Q9HHQ7 - HALSA - GREMLIN Contacts

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Q9HHQ7 - sn-glycerol-3-phosphate transport system permease

UniProt:	Q9HHQ7	Sequences: MSTQPTPFDSTLQALGLLLPSVVVLGAFLYYPGLETFRLSLYRTLFLGQQTAWVGAENFVQLLTSTAYHHSFAISVLFAAIVVTGTLLLSIAVGYLLFTVSVGSSAYLIAAIWPYALPPAVAAILLNFILHPNLGVFTHYLEAVTPFTLDWFNSGPQAFTVVAVVAIWKQLGYNIIFVVAAFNTIPKTLTERATLDGVGHLRRLRSVYLPLMAPTLVFLTVMNTIYAFFSTFPIVDLLTSGGPGDATNLLIFKLYRDAFEFNSLGLASAESVILFALVAVLMYVQIRVSEGYAQYGA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	297 (256)
Sequences:	69380 (44608)
Seq/√Len:	2788.0

ECOLI - UGPA YCJO POTH YDCU THIP PSTC MALF YCJP MALG POTB CYSW PSTA UGPE YNJC CYST YDCV POTI POTC MODB TAUC SSUC YEHY PHNE YEHW METI PROW
BACSU - GANP AMYD YTEP YESP ARAP LPLB YURN MDXF GANQ LPLC YESQ MDXG YURM AMYC ARAQ YQGI YQGH YTCP YVGM YTLD SSUC OPUAB TCYB METP TCYL OPUCB YXEN OPUBD OPUCD OPUBB
HALSA - Q9HHQ7 Q9HMT4 Q9HP01 Q9HML6 Q9HR05 Q9HP02 Q9HHQ6 Q9HS11 Q9HPK3 Q9HNI9 Q9HS12
SULSO - Q97YY2 Q97UZ0 Q97UF4 Q97UF3 Q97YY3 Q97ZC2 Q97UY9 Q97ZT7 Q97VC0 Q97ZC1 Q97ZT6 Q97Z98

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
202_R	206_S	3.931	1.00
73_A	77_L	3.177	1.00
194_T	203_R	3.006	1.00
179_V	183_N	2.964	1.00
70_H	73_A	2.604	1.00
71_S	253_K	2.501	1.00
99_T	190_T	2.500	1.00
85_G	167_I	2.471	1.00
40_S	59_F	2.469	1.00
248_N	256_R	2.463	1.00
193_A	203_R	2.453	1.00
199_G	202_R	2.451	1.00
81_I	163_A	2.448	1.00
181_A	215_T	2.448	1.00
190_T	208_Y	2.389	1.00
60_V	64_T	2.375	1.00
69_H	73_A	2.325	1.00
57_E	60_V	2.310	1.00
83_V	220_T	2.308	1.00
200_H	203_R	2.284	1.00
178_V	216_L	2.188	1.00
201_L	205_R	2.154	1.00
57_E	61_Q	2.129	1.00
263_S	266_L	2.088	1.00
101_S	104_S	2.044	1.00
198_V	202_R	2.042	1.00
202_R	205_R	1.991	1.00
91_I	204_L	1.976	1.00
174_N	219_L	1.945	1.00
38_R	42_Y	1.940	1.00
77_L	159_F	1.901	1.00
189_L	211_L	1.896	1.00
98_F	183_N	1.892	1.00
193_A	198_V	1.885	1.00
182_F	212_M	1.883	1.00
108_L	179_V	1.800	1.00
87_L	220_T	1.787	1.00
91_I	212_M	1.785	1.00
245_D	248_N	1.727	1.00
34_L	38_R	1.719	1.00
194_T	200_H	1.707	1.00
70_H	74_I	1.691	1.00
283_Y	287_R	1.678	1.00
190_T	203_R	1.662	1.00
82_V	227_A	1.649	1.00
79_A	224_T	1.637	1.00
61_Q	266_L	1.631	1.00
90_S	174_N	1.630	1.00
77_L	81_I	1.623	1.00
91_I	178_V	1.575	1.00
253_K	257_D	1.574	1.00
190_T	194_T	1.567	1.00
93_V	175_I	1.567	1.00
97_L	175_I	1.554	1.00
159_F	247_T	1.510	1.00
61_Q	64_T	1.495	1.00
19_L	23_V	1.488	1.00
37_F	272_V	1.476	1.00
187_K	190_T	1.472	1.00
241_G	246_A	1.462	1.00
103_G	106_A	1.424	1.00
55_G	58_N	1.418	1.00
67_A	70_H	1.411	1.00
56_A	60_V	1.405	1.00
100_V	104_S	1.390	1.00
31_Y	35_E	1.384	1.00
35_E	39_L	1.375	1.00
94_G	178_V	1.368	1.00
174_N	223_N	1.349	1.00
182_F	208_Y	1.348	1.00
209_L	216_L	1.344	1.00
98_F	179_V	1.337	1.00
86_T	223_N	1.329	1.00
218_F	222_M	1.309	1.00
78_F	249_L	1.295	1.00
232_F	236_D	1.293	1.00
178_V	219_L	1.282	1.00
187_K	191_E	1.279	1.00
88_L	92_A	1.275	1.00
248_N	253_K	1.261	1.00
239_T	247_T	1.251	1.00
257_D	261_F	1.248	1.00
99_T	187_K	1.246	1.00
188_T	191_E	1.243	1.00
193_A	207_V	1.237	1.00
91_I	216_L	1.226	1.00
130_L	161_V	1.225	1.00
234_I	238_L	1.224	1.00
165_V	238_L	1.213	1.00
95_Y	182_F	1.212	1.00
241_G	247_T	1.204	1.00
75_S	250_L	1.200	1.00
106_A	109_I	1.200	1.00
257_D	263_S	1.179	1.00
84_T	88_L	1.175	1.00
23_V	27_A	1.174	1.00
232_F	255_Y	1.173	1.00
81_I	84_T	1.171	1.00
185_I	211_L	1.155	1.00
12_L	16_G	1.147	1.00
87_L	216_L	1.140	1.00
46_F	53_W	1.136	1.00
213_A	217_V	1.135	1.00
199_G	203_R	1.133	1.00
256_R	260_E	1.130	1.00
13_Q	17_L	1.129	1.00
287_R	290_E	1.121	1.00
74_I	77_L	1.121	1.00
14_A	18_L	1.103	1.00
249_L	252_F	1.100	1.00
163_A	167_I	1.087	1.00
287_R	291_G	1.077	1.00
178_V	215_T	1.063	1.00
128_F	132_P	1.062	1.00
36_T	272_V	1.061	1.00
162_V	235_V	1.061	1.00
106_A	110_A	1.052	1.00
16_G	20_P	1.039	1.00
85_G	163_A	1.029	1.00
159_F	163_A	1.021	1.00
59_F	272_V	1.015	1.00
63_L	69_H	1.014	1.00
171_L	175_I	1.014	1.00
258_A	267_A	1.012	1.00
211_L	214_P	1.011	1.00
35_E	38_R	1.011	1.00
98_F	182_F	1.010	1.00
284_V	288_V	1.009	1.00
81_I	85_G	1.009	1.00
190_T	200_H	1.008	1.00
82_V	86_T	1.007	1.00
231_T	234_I	1.004	1.00
43_R	46_F	1.001	1.00
248_N	252_F	0.999	1.00
15_L	19_L	0.998	1.00
61_Q	65_S	0.997	1.00
177_F	219_L	0.993	1.00
95_Y	200_H	0.989	1.00
92_A	96_L	0.980	1.00
13_Q	16_G	0.978	1.00
198_V	203_R	0.974	1.00
95_Y	204_L	0.973	1.00
16_G	19_L	0.972	1.00
76_V	80_A	0.972	1.00
82_V	166_A	0.971	1.00
253_K	270_E	0.968	1.00
235_V	249_L	0.949	1.00
77_L	160_T	0.947	1.00
203_R	206_S	0.944	1.00
126_L	238_L	0.941	1.00
45_L	48_G	0.930	1.00
160_T	164_V	0.929	1.00
72_F	250_L	0.926	1.00
84_T	220_T	0.921	1.00
74_I	159_F	0.918	1.00
39_L	42_Y	0.917	1.00
136_V	160_T	0.910	1.00
231_T	235_V	0.909	1.00
136_V	139_H	0.906	1.00
39_L	268_S	0.905	1.00
68_Y	270_E	0.905	1.00
236_D	252_F	0.901	1.00
104_S	183_N	0.895	1.00
82_V	163_A	0.895	1.00
77_L	80_A	0.894	1.00
78_F	159_F	0.893	1.00
26_G	30_Y	0.883	1.00
80_A	84_T	0.876	1.00
166_A	227_A	0.869	1.00
94_G	98_F	0.867	1.00
174_N	178_V	0.860	1.00
253_K	256_R	0.859	1.00
58_N	265_G	0.858	1.00
18_L	22_V	0.857	1.00
213_A	216_L	0.852	1.00
278_V	282_M	0.850	1.00
62_L	273_I	0.850	1.00
212_M	215_T	0.848	1.00
102_V	105_S	0.848	1.00
78_F	166_A	0.848	1.00
126_L	165_V	0.848	1.00
90_S	175_I	0.845	1.00
94_G	175_I	0.844	1.00
72_F	76_V	0.838	1.00
105_S	108_L	0.835	1.00
160_T	163_A	0.834	1.00
97_L	108_L	0.828	1.00
178_V	212_M	0.827	1.00
165_V	234_I	0.825	1.00
67_A	245_D	0.825	1.00
86_T	90_S	0.820	1.00
181_A	212_M	0.819	1.00
213_A	288_V	0.819	1.00
112_I	176_I	0.818	1.00
85_G	88_L	0.815	1.00
204_L	209_L	0.814	1.00
119_P	169_K	0.813	1.00
41_L	54_V	0.809	1.00
223_N	227_A	0.808	1.00
205_R	209_L	0.807	1.00
198_V	206_S	0.806	1.00
257_D	270_E	0.805	1.00
203_R	208_Y	0.803	1.00
42_Y	46_F	0.801	1.00
257_D	266_L	0.796	1.00
73_A	76_V	0.791	1.00
50_Q	53_W	0.789	1.00
58_N	61_Q	0.787	1.00
200_H	204_L	0.785	1.00
280_V	284_V	0.780	1.00
96_L	101_S	0.777	1.00
284_V	287_R	0.772	1.00
127_N	131_H	0.771	1.00
123_A	233_P	0.765	1.00
44_T	48_G	0.764	1.00
36_T	268_S	0.757	1.00
94_G	182_F	0.757	1.00
255_Y	259_F	0.757	1.00
54_V	57_E	0.756	1.00
39_L	43_R	0.747	1.00
285_Q	288_V	0.746	1.00
138_T	241_G	0.745	1.00
189_L	207_V	0.742	1.00
266_L	270_E	0.740	1.00
56_A	59_F	0.740	1.00
81_I	167_I	0.739	1.00
123_A	237_L	0.735	1.00
20_P	23_V	0.729	1.00
36_T	271_S	0.725	1.00
65_S	69_H	0.725	1.00
46_F	52_A	0.725	1.00
86_T	170_Q	0.725	1.00
268_S	271_S	0.724	1.00
60_V	63_L	0.720	1.00
41_L	55_G	0.719	1.00
231_T	249_L	0.719	1.00
83_V	224_T	0.718	1.00
86_T	174_N	0.718	1.00
86_T	227_A	0.712	1.00
71_S	74_I	0.712	1.00
112_I	115_Y	0.712	1.00
87_L	178_V	0.710	1.00
185_I	212_M	0.709	1.00
135_G	138_T	0.708	1.00
90_S	178_V	0.707	1.00
250_L	274_L	0.704	1.00
25_L	29_L	0.698	1.00
187_K	194_T	0.696	1.00
192_R	196_D	0.695	1.00
61_Q	263_S	0.694	1.00
71_S	250_L	0.692	1.00
122_A	168_W	0.692	1.00
204_L	208_Y	0.691	1.00
66_T	70_H	0.690	1.00
274_L	278_V	0.687	1.00
170_Q	223_N	0.686	1.00
216_L	219_L	0.683	1.00
268_S	272_V	0.682	1.00
162_V	239_T	0.679	1.00
43_R	53_W	0.678	1.00
31_Y	34_L	0.677	1.00
53_W	57_E	0.676	1.00
69_H	72_F	0.674	1.00
161_V	165_V	0.671	1.00
97_L	179_V	0.671	1.00
239_T	248_N	0.671	1.00
42_Y	51_T	0.670	1.00
17_L	20_P	0.669	1.00
170_Q	226_Y	0.667	1.00
83_V	87_L	0.667	1.00
97_L	107_Y	0.667	1.00
93_V	171_L	0.665	1.00
119_P	233_P	0.665	1.00
254_L	270_E	0.663	1.00
22_V	26_G	0.663	1.00
252_F	256_R	0.661	1.00
26_G	29_L	0.661	1.00
192_R	195_L	0.660	1.00
178_V	182_F	0.659	1.00
79_A	83_V	0.657	1.00
128_F	131_H	0.655	1.00
17_L	21_S	0.642	1.00
93_V	111_A	0.641	1.00
131_H	137_F	0.640	1.00
265_G	268_S	0.639	1.00
101_S	107_Y	0.633	1.00
208_Y	211_L	0.632	1.00
235_V	252_F	0.630	1.00
251_I	274_L	0.629	1.00
215_T	219_L	0.627	1.00
15_L	18_L	0.627	1.00
55_G	59_F	0.627	1.00
43_R	52_A	0.626	1.00
89_L	167_I	0.624	1.00
279_A	283_Y	0.621	1.00
62_L	270_E	0.621	1.00
103_G	107_Y	0.618	1.00
62_L	266_L	0.617	1.00
75_S	251_I	0.617	1.00
111_A	172_G	0.615	1.00
266_L	269_A	0.615	1.00
216_L	220_T	0.614	1.00
288_V	291_G	0.612	1.00
108_L	176_I	0.608	1.00
264_L	268_S	0.602	1.00
78_F	163_A	0.599	1.00
120_A	237_L	0.599	1.00
12_L	15_L	0.592	1.00
46_F	49_Q	0.588	1.00
161_V	238_L	0.587	1.00
78_F	162_V	0.586	1.00
264_L	267_A	0.585	1.00
252_F	255_Y	0.582	1.00
79_A	227_A	0.581	1.00
59_F	269_A	0.574	1.00
40_S	269_A	0.573	1.00
205_R	208_Y	0.573	1.00
67_A	253_K	0.572	1.00
225_I	230_S	0.569	1.00
241_G	245_D	0.569	1.00
203_R	207_V	0.567	1.00
66_T	69_H	0.567	1.00
105_S	109_I	0.566	1.00
109_I	113_W	0.565	1.00
21_S	25_L	0.564	1.00
177_F	215_T	0.563	1.00
79_A	229_F	0.563	1.00
75_S	229_F	0.562	1.00
86_T	167_I	0.561	1.00
282_M	286_I	0.561	1.00
42_Y	53_W	0.559	1.00
102_V	106_A	0.559	1.00
30_Y	34_L	0.557	1.00
126_L	129_I	0.557	1.00
27_A	31_Y	0.556	1.00
277_L	280_V	0.556	1.00
115_Y	173_Y	0.555	1.00
233_P	237_L	0.554	1.00
74_I	247_T	0.554	1.00
67_A	248_N	0.554	1.00
45_L	49_Q	0.554	1.00
74_I	249_L	0.551	1.00
87_L	91_I	0.548	1.00
95_Y	208_Y	0.547	1.00
123_A	127_N	0.546	1.00
217_V	220_T	0.546	1.00
185_I	190_T	0.546	1.00
52_A	55_G	0.545	1.00
220_T	223_N	0.544	1.00
78_F	82_V	0.543	1.00
115_Y	172_G	0.543	1.00
100_V	105_S	0.542	1.00
89_L	171_L	0.542	1.00
114_P	172_G	0.539	1.00
226_Y	230_S	0.538	1.00
44_T	51_T	0.537	1.00
166_A	231_T	0.537	1.00
82_V	167_I	0.536	1.00
63_L	66_T	0.536	1.00
40_S	44_T	0.534	1.00
94_G	179_V	0.534	1.00
283_Y	286_I	0.532	1.00
110_A	114_P	0.532	1.00
162_V	166_A	0.531	1.00
199_G	205_R	0.528	1.00
233_P	236_D	0.528	1.00
130_L	137_F	0.527	1.00
19_L	22_V	0.525	1.00
51_T	54_V	0.522	1.00
107_Y	111_A	0.520	1.00
108_L	183_N	0.519	1.00
101_S	105_S	0.515	1.00
100_V	187_K	0.513	1.00
87_L	92_A	0.513	1.00
93_V	96_L	0.513	1.00
90_S	171_L	0.511	1.00
285_Q	289_S	0.509	1.00
40_S	272_V	0.508	1.00
36_T	39_L	0.508	1.00
191_E	194_T	0.507	1.00
235_V	239_T	0.505	1.00
70_H	77_L	0.505	1.00
83_V	88_L	0.503	1.00
277_L	281_L	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
4tquM	1	0.9461	100	0.285	Contact Map
2onkC	2	0.8418	100	0.323	Contact Map
3d31C	2	0.8316	100	0.323	Contact Map
3rlfF	1	0.9327	100	0.355	Contact Map
4tquN	1	0.8822	100	0.359	Contact Map
3rlfG	1	0.8956	100	0.367	Contact Map
4ymuD	2	0.7172	99.9	0.518	Contact Map
3tuiA	2	0.697	99.9	0.554	Contact Map
2a65A	2	0.798	18.9	0.944	Contact Map
3hd7A	1	0.1313	10	0.951	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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