Q9HMJ3 - HALSA - GREMLIN Contacts

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Q9HMJ3 - Uncharacterized protein

UniProt:	Q9HMJ3	Sequences: MAAVVAVGSAVLDRVYGLSNLPAPDGGAFVRDYTERAGGVAANVACALAALDHDAAVVSRVGRDDAGDRVRASLAEWGVDATRVRRGDDATSYALVLRGPEGNRMIVAGGDAVPGVALTSSDRDALRAADCVFTSAYAPDGVVRDLVALRRSGAVSALAFDLAGPRAELDGRGAAADTVDAAAATADLFVANAGAADSHVGVGPERAASEFAAMGASRVAVTDGSDGAFLATPATTVHAPARAVDVTDTTGAGDAFTAALVHAWVLGDAGVRDAGRIAAAAAAQNCTREGARGGLASPSDLPD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	303 (272)
Sequences:	22407 (16652)
Seq/√Len:	1009.7

ECOLI - SQUV RBSK YDJH YEGV YEII PSUK KDGK PFKB FRLD K1PF INGK HLDE
BACSU - IOLC KDGK RBSK YDJE FRLD K1PF
HALSA - Q9HMJ3 Q9HP13 Q9HSM7
SULSO - KDGK Q981E2 Q97W01 Q980X6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
53_H	262_H	3.159	1.00
71_R	86_R	2.696	1.00
133_F	159_A	2.672	1.00
223_D	229_F	2.507	1.00
56_A	80_D	2.502	1.00
230_L	275_G	2.442	1.00
5_V	129_A	2.402	1.00
263_A	269_A	2.391	1.00
63_R	88_D	2.311	1.00
270_G	273_D	2.305	1.00
228_A	256_F	2.271	1.00
68_D	86_R	2.124	1.00
147_V	185_T	2.053	1.00
60_R	87_G	2.037	1.00
193_A	223_D	2.012	1.00
212_A	231_A	2.002	1.00
48_L	53_H	1.974	1.00
159_A	261_V	1.965	1.00
50_A	77_W	1.961	1.00
263_A	277_I	1.956	1.00
131_C	157_A	1.927	1.00
6_A	45_A	1.924	1.00
237_V	272_R	1.887	1.00
157_A	187_D	1.869	1.00
255_A	281_A	1.862	1.00
46_C	77_W	1.848	1.00
190_V	257_T	1.786	1.00
269_A	273_D	1.782	1.00
75_A	81_A	1.776	1.00
205_E	236_T	1.761	1.00
230_L	237_V	1.754	1.00
60_R	120_S	1.742	1.00
47_A	258_A	1.737	1.00
187_D	217_S	1.709	1.00
146_L	158_L	1.698	1.00
228_A	279_A	1.690	1.00
131_C	159_A	1.669	1.00
73_S	76_E	1.668	1.00
229_F	238_H	1.663	1.00
252_A	286_C	1.659	1.00
208_A	231_A	1.655	1.00
72_A	76_E	1.650	1.00
188_L	218_R	1.627	1.00
272_R	276_R	1.624	1.00
242_R	280_A	1.620	1.00
282_A	286_C	1.612	1.00
260_L	274_A	1.609	1.00
71_R	75_A	1.607	1.00
259_A	281_A	1.607	1.00
210_E	214_M	1.589	1.00
148_A	152_S	1.571	1.00
144_R	147_V	1.560	1.00
223_D	238_H	1.546	1.00
48_L	262_H	1.537	1.00
220_A	260_L	1.531	1.00
143_V	181_A	1.501	1.00
10_A	59_S	1.496	1.00
161_D	222_T	1.494	1.00
4_V	48_L	1.492	1.00
68_D	72_A	1.485	1.00
230_L	271_V	1.485	1.00
239_A	275_G	1.468	1.00
35_E	69_R	1.465	1.00
63_R	68_D	1.465	1.00
223_D	226_D	1.464	1.00
131_C	261_V	1.460	1.00
259_A	277_I	1.456	1.00
157_A	188_L	1.444	1.00
248_D	290_G	1.443	1.00
203_G	206_R	1.405	1.00
210_E	213_A	1.383	1.00
17_G	32_D	1.379	1.00
126_L	129_A	1.365	1.00
150_R	187_D	1.356	1.00
209_S	213_A	1.348	1.00
144_R	148_A	1.347	1.00
242_R	276_R	1.345	1.00
37_A	70_V	1.339	1.00
12_L	69_R	1.337	1.00
148_A	151_R	1.327	1.00
186_A	189_F	1.325	1.00
127_R	152_S	1.320	1.00
42_A	74_L	1.319	1.00
63_R	86_R	1.311	1.00
54_D	80_D	1.307	1.00
150_R	185_T	1.306	1.00
239_A	279_A	1.303	1.00
262_H	266_L	1.301	1.00
162_L	191_A	1.297	1.00
71_R	84_V	1.286	1.00
205_E	209_S	1.285	1.00
67_G	91_T	1.281	1.00
117_A	120_S	1.273	1.00
143_V	147_V	1.258	1.00
244_V	287_T	1.258	1.00
231_A	236_T	1.258	1.00
14_R	33_Y	1.249	1.00
228_A	275_G	1.246	1.00
73_S	77_W	1.236	1.00
37_A	73_S	1.224	1.00
157_A	217_S	1.205	1.00
209_S	231_A	1.197	1.00
209_S	236_T	1.194	1.00
218_R	264_W	1.187	1.00
284_Q	288_R	1.182	1.00
266_L	269_A	1.178	1.00
259_A	278_A	1.178	1.00
218_R	271_V	1.175	1.00
14_R	35_E	1.170	1.00
263_A	274_A	1.170	1.00
222_T	256_F	1.165	1.00
218_R	260_L	1.158	1.00
223_D	227_G	1.158	1.00
246_V	286_C	1.156	1.00
260_L	264_W	1.155	1.00
69_R	72_A	1.155	1.00
65_D	68_D	1.144	1.00
273_D	276_R	1.142	1.00
190_V	222_T	1.140	1.00
260_L	278_A	1.132	1.00
68_D	71_R	1.131	1.00
244_V	286_C	1.130	1.00
49_A	79_V	1.129	1.00
53_H	265_V	1.127	1.00
51_L	259_A	1.123	1.00
134_T	158_L	1.121	1.00
232_T	235_T	1.109	1.00
242_R	279_A	1.106	1.00
44_V	133_F	1.104	1.00
113_V	116_V	1.104	1.00
242_R	283_A	1.103	1.00
284_Q	287_T	1.098	1.00
118_L	144_R	1.091	1.00
196_A	221_V	1.088	1.00
218_R	232_T	1.088	1.00
180_D	214_M	1.085	1.00
45_A	55_A	1.084	1.00
72_A	75_A	1.082	1.00
87_G	90_A	1.081	1.00
188_L	260_L	1.071	1.00
105_M	108_A	1.067	1.00
46_C	50_A	1.066	1.00
263_A	266_L	1.066	1.00
48_L	55_A	1.064	1.00
107_V	111_D	1.063	1.00
10_A	70_V	1.059	1.00
133_F	261_V	1.040	1.00
218_R	230_L	1.040	1.00
53_H	266_L	1.038	1.00
193_A	226_D	1.030	1.00
140_D	144_R	1.030	1.00
188_L	264_W	1.028	1.00
47_A	255_A	1.020	1.00
246_V	249_T	1.019	1.00
49_A	78_G	1.017	1.00
267_G	270_G	1.013	1.00
190_V	260_L	1.002	1.00
241_A	279_A	1.001	1.00
279_A	282_A	0.996	1.00
160_F	186_A	0.989	1.00
147_V	151_R	0.989	1.00
132_V	149_L	0.986	1.00
56_A	125_A	0.984	1.00
14_R	93_Y	0.984	1.00
206_R	209_S	0.983	1.00
255_A	285_N	0.978	1.00
61_V	67_G	0.969	1.00
276_R	280_A	0.964	1.00
56_A	83_R	0.962	1.00
56_A	129_A	0.958	1.00
37_A	69_R	0.957	1.00
260_L	271_V	0.955	1.00
274_A	278_A	0.945	1.00
262_H	277_I	0.944	1.00
17_G	34_T	0.943	1.00
133_F	257_T	0.942	1.00
208_A	221_V	0.942	1.00
10_A	42_A	0.941	1.00
196_A	207_A	0.937	1.00
69_R	73_S	0.937	1.00
16_Y	95_L	0.935	1.00
15_V	36_R	0.932	1.00
108_A	111_D	0.931	1.00
64_D	91_T	0.930	1.00
51_L	281_A	0.930	1.00
48_L	258_A	0.928	1.00
10_A	57_V	0.924	1.00
235_T	272_R	0.924	1.00
90_A	115_G	0.923	1.00
61_V	71_R	0.920	1.00
61_V	86_R	0.919	1.00
6_A	41_A	0.918	1.00
14_R	66_A	0.917	1.00
61_V	84_V	0.916	1.00
49_A	54_D	0.915	1.00
7_V	132_V	0.915	1.00
62_G	91_T	0.910	1.00
5_V	58_V	0.906	1.00
87_G	115_G	0.897	1.00
81_A	84_V	0.895	1.00
134_T	146_L	0.891	1.00
264_W	274_A	0.890	1.00
193_A	197_D	0.889	1.00
246_V	287_T	0.887	1.00
71_R	81_A	0.886	1.00
200_V	207_A	0.882	1.00
107_V	110_G	0.873	1.00
181_A	184_A	0.866	1.00
141_G	145_D	0.864	1.00
122_D	144_R	0.863	1.00
191_A	196_A	0.863	1.00
105_M	111_D	0.862	1.00
85_R	120_S	0.861	1.00
192_N	195_A	0.860	1.00
184_A	215_G	0.851	1.00
270_G	274_A	0.849	1.00
269_A	277_I	0.849	1.00
183_A	186_A	0.839	1.00
161_D	190_V	0.837	1.00
227_G	241_A	0.836	1.00
239_A	276_R	0.835	1.00
70_V	91_T	0.830	1.00
149_L	153_G	0.828	1.00
30_V	107_V	0.825	1.00
5_V	56_A	0.825	1.00
11_V	92_S	0.824	1.00
226_D	238_H	0.822	1.00
147_V	181_A	0.818	1.00
42_A	292_R	0.818	1.00
60_R	85_R	0.817	1.00
256_F	279_A	0.816	1.00
4_V	265_V	0.814	1.00
56_A	82_T	0.808	1.00
104_R	108_A	0.807	1.00
224_G	227_G	0.797	1.00
45_A	57_V	0.792	1.00
247_T	289_E	0.788	1.00
280_A	284_Q	0.788	1.00
99_G	103_N	0.780	1.00
44_V	257_T	0.780	1.00
145_D	149_L	0.777	1.00
208_A	212_A	0.775	1.00
255_A	259_A	0.775	1.00
49_A	55_A	0.774	1.00
12_L	66_A	0.774	1.00
259_A	263_A	0.772	1.00
255_A	282_A	0.770	1.00
237_V	275_G	0.767	1.00
239_A	272_R	0.764	1.00
229_F	236_T	0.763	1.00
244_V	283_A	0.763	1.00
136_A	160_F	0.761	1.00
212_A	232_T	0.760	1.00
131_C	265_V	0.756	1.00
176_A	180_D	0.752	1.00
123_R	148_A	0.746	1.00
279_A	283_A	0.740	1.00
64_D	67_G	0.739	1.00
46_C	292_R	0.737	1.00
161_D	191_A	0.737	1.00
217_S	232_T	0.736	1.00
106_I	110_G	0.733	1.00
245_D	287_T	0.731	1.00
13_D	38_G	0.728	1.00
96_V	106_I	0.727	1.00
159_A	190_V	0.727	1.00
125_A	129_A	0.726	1.00
12_L	35_E	0.722	1.00
71_R	85_R	0.721	1.00
227_G	238_H	0.718	1.00
35_E	66_A	0.714	1.00
212_A	233_P	0.710	1.00
140_D	143_V	0.706	1.00
134_T	142_V	0.704	1.00
143_V	146_L	0.703	1.00
24_P	103_N	0.703	1.00
5_V	125_A	0.702	1.00
106_I	109_G	0.702	1.00
205_E	208_A	0.699	1.00
96_V	250_T	0.698	1.00
51_L	277_I	0.697	1.00
208_A	219_V	0.696	1.00
73_S	292_R	0.695	1.00
105_M	109_G	0.691	1.00
269_A	274_A	0.690	1.00
142_V	145_D	0.687	1.00
66_A	93_Y	0.684	1.00
7_V	145_D	0.684	1.00
150_R	153_G	0.683	1.00
159_A	188_L	0.681	1.00
206_R	210_E	0.679	1.00
205_E	238_H	0.679	1.00
256_F	278_A	0.675	1.00
51_L	262_H	0.675	1.00
103_N	106_I	0.675	1.00
256_F	275_G	0.674	1.00
196_A	211_F	0.670	1.00
220_A	230_L	0.669	1.00
159_A	257_T	0.668	1.00
204_P	207_A	0.664	1.00
205_E	231_A	0.658	1.00
282_A	285_N	0.654	1.00
4_V	53_H	0.650	1.00
207_A	211_F	0.650	1.00
184_A	214_M	0.648	1.00
34_T	289_E	0.647	1.00
27_G	40_V	0.642	1.00
59_S	84_V	0.641	1.00
256_F	282_A	0.640	1.00
38_G	43_N	0.640	1.00
65_D	69_R	0.640	1.00
225_S	243_A	0.638	1.00
106_I	111_D	0.637	1.00
209_S	212_A	0.636	1.00
205_E	229_F	0.634	1.00
89_D	115_G	0.634	1.00
112_A	115_G	0.629	1.00
54_D	130_D	0.624	1.00
23_A	26_G	0.624	1.00
83_R	125_A	0.622	1.00
275_G	279_A	0.618	1.00
149_L	158_L	0.616	1.00
121_S	124_D	0.612	1.00
45_A	79_V	0.611	1.00
16_Y	30_V	0.611	1.00
97_L	107_V	0.611	1.00
40_V	163_A	0.607	1.00
204_P	223_D	0.606	1.00
97_L	105_M	0.605	1.00
16_Y	33_Y	0.601	1.00
208_A	236_T	0.597	1.00
267_G	274_A	0.597	1.00
228_A	239_A	0.595	1.00
220_A	256_F	0.593	1.00
177_D	180_D	0.592	1.00
204_P	208_A	0.588	1.00
258_A	262_H	0.586	1.00
9_S	163_A	0.584	1.00
42_A	57_V	0.583	1.00
51_L	258_A	0.581	1.00
68_D	75_A	0.579	1.00
180_D	184_A	0.578	1.00
65_D	72_A	0.576	1.00
83_R	86_R	0.576	1.00
196_A	204_P	0.575	1.00
232_T	237_V	0.575	1.00
146_L	185_T	0.572	1.00
141_G	144_R	0.571	1.00
48_L	261_V	0.571	1.00
161_D	254_D	0.569	1.00
17_G	289_E	0.568	1.00
114_P	117_A	0.566	1.00
113_V	117_A	0.561	1.00
131_C	188_L	0.560	1.00
9_S	137_Y	0.560	1.00
4_V	131_C	0.559	1.00
158_L	186_A	0.557	1.00
37_A	292_R	0.557	1.00
215_G	219_V	0.557	1.00
24_P	99_G	0.556	1.00
103_N	109_G	0.555	1.00
273_D	277_I	0.555	1.00
146_L	182_A	0.552	1.00
40_V	137_Y	0.552	1.00
189_F	219_V	0.551	1.00
250_T	291_A	0.550	1.00
54_D	265_V	0.549	1.00
232_T	271_V	0.548	1.00
118_L	140_D	0.546	1.00
193_A	224_G	0.544	1.00
116_V	120_S	0.542	1.00
130_D	157_A	0.542	1.00
177_D	181_A	0.539	1.00
49_A	77_W	0.537	1.00
194_G	198_S	0.536	1.00
14_R	95_L	0.536	1.00
145_D	148_A	0.534	1.00
208_A	211_F	0.532	1.00
271_V	274_A	0.531	1.00
212_A	216_A	0.529	1.00
6_A	48_L	0.529	1.00
10_A	74_L	0.528	1.00
197_D	202_V	0.528	1.00
143_V	185_T	0.528	1.00
216_A	219_V	0.528	1.00
104_R	110_G	0.526	1.00
44_V	261_V	0.525	1.00
105_M	110_G	0.525	1.00
271_V	275_G	0.525	1.00
160_F	182_A	0.522	1.00
74_L	79_V	0.521	1.00
187_D	218_R	0.521	1.00
190_V	220_A	0.520	1.00
63_R	89_D	0.517	1.00
17_G	98_R	0.516	1.00
202_V	206_R	0.516	1.00
125_A	128_A	0.516	1.00
42_A	46_C	0.515	1.00
63_R	87_G	0.513	1.00
104_R	111_D	0.513	1.00
196_A	231_A	0.506	1.00
132_V	145_D	0.506	1.00
159_A	264_W	0.505	1.00
200_V	210_E	0.505	1.00
131_C	264_W	0.504	1.00
220_A	275_G	0.501	1.00
160_F	179_V	0.500	1.00
82_T	125_A	0.500	1.00

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
2rbcA	2	0.9604	100	0.157	Contact Map
2fv7A	2	0.9604	100	0.185	Contact Map
4xdaA	2	0.9571	100	0.19	Contact Map
3ry7A	2	0.9604	100	0.195	Contact Map
4du5A	2	0.9241	100	0.195	Contact Map
1rkdA	2	0.9571	100	0.196	Contact Map
3ljsA	2	0.967	100	0.197	Contact Map
3hj6A	2	0.8911	100	0.203	Contact Map
1vm7A	2	0.9406	100	0.203	Contact Map
3ikhA	2	0.9175	100	0.205	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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