Q9HSF1 - HALSA - GREMLIN Contacts

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Q9HSF1 - Uncharacterized protein

UniProt:	Q9HSF1	Sequences: MLPEVGLLAPRSLAVLAGVAAAVGGIGAYVVRLLIRRRRAATTTNDDYARLRDAIASVESVAFVVPENPSVDALAAATGLCDLCEEWGVTGRVFAEGDVTSDDAKAFCNLFDLTLGIADDPLDDYDGAVAVGGGGTVPSFANQPPVVAVIRHRPAAVDHPLVITGSDAGATATIVSRFFERANHTPDQDVATALQHGIRAATREFRRVRSADDFRAATFLEEFVDQGTIDTLRAPGMSGETFDVIGAAIENRERRASFAVTNVGSVPAVSSLEEAADTLLRLDGVSSAAAFGVHEDTVVTACRADDVRTSAMDVLASAFDHPEGLGGDTDTATARVPLGLFSRVSADRRATLDDLIDASTRKALFSAFEHA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	371 (300)
Sequences:	4058 (3231)
Seq/√Len:	186.5

BACSU - YYBT NRNA
HALSA - Q9HSF1 Q9HHX6 Q9HQW0 Q9HRL0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
172_A	197_G	3.760	1.00
177_R	212_D	3.708	1.00
86_E	187_D	3.659	1.00
215_R	222_E	3.649	1.00
180_E	219_F	3.194	1.00
65_V	73_A	2.877	1.00
211_A	222_E	2.842	1.00
253_E	345_S	2.788	1.00
83_L	179_F	2.770	1.00
81_C	85_E	2.745	1.00
58_V	61_V	2.425	1.00
163_I	174_I	2.418	1.00
62_A	126_D	2.355	1.00
176_S	219_F	2.294	1.00
336_V	344_V	2.266	1.00
51_L	148_A	2.257	1.00
225_D	228_T	2.195	1.00
61_V	127_G	2.150	1.00
264_G	267_P	2.121	1.00
60_S	90_T	2.115	1.00
215_R	218_T	2.049	1.00
79_G	175_V	1.991	1.00
81_C	91_G	1.987	1.00
63_F	131_V	1.938	1.00
54_A	146_V	1.925	1.00
300_T	334_A	1.919	1.00
84_C	93_V	1.868	1.00
82_D	190_V	1.865	1.00
205_F	217_A	1.855	1.00
187_D	190_V	1.849	1.00
198_I	217_A	1.833	1.00
257_S	286_S	1.804	1.00
345_S	349_R	1.804	1.00
313_D	316_A	1.791	1.00
63_F	81_C	1.783	1.00
176_S	216_A	1.760	1.00
169_G	173_T	1.755	1.00
302_C	311_A	1.745	1.00
302_C	315_L	1.725	1.00
195_Q	224_V	1.721	1.00
192_T	224_V	1.720	1.00
214_F	221_E	1.718	1.00
259_A	285_V	1.712	1.00
252_R	279_L	1.710	1.00
251_N	261_T	1.706	1.00
262_N	345_S	1.683	1.00
60_S	92_R	1.678	1.00
55_I	129_V	1.678	1.00
63_F	80_L	1.665	1.00
239_G	243_D	1.664	1.00
297_T	337_P	1.657	1.00
310_S	313_D	1.654	1.00
63_F	77_A	1.648	1.00
247_A	250_E	1.648	1.00
351_T	354_D	1.646	1.00
346_A	350_A	1.630	1.00
304_A	311_A	1.623	1.00
76_A	172_A	1.577	1.00
165_G	212_D	1.568	1.00
339_G	344_V	1.562	1.00
131_V	171_T	1.552	1.00
71_V	196_H	1.545	1.00
318_A	347_D	1.539	1.00
215_R	219_F	1.533	1.00
50_R	53_D	1.519	1.00
135_G	138_P	1.516	1.00
54_A	57_S	1.511	1.00
242_F	282_L	1.508	1.00
78_T	193_A	1.498	1.00
188_Q	224_V	1.496	1.00
245_I	278_T	1.487	1.00
298_V	341_F	1.477	1.00
146_V	160_P	1.470	1.00
64_V	128_A	1.467	1.00
128_A	144_P	1.447	1.00
168_A	174_I	1.435	1.00
286_S	307_V	1.421	1.00
172_A	198_I	1.418	1.00
104_A	108_C	1.400	1.00
60_S	126_D	1.398	1.00
317_S	347_D	1.395	1.00
343_R	347_D	1.376	1.00
293_V	296_D	1.376	1.00
209_R	214_F	1.369	1.00
130_A	133_G	1.363	1.00
76_A	171_T	1.359	1.00
317_S	351_T	1.356	1.00
71_V	200_A	1.350	1.00
219_F	222_E	1.328	1.00
52_R	56_A	1.321	1.00
77_A	93_V	1.317	1.00
239_G	254_R	1.314	1.00
169_G	202_T	1.305	1.00
318_A	351_T	1.301	1.00
83_L	184_H	1.298	1.00
92_R	125_Y	1.290	1.00
248_A	261_T	1.270	1.00
82_D	189_D	1.259	1.00
350_A	353_D	1.247	1.00
147_V	159_H	1.246	1.00
339_G	343_R	1.244	1.00
80_L	129_V	1.242	1.00
317_S	354_D	1.239	1.00
81_C	93_V	1.235	1.00
82_D	187_D	1.227	1.00
108_C	111_F	1.223	1.00
173_T	213_D	1.217	1.00
188_Q	192_T	1.215	1.00
311_A	332_A	1.213	1.00
53_D	57_S	1.204	1.00
253_E	260_V	1.198	1.00
212_D	216_A	1.196	1.00
350_A	354_D	1.188	1.00
194_L	220_L	1.173	1.00
79_G	194_L	1.171	1.00
310_S	329_T	1.170	1.00
82_D	85_E	1.167	1.00
62_A	125_Y	1.167	1.00
65_V	77_A	1.166	1.00
177_R	181_R	1.162	1.00
247_A	267_P	1.160	1.00
291_F	345_S	1.151	1.00
338_L	343_R	1.147	1.00
82_D	86_E	1.140	1.00
297_T	335_R	1.138	1.00
253_E	349_R	1.138	1.00
255_R	353_D	1.138	1.00
148_A	161_L	1.137	1.00
343_R	346_A	1.134	1.00
58_V	127_G	1.125	1.00
75_A	172_A	1.122	1.00
175_V	179_F	1.108	1.00
55_I	84_C	1.106	1.00
243_D	246_G	1.099	1.00
149_V	159_H	1.094	1.00
100_T	103_D	1.092	1.00
262_N	342_S	1.090	1.00
188_Q	225_D	1.084	1.00
83_L	182_A	1.082	1.00
80_L	131_V	1.082	1.00
168_A	177_R	1.081	1.00
252_R	259_A	1.073	1.00
176_S	180_E	1.072	1.00
76_A	131_V	1.067	1.00
211_A	218_T	1.067	1.00
59_E	90_T	1.065	1.00
86_E	190_V	1.057	1.00
83_L	190_V	1.052	1.00
264_G	293_V	1.051	1.00
265_S	293_V	1.044	1.00
150_I	178_F	1.038	1.00
291_F	298_V	1.033	1.00
239_G	252_R	1.021	1.00
127_G	146_V	1.019	1.00
254_R	285_V	1.019	1.00
55_I	58_V	1.015	1.00
261_T	279_L	1.013	1.00
157_V	164_T	1.007	0.99
79_G	190_V	1.006	0.99
59_E	123_D	1.002	0.99
54_A	148_A	1.001	0.99
339_G	347_D	1.000	0.99
221_E	226_Q	0.997	0.99
238_S	283_D	0.991	0.99
247_A	251_N	0.989	0.99
129_V	148_A	0.986	0.99
230_D	234_A	0.985	0.99
56_A	88_G	0.981	0.99
165_G	177_R	0.974	0.99
230_D	233_R	0.974	0.99
244_V	263_V	0.972	0.99
104_A	107_F	0.965	0.99
87_W	184_H	0.958	0.99
54_A	58_V	0.956	0.99
211_A	215_R	0.955	0.99
286_S	306_D	0.953	0.99
276_A	288_A	0.951	0.99
85_E	112_D	0.949	0.99
154_P	329_T	0.935	0.99
195_Q	199_R	0.932	0.99
200_A	233_R	0.931	0.99
347_D	350_A	0.931	0.99
289_A	348_R	0.931	0.99
105_K	108_C	0.930	0.99
304_A	330_D	0.929	0.99
80_L	175_V	0.928	0.99
224_V	229_I	0.927	0.99
108_C	192_T	0.925	0.99
287_S	309_T	0.920	0.99
243_D	247_A	0.907	0.99
191_A	224_V	0.905	0.99
54_A	127_G	0.902	0.99
61_V	89_V	0.900	0.99
88_G	91_G	0.899	0.99
109_N	112_D	0.898	0.99
314_V	352_L	0.898	0.99
235_P	283_D	0.896	0.99
63_F	91_G	0.893	0.99
302_C	314_V	0.890	0.99
188_Q	223_F	0.885	0.99
59_E	126_D	0.883	0.99
268_A	271_S	0.882	0.99
191_A	220_L	0.879	0.99
104_A	111_F	0.873	0.99
101_S	283_D	0.867	0.98
77_A	131_V	0.866	0.98
53_D	56_A	0.863	0.98
192_T	229_I	0.861	0.98
212_D	215_R	0.859	0.98
107_F	193_A	0.858	0.98
260_V	349_R	0.857	0.98
301_A	333_T	0.857	0.98
199_R	204_E	0.855	0.98
59_E	89_V	0.852	0.98
279_L	288_A	0.851	0.98
260_V	291_F	0.851	0.98
106_A	110_L	0.848	0.98
170_A	173_T	0.844	0.98
192_T	228_T	0.844	0.98
218_T	222_E	0.840	0.98
347_D	351_T	0.839	0.98
296_D	337_P	0.833	0.98
125_Y	145_P	0.831	0.98
289_A	314_V	0.823	0.98
228_T	232_L	0.822	0.98
287_S	311_A	0.821	0.98
336_V	339_G	0.820	0.98
246_G	250_E	0.820	0.98
344_V	347_D	0.815	0.98
121_P	124_D	0.814	0.98
107_F	111_F	0.813	0.98
171_T	175_V	0.813	0.98
131_V	172_A	0.805	0.98
280_L	288_A	0.801	0.97
342_S	346_A	0.798	0.97
147_V	160_P	0.798	0.97
206_R	235_P	0.797	0.97
266_V	293_V	0.796	0.97
139_S	142_N	0.792	0.97
338_L	344_V	0.791	0.97
231_T	305_D	0.790	0.97
169_G	213_D	0.785	0.97
136_T	142_N	0.784	0.97
55_I	61_V	0.783	0.97
51_L	163_I	0.783	0.97
272_L	292_G	0.782	0.97
252_R	261_T	0.781	0.97
214_F	217_A	0.778	0.97
189_D	192_T	0.776	0.97
318_A	336_V	0.773	0.97
216_A	219_F	0.772	0.97
214_F	218_T	0.770	0.97
155_A	162_V	0.769	0.97
205_F	214_F	0.768	0.97
165_G	168_A	0.759	0.96
106_A	111_F	0.758	0.96
324_G	337_P	0.756	0.96
58_V	126_D	0.753	0.96
298_V	344_V	0.750	0.96
275_A	290_A	0.748	0.96
207_R	330_D	0.747	0.96
108_C	193_A	0.746	0.96
57_S	146_V	0.746	0.96
134_G	159_H	0.745	0.96
314_V	351_T	0.742	0.96
81_C	95_A	0.738	0.96
306_D	330_D	0.737	0.96
173_T	212_D	0.736	0.96
251_N	267_P	0.736	0.96
195_Q	217_A	0.733	0.96
103_D	106_A	0.732	0.96
123_D	126_D	0.731	0.96
269_V	294_H	0.726	0.95
244_V	248_A	0.723	0.95
63_F	93_V	0.721	0.95
60_S	124_D	0.715	0.95
176_S	194_L	0.714	0.95
149_V	164_T	0.712	0.95
248_A	275_A	0.710	0.95
209_R	226_Q	0.708	0.95
178_F	182_A	0.706	0.95
177_R	180_E	0.706	0.95
158_D	162_V	0.704	0.95
251_N	262_N	0.702	0.95
201_A	325_L	0.701	0.95
204_E	234_A	0.698	0.94
157_V	160_P	0.697	0.94
100_T	104_A	0.696	0.94
79_G	172_A	0.696	0.94
346_A	349_R	0.695	0.94
171_T	174_I	0.695	0.94
165_G	174_I	0.689	0.94
73_A	77_A	0.689	0.94
49_A	53_D	0.688	0.94
52_R	178_F	0.684	0.94
56_A	87_W	0.683	0.94
115_L	119_D	0.680	0.94
61_V	129_V	0.679	0.94
149_V	162_V	0.679	0.94
77_A	172_A	0.678	0.93
146_V	161_L	0.677	0.93
157_V	162_V	0.676	0.93
318_A	344_V	0.674	0.93
248_A	263_V	0.672	0.93
291_F	348_R	0.672	0.93
179_F	190_V	0.671	0.93
198_I	216_A	0.667	0.93
211_A	221_E	0.665	0.93
206_R	230_D	0.665	0.93
51_L	161_L	0.664	0.93
326_G	333_T	0.664	0.93
265_S	295_E	0.661	0.93
52_R	182_A	0.660	0.93
83_L	87_W	0.659	0.93
136_T	156_A	0.659	0.93
73_A	131_V	0.657	0.92
241_T	271_S	0.657	0.92
101_S	105_K	0.656	0.92
155_A	312_M	0.656	0.92
243_D	250_E	0.652	0.92
302_C	334_A	0.647	0.92
245_I	248_A	0.646	0.92
336_V	347_D	0.641	0.91
318_A	324_G	0.641	0.91
175_V	194_L	0.636	0.91
242_F	246_G	0.635	0.91
287_S	314_V	0.633	0.91
197_G	201_A	0.633	0.91
105_K	109_N	0.632	0.91
236_G	283_D	0.632	0.91
137_V	156_A	0.631	0.91
177_R	216_A	0.630	0.91
312_M	316_A	0.627	0.91
59_E	125_Y	0.626	0.90
48_Y	163_I	0.625	0.90
289_A	302_C	0.624	0.90
170_A	197_G	0.624	0.90
190_V	194_L	0.622	0.90
154_P	312_M	0.620	0.90
51_L	80_L	0.619	0.90
207_R	227_G	0.617	0.90
173_T	210_S	0.617	0.90
273_E	301_A	0.616	0.90
334_A	344_V	0.614	0.90
141_A	144_P	0.614	0.90
159_H	162_V	0.614	0.90
203_R	331_T	0.612	0.89
179_F	184_H	0.612	0.89
244_V	275_A	0.612	0.89
300_T	348_R	0.611	0.89
277_D	280_L	0.608	0.89
276_A	290_A	0.608	0.89
172_A	194_L	0.607	0.89
87_W	182_A	0.606	0.89
80_L	84_C	0.604	0.89
258_F	349_R	0.604	0.89
82_D	193_A	0.603	0.89
255_R	349_R	0.598	0.88
258_F	314_V	0.598	0.88
61_V	84_C	0.597	0.88
153_R	201_A	0.597	0.88
60_S	123_D	0.597	0.88
86_E	185_T	0.595	0.88
307_V	330_D	0.590	0.88
168_A	212_D	0.588	0.88
249_I	252_R	0.587	0.87
262_N	298_V	0.585	0.87
69_P	73_A	0.584	0.87
245_I	275_A	0.584	0.87
291_F	344_V	0.583	0.87
63_F	175_V	0.583	0.87
299_V	335_R	0.582	0.87
179_F	182_A	0.582	0.87
155_A	310_S	0.581	0.87
348_R	352_L	0.580	0.87
293_V	298_V	0.577	0.87
58_V	146_V	0.575	0.86
233_R	236_G	0.574	0.86
114_T	117_I	0.571	0.86
71_V	104_A	0.571	0.86
338_L	347_D	0.569	0.86
237_M	241_T	0.566	0.86
287_S	304_A	0.565	0.85
128_A	147_V	0.564	0.85
61_V	91_G	0.562	0.85
113_L	118_A	0.562	0.85
180_E	216_A	0.560	0.85
238_S	241_T	0.560	0.85
70_S	132_G	0.560	0.85
124_D	143_Q	0.560	0.85
258_F	289_A	0.558	0.85
202_T	208_V	0.558	0.85
254_R	259_A	0.557	0.85
300_T	315_L	0.556	0.85
103_D	107_F	0.554	0.84
245_I	249_I	0.554	0.84
198_I	213_D	0.554	0.84
294_H	297_T	0.553	0.84
210_S	218_T	0.553	0.84
274_E	279_L	0.552	0.84
237_M	281_R	0.551	0.84
141_A	147_V	0.550	0.84
62_A	144_P	0.548	0.84
67_E	138_P	0.548	0.84
291_F	341_F	0.546	0.83
49_A	52_R	0.545	0.83
262_N	341_F	0.543	0.83
342_S	345_S	0.543	0.83
70_S	153_R	0.543	0.83
78_T	82_D	0.541	0.83
99_V	110_L	0.540	0.83
153_R	326_G	0.536	0.82
100_T	106_A	0.535	0.82
186_P	191_A	0.535	0.82
351_T	355_L	0.534	0.82
341_F	345_S	0.531	0.82
254_R	282_L	0.528	0.81
70_S	201_A	0.528	0.81
315_L	333_T	0.526	0.81
235_P	280_L	0.526	0.81
131_V	175_V	0.525	0.81
133_G	149_V	0.524	0.81
352_L	355_L	0.524	0.81
256_A	353_D	0.524	0.81
210_S	213_D	0.523	0.81
103_D	108_C	0.523	0.81
187_D	286_S	0.523	0.81
196_H	233_R	0.522	0.81
276_A	280_L	0.521	0.81
77_A	95_A	0.520	0.80
70_S	328_D	0.519	0.80
204_E	230_D	0.517	0.80
199_R	230_D	0.516	0.80
304_A	309_T	0.516	0.80
73_A	79_G	0.514	0.80
119_D	139_S	0.514	0.80
180_E	186_P	0.513	0.80
303_R	328_D	0.512	0.79
55_I	127_G	0.512	0.79
65_V	95_A	0.510	0.79
84_C	129_V	0.509	0.79
273_E	292_G	0.507	0.79
82_D	179_F	0.505	0.78
184_H	190_V	0.504	0.78
325_L	331_T	0.503	0.78
104_A	110_L	0.503	0.78
174_I	179_F	0.502	0.78
86_E	184_H	0.502	0.78
260_V	289_A	0.502	0.78
349_R	352_L	0.500	0.78

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
4py9A	2	0.8437	100	0.346	Contact Map
4ls9A	2	0.8059	100	0.36	Contact Map
3devA	2	0.8086	100	0.37	Contact Map
2hawA	2	0.7709	100	0.482	Contact Map
4rpaA	3	0.7709	100	0.49	Contact Map
1k20A	2	0.7655	100	0.516	Contact Map
2eb0A	2	0.7439	100	0.526	Contact Map
2qb7A	1	0.8437	100	0.58	Contact Map
1wpnA	2	0.4771	100	0.582	Contact Map
2zxrA	1	0.8221	100	0.603	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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