4.5	0.942	Contact Map
2wswA	3	0.6264	4.2	0.942	Contact Map
2ks1B	1	0.1509	4	0.943	Contact Map
2zxeA	1	0.3358	3.5	0.944	Contact Map
2m20A	2	0.1208	3	0.946	Contact Map
2l2tA	2	0.1472	2.8	0.947	Contact Map
2ih3C	4	0.366	2.7	0.948	Contact Map
4xp4A	1	0.6377	2.3	0.95	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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