Q9HNX8 - HALSA - GREMLIN Contacts

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Q9HNX8 - Circadian regulator

UniProt:	Q9HNX8	Sequences: MVQGGVPERSLLVAVGEAGTGKTTFGLQFLHEALSNGERAVFITLEESRGRVIQSADEKGWAFSEHADRGNLAVVDIDPIEMANSLTSIRNELPRLVEEFGASRLVLDSVSLLEMMYDDQSTRRTEIYDFTTALKEAGVTTMLTSEASEDNPFASRYGVIEYLTDAVVVLRYIRPEDFRETRLAVEIQKIRDANHSRETKPYEITHEGISVYRQANIF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	218 (192)
Sequences:	4352 (2468)
Seq/√Len:	178.1

ECOLI - RECA
BACSU - RECA
HALSA - Q9HNX8 Q9HP98 Q9HQY2 GVPD2 RADB
SULSO - Y1861 Q97VZ8 Q97WB6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_V	105_L	3.706	1.00
98_E	137_A	3.593	1.00
38_E	103_S	3.584	1.00
11_L	131_T	3.476	1.00
39_R	103_S	3.319	1.00
30_L	40_A	3.191	1.00
33_A	104_R	3.027	1.00
26_G	144_T	2.998	1.00
30_L	106_V	2.994	1.00
12_L	166_A	2.842	1.00
27_L	56_A	2.677	1.00
32_E	35_S	2.638	1.00
205_T	210_S	2.594	1.00
73_A	100_F	2.511	1.00
134_L	141_T	2.414	1.00
96_L	99_E	2.349	1.00
32_E	36_N	2.342	1.00
6_V	142_M	2.232	1.00
38_E	104_R	2.194	1.00
89_I	116_M	2.151	1.00
105_L	141_T	2.150	1.00
34_L	72_L	2.052	1.00
26_G	106_V	1.986	1.00
33_A	38_E	1.921	1.00
95_R	99_E	1.866	1.00
207_E	210_S	1.799	1.00
49_R	53_I	1.724	1.00
31_H	61_W	1.710	1.00
39_R	101_G	1.690	1.00
169_V	188_Q	1.683	1.00
133_A	139_V	1.663	1.00
44_T	52_V	1.647	1.00
105_L	139_V	1.626	1.00
133_A	137_A	1.620	1.00
104_R	142_M	1.616	1.00
8_E	38_E	1.592	1.00
53_I	57_D	1.587	1.00
29_F	104_R	1.580	1.00
132_T	136_E	1.575	1.00
55_S	192_D	1.566	1.00
39_R	100_F	1.566	1.00
184_A	199_T	1.566	1.00
87_T	92_E	1.550	1.00
94_P	133_A	1.549	1.00
31_H	35_S	1.544	1.00
203_E	210_S	1.524	1.00
96_L	100_F	1.523	1.00
8_E	103_S	1.509	1.00
1_M	200_K	1.504	1.00
75_V	96_L	1.491	1.00
27_L	52_V	1.476	1.00
41_V	102_A	1.467	1.00
104_R	140_T	1.467	1.00
24_T	204_I	1.435	1.00
17_E	20_T	1.424	1.00
62_A	65_E	1.383	1.00
94_P	129_D	1.380	1.00
26_G	142_M	1.368	1.00
57_D	64_S	1.361	1.00
146_E	162_Y	1.325	1.00
97_V	133_A	1.325	1.00
94_P	98_E	1.288	1.00
11_L	141_T	1.277	1.00
95_R	98_E	1.262	1.00
11_L	127_I	1.238	1.00
101_G	137_A	1.238	1.00
24_T	59_K	1.237	1.00
30_L	104_R	1.236	1.00
16_G	22_K	1.227	1.00
166_A	190_I	1.219	1.00
45_L	112_L	1.215	1.00
39_R	65_E	1.202	1.00
31_H	62_A	1.199	1.00
92_E	95_R	1.181	1.00
110_V	126_E	1.138	1.00
146_E	149_E	1.127	1.00
175_P	180_E	1.121	1.00
49_R	74_V	1.110	1.00
171_R	186_E	1.099	1.00
182_R	201_P	1.096	1.00
107_L	113_L	1.079	1.00
7_P	190_I	1.072	1.00
94_P	97_V	1.063	1.00
48_S	51_R	1.056	1.00
190_I	193_A	1.052	1.00
43_I	93_L	1.051	1.00
13_V	164_T	1.049	1.00
57_D	62_A	1.047	1.00
39_R	73_A	1.044	1.00
15_V	169_V	1.018	0.99
90_R	113_L	1.016	0.99
130_F	141_T	1.011	0.99
127_I	143_L	1.005	0.99
25_F	209_I	0.995	0.99
90_R	126_E	0.995	0.99
30_L	42_F	0.988	0.99
52_V	74_V	0.983	0.99
91_N	115_M	0.974	0.99
28_Q	32_E	0.966	0.99
29_F	187_I	0.934	0.99
105_L	134_L	0.934	0.99
54_Q	57_D	0.932	0.99
47_E	191_R	0.932	0.99
109_S	144_T	0.931	0.99
60_G	207_E	0.923	0.99
6_V	12_L	0.923	0.99
75_V	92_E	0.922	0.99
173_I	184_A	0.920	0.99
90_R	94_P	0.918	0.99
170_L	209_I	0.915	0.99
63_F	72_L	0.913	0.99
17_E	169_V	0.893	0.99
34_L	40_A	0.890	0.98
1_M	187_I	0.882	0.98
164_T	167_V	0.874	0.98
27_L	44_T	0.868	0.98
174_R	180_E	0.865	0.98
16_G	21_G	0.860	0.98
42_F	106_V	0.857	0.98
18_A	156_R	0.849	0.98
29_F	33_A	0.844	0.98
48_S	145_S	0.837	0.98
185_V	211_V	0.834	0.98
93_L	113_L	0.834	0.98
14_A	142_M	0.832	0.98
49_R	76_D	0.832	0.98
12_L	140_T	0.828	0.98
3_Q	194_N	0.827	0.98
37_G	213_R	0.827	0.98
170_L	187_I	0.825	0.98
20_T	170_L	0.811	0.97
129_D	132_T	0.806	0.97
33_A	40_A	0.803	0.97
161_E	167_V	0.799	0.97
131_T	163_L	0.793	0.97
107_L	130_F	0.790	0.97
14_A	168_V	0.790	0.97
181_T	186_E	0.786	0.97
51_R	135_K	0.768	0.96
6_V	140_T	0.766	0.96
127_I	160_I	0.765	0.96
60_G	64_S	0.762	0.96
23_T	52_V	0.748	0.96
27_L	42_F	0.746	0.96
128_Y	132_T	0.745	0.96
39_R	99_E	0.743	0.95
196_S	200_K	0.736	0.95
35_S	98_E	0.732	0.95
89_I	92_E	0.731	0.95
203_E	206_H	0.726	0.95
22_K	108_D	0.725	0.95
19_G	189_K	0.713	0.94
44_T	145_S	0.705	0.94
92_E	96_L	0.704	0.94
106_V	144_T	0.704	0.94
93_L	101_G	0.703	0.94
46_E	135_K	0.702	0.94
1_M	185_V	0.689	0.93
46_E	146_E	0.687	0.93
169_V	195_H	0.686	0.93
98_E	133_A	0.683	0.93
73_A	96_L	0.671	0.92
115_M	129_D	0.669	0.92
98_E	136_E	0.666	0.92
94_P	137_A	0.666	0.92
20_T	150_D	0.666	0.92
148_S	151_N	0.664	0.92
117_Y	129_D	0.662	0.92
29_F	170_L	0.659	0.92
32_E	213_R	0.655	0.91
175_P	206_H	0.654	0.91
103_S	140_T	0.653	0.91
18_A	164_T	0.647	0.91
6_V	29_F	0.647	0.91
37_G	103_S	0.645	0.91
175_P	181_T	0.642	0.91
158_G	161_E	0.642	0.91
207_E	213_R	0.641	0.90
9_R	138_G	0.637	0.90
187_I	200_K	0.635	0.90
157_Y	161_E	0.634	0.90
36_N	210_S	0.633	0.90
24_T	28_Q	0.632	0.90
170_L	185_V	0.631	0.90
46_E	124_R	0.629	0.90
97_V	102_A	0.627	0.89
55_S	165_D	0.627	0.89
131_T	143_L	0.627	0.89
29_F	32_E	0.626	0.89
166_A	187_I	0.624	0.89
60_G	213_R	0.624	0.89
10_S	165_D	0.623	0.89
19_G	108_D	0.623	0.89
34_L	37_G	0.622	0.89
109_S	162_Y	0.621	0.89
2_V	12_L	0.616	0.89
94_P	113_L	0.612	0.88
90_R	129_D	0.611	0.88
42_F	145_S	0.610	0.88
8_E	138_G	0.609	0.88
40_A	106_V	0.604	0.88
37_G	140_T	0.603	0.88
24_T	111_S	0.603	0.88
87_T	102_A	0.602	0.88
112_L	190_I	0.600	0.87
21_G	204_I	0.599	0.87
169_V	186_E	0.599	0.87
29_F	38_E	0.597	0.87
7_P	193_A	0.597	0.87
42_F	112_L	0.595	0.87
46_E	51_R	0.595	0.87
15_V	145_S	0.590	0.86
23_T	146_E	0.589	0.86
17_E	147_A	0.587	0.86
18_A	161_E	0.585	0.86
97_V	134_L	0.584	0.86
90_R	133_A	0.584	0.86
13_V	143_L	0.582	0.86
32_E	38_E	0.581	0.86
51_R	55_S	0.580	0.86
202_Y	209_I	0.579	0.85
17_E	158_G	0.577	0.85
7_P	26_G	0.574	0.85
109_S	163_L	0.574	0.85
43_I	105_L	0.573	0.85
55_S	193_A	0.573	0.85
2_V	6_V	0.573	0.85
51_R	165_D	0.573	0.85
44_T	76_D	0.571	0.85
50_G	138_G	0.569	0.84
101_G	213_R	0.567	0.84
16_G	23_T	0.563	0.84
91_N	116_M	0.563	0.84
25_F	170_L	0.563	0.84
210_S	213_R	0.562	0.84
182_R	214_Q	0.561	0.84
157_Y	160_I	0.559	0.83
186_E	198_E	0.558	0.83
104_R	206_H	0.557	0.83
38_E	101_G	0.557	0.83
111_S	164_T	0.556	0.83
39_R	138_G	0.552	0.83
108_D	189_K	0.548	0.82
194_N	206_H	0.548	0.82
31_H	63_F	0.547	0.82
35_S	62_A	0.546	0.82
34_L	65_E	0.545	0.82
16_G	19_G	0.544	0.82
3_Q	193_A	0.543	0.82
118_D	122_T	0.543	0.82
108_D	191_R	0.540	0.81
18_A	109_S	0.540	0.81
30_L	34_L	0.538	0.81
43_I	75_V	0.537	0.81
42_F	144_T	0.536	0.81
201_P	212_Y	0.536	0.81
146_E	190_I	0.536	0.81
16_G	108_D	0.535	0.81
147_A	158_G	0.531	0.80
50_G	64_S	0.531	0.80
51_R	192_D	0.530	0.80
14_A	209_I	0.529	0.80
118_D	135_K	0.528	0.80
75_V	100_F	0.528	0.80
26_G	29_F	0.524	0.79
65_E	207_E	0.521	0.79
17_E	188_Q	0.520	0.79
111_S	162_Y	0.520	0.79
111_S	145_S	0.520	0.79
125_T	128_Y	0.520	0.79
129_D	196_S	0.518	0.79
168_V	187_I	0.517	0.78
22_K	191_R	0.513	0.78
2_V	168_V	0.512	0.78
204_I	209_I	0.512	0.78
183_L	208_G	0.511	0.78
8_E	65_E	0.511	0.78
11_L	164_T	0.508	0.77
63_F	101_G	0.507	0.77
63_F	207_E	0.506	0.77
174_R	181_T	0.506	0.77
167_V	186_E	0.506	0.77
19_G	47_E	0.506	0.77
29_F	211_V	0.505	0.77
110_V	145_S	0.505	0.77
13_V	167_V	0.504	0.77
48_S	135_K	0.501	0.76
49_R	181_T	0.500	0.76

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
3bs4A	1	0.9266	100	0.32	Contact Map
2dr3A	3	0.9771	100	0.364	Contact Map
1tf7A	3	0.9771	100	0.384	Contact Map
4bwyA	3	0.7844	100	0.419	Contact Map
4a8jA	1	0.8807	100	0.429	Contact Map
2w0mA	1	0.9037	100	0.44	Contact Map
2cvhA	1	0.9128	100	0.469	Contact Map
4tl6A	3	0.9817	100	0.476	Contact Map
2ztsA	3	0.945	100	0.48	Contact Map
1n0wA	1	0.8349	100	0.485	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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