Q9HHM8 - HALSA - GREMLIN Contacts

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Q9HHM8 - Transcription regulator

UniProt:	Q9HHM8	Sequences: MDPEAANNGEPRRITSVLNAVEIIDAIKEHRGITLQELTTELDLTKATIHTYMATLRQVGIVEQDGDGTYQLGDWFVPVSNYARNSTDLYRLGREEIDKLATQTRHTAHLVTESDGRQIVLYESMGEESVTTEYHLRMRETPRKLHTSAAGKSILAFLPEGRRETLISEIEFGTESSTPIGSPDALREQLATVRDQGYAINDEEEIHGIRSIGAPIRGRTEDVAGAVSVTAPKTRLQNAEFAGEVPALVMEAANIIEVRLETA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	263 (244)
Sequences:	12806 (9426)
Seq/√Len:	603.4

ECOLI - ALLR KDGR RHMR YIAJ YJHI ICLR MHPR YAGI
BACSU - KIPR
HALSA - Q9HHM8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
17_V	20_A	3.124	1.00
103_Q	248_L	3.086	1.00
96_E	252_A	2.817	1.00
111_V	150_A	2.781	1.00
18_L	59_V	2.781	1.00
192_T	196_Q	2.568	1.00
25_D	75_W	2.558	1.00
94_R	122_Y	2.418	1.00
164_E	187_R	2.358	1.00
21_V	61_I	2.352	1.00
152_K	189_Q	2.334	1.00
117_R	139_R	2.246	1.00
27_I	62_V	2.158	1.00
96_E	255_I	2.148	1.00
152_K	204_E	2.145	1.00
106_H	235_R	2.142	1.00
22_E	59_V	2.050	1.00
158_L	162_R	2.048	1.00
98_D	124_S	2.021	1.00
157_F	217_R	1.911	1.00
113_E	145_L	1.898	1.00
202_D	210_R	1.882	1.00
214_A	249_V	1.877	1.00
201_N	211_S	1.844	1.00
99_K	255_I	1.843	1.00
23_I	38_L	1.830	1.00
96_E	259_R	1.823	1.00
214_A	253_A	1.806	1.00
63_E	71_Q	1.802	1.00
210_R	233_K	1.745	1.00
246_P	250_M	1.735	1.00
99_K	103_Q	1.714	1.00
26_A	42_L	1.691	1.00
26_A	38_L	1.690	1.00
53_M	62_V	1.688	1.00
214_A	250_M	1.687	1.00
183_P	187_R	1.683	1.00
93_G	256_I	1.683	1.00
26_A	41_E	1.679	1.00
25_D	59_V	1.673	1.00
101_A	108_A	1.666	1.00
182_S	185_A	1.646	1.00
231_A	236_L	1.640	1.00
26_A	33_I	1.630	1.00
203_E	233_K	1.610	1.00
203_E	208_G	1.589	1.00
229_V	245_V	1.589	1.00
34_T	37_E	1.587	1.00
38_L	49_I	1.569	1.00
33_I	41_E	1.556	1.00
176_S	179_P	1.542	1.00
189_Q	192_T	1.532	1.00
198_Y	246_P	1.523	1.00
163_R	187_R	1.521	1.00
240_E	244_E	1.516	1.00
104_T	248_L	1.507	1.00
53_M	70_Y	1.505	1.00
193_V	199_A	1.502	1.00
32_G	71_Q	1.495	1.00
96_E	99_K	1.493	1.00
44_L	49_I	1.487	1.00
32_G	69_T	1.473	1.00
159_P	162_R	1.466	1.00
217_R	257_E	1.441	1.00
248_L	251_E	1.424	1.00
118_Q	154_I	1.417	1.00
57_R	64_Q	1.409	1.00
75_W	78_P	1.403	1.00
57_R	62_V	1.402	1.00
125_M	131_T	1.401	1.00
21_V	59_V	1.370	1.00
164_E	183_P	1.369	1.00
116_G	169_E	1.369	1.00
118_Q	145_L	1.367	1.00
90_Y	122_Y	1.360	1.00
30_H	33_I	1.352	1.00
25_D	61_I	1.351	1.00
93_G	110_L	1.334	1.00
190_L	193_V	1.309	1.00
65_D	71_Q	1.303	1.00
27_I	32_G	1.295	1.00
100_L	248_L	1.295	1.00
27_I	33_I	1.293	1.00
101_A	124_S	1.281	1.00
251_E	255_I	1.279	1.00
97_I	110_L	1.277	1.00
253_A	257_E	1.273	1.00
180_I	189_Q	1.272	1.00
94_R	98_D	1.266	1.00
39_T	49_I	1.241	1.00
50_H	54_A	1.228	1.00
38_L	53_M	1.218	1.00
217_R	223_V	1.209	1.00
160_E	187_R	1.208	1.00
30_H	41_E	1.191	1.00
100_L	252_A	1.181	1.00
156_A	193_V	1.181	1.00
168_S	183_P	1.178	1.00
45_T	48_T	1.177	1.00
160_E	164_E	1.139	1.00
113_E	158_L	1.135	1.00
214_A	246_P	1.135	1.00
36_Q	40_T	1.120	1.00
157_F	215_P	1.114	1.00
111_V	118_Q	1.114	1.00
35_L	50_H	1.107	1.00
147_T	179_P	1.107	1.00
147_T	175_E	1.102	1.00
250_M	254_N	1.097	1.00
178_T	203_E	1.091	1.00
150_A	226_A	1.089	1.00
160_E	163_R	1.084	1.00
157_F	223_V	1.082	1.00
160_E	191_A	1.077	1.00
34_T	69_T	1.073	1.00
97_I	108_A	1.073	1.00
104_T	245_V	1.069	1.00
18_L	55_T	1.065	1.00
163_R	194_R	1.060	1.00
98_D	102_T	1.059	1.00
113_E	116_G	1.057	1.00
174_T	181_G	1.052	1.00
104_T	229_V	1.045	1.00
146_H	179_P	1.043	1.00
110_L	225_G	1.043	1.00
110_L	216_I	1.043	1.00
112_T	225_G	1.034	1.00
18_L	58_Q	1.033	1.00
148_S	151_G	1.032	1.00
76_F	83_A	1.028	1.00
227_V	256_I	1.027	1.00
167_I	183_P	1.026	1.00
193_V	196_Q	1.022	1.00
103_Q	251_E	1.020	1.00
164_E	168_S	1.017	1.00
114_S	139_R	1.013	1.00
14_I	55_T	1.009	1.00
61_I	79_V	0.991	1.00
35_L	39_T	0.987	1.00
15_T	19_N	0.979	1.00
162_R	165_T	0.978	1.00
13_R	58_Q	0.977	1.00
218_G	222_D	0.973	1.00
237_Q	240_E	0.971	1.00
94_R	124_S	0.967	1.00
247_A	251_E	0.959	1.00
36_Q	46_K	0.956	1.00
37_E	40_T	0.953	1.00
99_K	252_A	0.951	1.00
254_N	258_V	0.943	1.00
255_I	259_R	0.941	1.00
111_V	120_V	0.936	1.00
32_G	65_D	0.935	1.00
92_L	259_R	0.935	1.00
212_I	246_P	0.935	1.00
149_A	211_S	0.933	1.00
153_S	157_F	0.933	1.00
177_S	207_H	0.930	1.00
215_P	223_V	0.928	1.00
191_A	195_D	0.924	1.00
23_I	42_L	0.923	1.00
89_L	225_G	0.919	1.00
97_I	227_V	0.912	1.00
155_L	186_L	0.905	1.00
37_E	41_E	0.894	1.00
24_I	76_F	0.893	1.00
163_R	190_L	0.885	1.00
97_I	122_Y	0.882	1.00
185_A	189_Q	0.879	1.00
29_E	41_E	0.878	1.00
119_I	139_R	0.877	1.00
27_I	31_R	0.875	1.00
175_E	179_P	0.867	1.00
188_E	192_T	0.865	1.00
149_A	213_G	0.865	1.00
213_G	228_S	0.864	1.00
188_E	191_A	0.862	1.00
187_R	191_A	0.859	1.00
108_A	229_V	0.856	1.00
165_T	169_E	0.853	1.00
175_E	205_E	0.848	1.00
203_E	207_H	0.846	1.00
202_D	233_K	0.845	1.00
218_G	224_A	0.843	1.00
27_I	30_H	0.839	1.00
185_A	188_E	0.838	1.00
57_R	70_Y	0.837	1.00
23_I	52_Y	0.837	1.00
90_Y	94_R	0.834	1.00
196_Q	246_P	0.833	1.00
106_H	128_E	0.832	1.00
150_A	228_S	0.830	1.00
162_R	166_L	0.823	1.00
153_S	223_V	0.823	1.00
47_A	50_H	0.819	1.00
109_H	230_T	0.819	1.00
232_P	235_R	0.819	1.00
249_V	253_A	0.811	1.00
180_I	185_A	0.801	1.00
153_S	193_V	0.799	1.00
192_T	195_D	0.796	1.00
244_E	248_L	0.796	1.00
189_Q	193_V	0.795	1.00
189_Q	196_Q	0.794	1.00
96_E	256_I	0.793	1.00
242_A	247_A	0.792	1.00
19_N	48_T	0.792	1.00
113_E	162_R	0.782	1.00
44_L	48_T	0.780	1.00
156_A	190_L	0.777	1.00
13_R	18_L	0.770	1.00
16_S	20_A	0.765	1.00
211_S	228_S	0.762	1.00
114_S	119_I	0.759	1.00
252_A	255_I	0.758	1.00
42_L	49_I	0.756	1.00
33_I	38_L	0.752	1.00
76_F	80_S	0.751	1.00
163_R	166_L	0.744	1.00
211_S	230_T	0.742	1.00
39_T	42_L	0.742	1.00
35_L	49_I	0.741	1.00
89_L	93_G	0.736	1.00
17_V	52_Y	0.736	1.00
35_L	53_M	0.728	1.00
63_E	73_G	0.727	1.00
76_F	79_V	0.725	1.00
154_I	226_A	0.725	1.00
54_A	57_R	0.724	1.00
160_E	194_R	0.724	1.00
217_R	224_A	0.714	1.00
147_T	205_E	0.713	1.00
109_H	123_E	0.712	1.00
24_I	61_I	0.711	1.00
35_L	46_K	0.711	1.00
97_I	124_S	0.710	1.00
112_T	121_L	0.709	1.00
128_E	235_R	0.707	1.00
109_H	134_Y	0.699	1.00
244_E	247_A	0.689	1.00
72_L	76_F	0.687	1.00
54_A	58_Q	0.685	1.00
92_L	95_E	0.683	1.00
158_L	163_R	0.683	1.00
247_A	250_M	0.681	1.00
101_A	126_G	0.679	1.00
202_D	238_N	0.675	1.00
180_I	186_L	0.673	1.00
116_G	166_L	0.671	1.00
227_V	253_A	0.670	1.00
152_K	193_V	0.669	1.00
214_A	257_E	0.669	1.00
251_E	254_N	0.665	1.00
113_E	154_I	0.661	1.00
99_K	102_T	0.661	1.00
191_A	194_R	0.660	1.00
250_M	253_A	0.660	1.00
240_E	245_V	0.656	1.00
166_L	170_I	0.654	1.00
163_R	191_A	0.654	1.00
155_L	190_L	0.652	1.00
80_S	83_A	0.648	1.00
65_D	69_T	0.647	1.00
154_I	158_L	0.646	1.00
100_L	104_T	0.641	1.00
35_L	70_Y	0.639	1.00
23_I	49_I	0.636	1.00
252_A	256_I	0.635	1.00
254_N	257_E	0.635	1.00
17_V	21_V	0.631	1.00
88_D	91_R	0.629	1.00
100_L	229_V	0.628	1.00
63_E	74_D	0.626	1.00
181_G	185_A	0.625	1.00
16_S	52_Y	0.625	1.00
19_N	44_L	0.623	1.00
146_H	172_F	0.622	1.00
176_S	180_I	0.621	1.00
255_I	258_V	0.619	1.00
100_L	108_A	0.615	1.00
203_E	210_R	0.613	1.00
106_H	231_A	0.608	1.00
163_R	167_I	0.607	1.00
25_D	78_P	0.607	1.00
197_G	217_R	0.604	1.00
178_T	207_H	0.603	1.00
61_I	75_W	0.602	1.00
92_L	256_I	0.600	1.00
109_H	211_S	0.599	1.00
37_E	69_T	0.595	1.00
214_A	227_V	0.594	1.00
22_E	25_D	0.593	1.00
54_A	64_Q	0.592	1.00
14_I	52_Y	0.590	1.00
20_A	52_Y	0.588	1.00
155_L	163_R	0.587	1.00
238_N	242_A	0.586	1.00
135_H	138_M	0.586	1.00
212_I	241_F	0.585	1.00
39_T	46_K	0.584	1.00
105_R	127_E	0.582	1.00
22_E	26_A	0.581	1.00
227_V	252_A	0.580	1.00
108_A	124_S	0.579	1.00
106_H	229_V	0.578	1.00
200_I	241_F	0.576	1.00
95_E	259_R	0.575	1.00
28_K	79_V	0.573	1.00
125_M	135_H	0.571	1.00
64_Q	70_Y	0.570	1.00
118_Q	143_R	0.569	1.00
102_T	127_E	0.568	1.00
248_L	252_A	0.567	1.00
245_V	248_L	0.567	1.00
120_V	148_S	0.566	1.00
184_D	187_R	0.565	1.00
26_A	29_E	0.563	1.00
93_G	97_I	0.563	1.00
153_S	213_G	0.562	1.00
144_K	147_T	0.559	1.00
60_G	75_W	0.558	1.00
154_I	225_G	0.557	1.00
64_Q	68_G	0.557	1.00
167_I	171_E	0.555	1.00
98_D	122_Y	0.554	0.99
28_K	72_L	0.550	0.99
24_I	79_V	0.550	0.99
118_Q	150_A	0.549	0.99
118_Q	148_S	0.546	0.99
120_V	134_Y	0.543	0.99
17_V	55_T	0.542	0.99
120_V	150_A	0.541	0.99
26_A	30_H	0.539	0.99
172_F	183_P	0.538	0.99
208_G	233_K	0.536	0.99
174_T	177_S	0.536	0.99
148_S	211_S	0.534	0.99
153_S	215_P	0.532	0.99
152_K	201_N	0.532	0.99
227_V	249_V	0.531	0.99
123_E	134_Y	0.531	0.99
116_G	170_I	0.530	0.99
81_N	84_R	0.528	0.99
121_L	136_L	0.527	0.99
130_V	234_T	0.526	0.99
25_D	79_V	0.523	0.99
150_A	211_S	0.522	0.99
77_V	80_S	0.521	0.99
20_A	56_L	0.521	0.99
122_Y	136_L	0.519	0.99
172_F	176_S	0.518	0.99
153_S	199_A	0.518	0.99
123_E	136_L	0.514	0.99
34_T	46_K	0.511	0.99
184_D	188_E	0.510	0.99
13_R	55_T	0.510	0.99
189_Q	199_A	0.509	0.99
134_Y	138_M	0.508	0.99
77_V	84_R	0.507	0.99
50_H	64_Q	0.506	0.99
95_E	99_K	0.505	0.99
217_R	225_G	0.504	0.99
146_H	166_L	0.504	0.99
153_S	226_A	0.503	0.99
109_H	228_S	0.502	0.99
186_L	190_L	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
3mq0A	2	0.9468	100	0.11	Contact Map
2ia2A	4	0.9392	100	0.117	Contact Map
2g7uA	6	0.9506	100	0.122	Contact Map
1mkmA	4	0.9354	100	0.127	Contact Map
3r4kA	2	0.9354	100	0.132	Contact Map
2xrnA	3	0.9087	100	0.148	Contact Map
2o0yA	4	0.9544	100	0.154	Contact Map
1ysqA	1	0.6616	100	0.428	Contact Map
1yspA	1	0.6236	100	0.433	Contact Map
1tf1A	1	0.6958	100	0.434	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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