Q9HHQ6 - HALSA - GREMLIN Contacts

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Q9HHQ6 - sn-glycerol-3-phosphate transport system permease

UniProt:	Q9HHQ6	Sequences: MGRDTMATDTAQSSTRTTHRDILPENALMHLGLFGAIALMAAPLVLAVLMSTQTTAEVYQPTTIGPGSNALQNYQAALTTYNFGTYLLNSLVMSIAVVIGKVTLSLLAALALVYYELPYERAIFMFVLLTLLLPVPVRIVPLFQLMADLGWTNTLLAITGPYIASATAVFLFRQHFRSIPDSLVETAHVDGVGPFRFLVSVLIPMSRSMIAGVCVITFIYSWNQFLWPLIAVTDKPSQVAQVGIRYIQGAAQAGLTQWGVIMAAAVLALLPPLAVLLVFHRSLRETIAIQQS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	292 (254)
Sequences:	70990 (47209)
Seq/√Len:	2962.2

ECOLI - UGPE POTH MALG YCJP UGPA YDCU YCJO PSTA PSTC YDCV POTI MALF POTC CYSW THIP CYST POTB YNJC MODB TAUC PHNE SSUC YEHY YEHW PROW METI
BACSU - YESQ LPLC YURM GANP GANQ MDXG ARAQ YTCP YTEP MDXF ARAP YESP AMYC AMYD LPLB YQGH YURN YQGI YVGM YTLD SSUC OPUAB METP TCYB YXEN TCYL OPUCB OPUBD OPUCD OPUBB
HALSA - Q9HHQ6 Q9HML6 Q9HP01 Q9HHQ7 Q9HP02 Q9HMT4 Q9HS11 Q9HR05 Q9HPK3 Q9HNI9 Q9HS12
SULSO - Q97UF3 Q97YY3 Q97UY9 Q97ZC1 Q97YY2 Q97UZ0 Q97ZT6 Q97ZT7 Q97VC0 Q97UF4 Q97ZC2 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
196_R	200_S	4.065	1.00
88_L	92_V	3.431	1.00
188_H	197_F	3.205	1.00
173_R	177_R	3.079	1.00
85_T	88_L	2.706	1.00
86_Y	243_G	2.623	1.00
114_Y	184_V	2.601	1.00
187_A	197_F	2.594	1.00
175_H	209_M	2.586	1.00
193_G	196_R	2.541	1.00
184_V	202_L	2.530	1.00
75_Q	79_T	2.477	1.00
72_Q	75_Q	2.469	1.00
238_Q	246_Y	2.457	1.00
51_S	74_Y	2.446	1.00
84_G	88_L	2.438	1.00
194_P	197_F	2.345	1.00
195_F	199_V	2.296	1.00
98_V	214_C	2.294	1.00
72_Q	76_A	2.235	1.00
172_F	210_I	2.233	1.00
257_Q	260_V	2.232	1.00
117_L	120_E	2.158	1.00
192_V	196_R	2.095	1.00
196_R	199_V	2.048	1.00
168_A	213_V	2.037	1.00
106_L	198_L	2.018	1.00
100_G	163_I	2.012	1.00
187_A	192_V	2.003	1.00
183_L	205_M	1.999	1.00
176_F	206_S	1.961	1.00
113_V	177_R	1.932	1.00
45_V	49_L	1.922	1.00
49_L	53_Q	1.917	1.00
106_L	206_S	1.908	1.00
124_F	173_R	1.843	1.00
102_V	214_C	1.806	1.00
85_T	89_N	1.798	1.00
184_V	197_F	1.776	1.00
162_Y	165_S	1.770	1.00
188_H	194_P	1.763	1.00
92_V	96_A	1.753	1.00
243_G	247_I	1.753	1.00
105_S	168_A	1.721	1.00
97_V	221_S	1.705	1.00
94_S	218_F	1.692	1.00
106_L	172_F	1.665	1.00
184_V	188_H	1.652	1.00
108_A	169_V	1.649	1.00
76_A	260_V	1.597	1.00
112_L	169_V	1.589	1.00
30_H	34_F	1.526	1.00
48_V	266_V	1.525	1.00
181_D	184_V	1.523	1.00
116_E	120_E	1.497	1.00
119_Y	122_A	1.486	1.00
96_A	159_T	1.485	1.00
168_A	217_T	1.484	1.00
76_A	79_T	1.475	1.00
42_A	46_L	1.460	1.00
225_F	229_L	1.427	1.00
277_L	281_R	1.422	1.00
212_G	216_I	1.414	1.00
113_V	173_R	1.403	1.00
93_M	239_V	1.397	1.00
82_N	85_T	1.395	1.00
101_K	217_T	1.383	1.00
46_L	50_M	1.381	1.00
109_A	172_F	1.378	1.00
103_T	107_L	1.358	1.00
238_Q	243_G	1.356	1.00
176_F	202_L	1.355	1.00
71_L	75_Q	1.353	1.00
203_I	210_I	1.352	1.00
70_A	73_N	1.345	1.00
172_F	213_V	1.337	1.00
181_D	185_E	1.329	1.00
114_Y	181_D	1.292	1.00
227_W	231_A	1.282	1.00
182_S	185_E	1.257	1.00
187_A	201_V	1.247	1.00
34_F	38_A	1.236	1.00
23_L	27_A	1.234	1.00
110_L	176_F	1.227	1.00
96_A	99_I	1.223	1.00
25_E	29_M	1.223	1.00
193_G	197_F	1.219	1.00
225_F	245_R	1.212	1.00
155_L	237_S	1.209	1.00
122_A	125_M	1.205	1.00
106_L	210_I	1.201	1.00
179_I	205_M	1.192	1.00
24_P	28_L	1.190	1.00
27_A	31_L	1.177	1.00
157_A	161_P	1.175	1.00
234_D	237_S	1.173	1.00
89_N	92_V	1.172	1.00
246_Y	250_A	1.168	1.00
102_V	210_I	1.167	1.00
99_I	103_T	1.159	1.00
243_G	246_Y	1.159	1.00
22_I	25_E	1.137	1.00
24_P	27_A	1.128	1.00
207_R	211_A	1.127	1.00
47_A	266_V	1.124	1.00
90_S	240_A	1.118	1.00
247_I	257_Q	1.110	1.00
232_V	237_S	1.102	1.00
151_W	156_L	1.102	1.00
57_E	68_S	1.102	1.00
239_V	242_V	1.089	1.00
172_F	209_M	1.076	1.00
122_A	126_F	1.071	1.00
54_T	57_E	1.069	1.00
238_Q	242_V	1.067	1.00
113_V	176_F	1.066	1.00
184_V	194_P	1.065	1.00
171_L	213_V	1.064	1.00
96_A	100_G	1.064	1.00
46_L	49_L	1.060	1.00
27_A	30_H	1.060	1.00
78_L	84_G	1.045	1.00
224_Q	227_W	1.044	1.00
272_P	276_L	1.041	1.00
110_L	194_P	1.035	1.00
97_V	101_K	1.020	1.00
205_M	208_S	1.020	1.00
110_L	198_L	1.020	1.00
107_L	111_A	1.011	1.00
91_L	95_I	1.007	1.00
144_Q	148_D	0.996	1.00
278_V	282_S	0.992	1.00
92_V	95_I	0.954	1.00
192_V	197_F	0.951	1.00
120_E	177_R	0.950	1.00
29_M	33_L	0.949	1.00
74_Y	266_V	0.938	1.00
228_P	239_V	0.937	1.00
99_I	214_C	0.936	1.00
76_A	80_T	0.936	1.00
146_M	157_A	0.934	1.00
37_I	41_A	0.932	1.00
197_F	200_S	0.929	1.00
95_I	99_I	0.926	1.00
26_N	30_H	0.926	1.00
22_I	26_N	0.917	1.00
109_A	113_V	0.911	1.00
224_Q	228_P	0.904	1.00
142_L	231_A	0.898	1.00
242_V	246_Y	0.893	1.00
153_N	234_D	0.893	1.00
128_L	170_F	0.892	1.00
121_R	124_F	0.892	1.00
118_P	121_R	0.892	1.00
175_H	206_S	0.891	1.00
100_G	103_T	0.886	1.00
105_S	169_V	0.877	1.00
159_T	162_Y	0.877	1.00
87_L	91_L	0.873	1.00
207_R	210_I	0.865	1.00
71_L	74_Y	0.865	1.00
151_W	154_T	0.862	1.00
97_V	162_Y	0.862	1.00
206_S	209_M	0.861	1.00
229_L	242_V	0.861	1.00
192_V	200_S	0.858	1.00
73_N	76_A	0.855	1.00
172_F	206_S	0.854	1.00
268_A	272_P	0.851	1.00
65_G	68_S	0.850	1.00
199_V	203_I	0.845	1.00
101_K	105_S	0.835	1.00
198_L	203_I	0.835	1.00
77_A	267_L	0.834	1.00
83_F	264_A	0.834	1.00
88_L	91_L	0.831	1.00
159_T	163_I	0.830	1.00
217_T	221_S	0.829	1.00
235_K	238_Q	0.829	1.00
260_V	264_A	0.829	1.00
247_I	264_A	0.827	1.00
112_L	124_F	0.816	1.00
111_A	117_L	0.815	1.00
197_F	202_L	0.814	1.00
109_A	176_F	0.811	1.00
279_F	282_S	0.808	1.00
143_F	147_A	0.807	1.00
73_N	259_G	0.806	1.00
87_L	240_A	0.805	1.00
194_P	198_L	0.803	1.00
243_G	264_A	0.803	1.00
207_R	282_S	0.801	1.00
245_R	249_G	0.800	1.00
54_T	67_G	0.798	1.00
53_Q	57_E	0.796	1.00
262_M	266_V	0.793	1.00
50_M	53_Q	0.793	1.00
168_A	172_F	0.793	1.00
274_A	278_V	0.793	1.00
183_L	201_V	0.778	1.00
139_I	226_L	0.777	1.00
50_M	262_M	0.773	1.00
101_K	168_A	0.770	1.00
258_W	261_I	0.769	1.00
94_S	98_V	0.769	1.00
52_T	69_N	0.767	1.00
42_A	45_V	0.766	1.00
109_A	169_V	0.765	1.00
56_A	59_Y	0.764	1.00
248_Q	261_I	0.764	1.00
153_N	156_L	0.761	1.00
139_I	230_I	0.759	1.00
247_I	260_V	0.757	1.00
147_A	152_T	0.756	1.00
276_L	280_H	0.753	1.00
259_G	262_M	0.741	1.00
128_L	131_L	0.741	1.00
258_W	262_M	0.736	1.00
80_T	84_G	0.735	1.00
112_L	123_I	0.733	1.00
102_V	172_F	0.730	1.00
161_P	165_S	0.728	1.00
81_Y	85_T	0.728	1.00
157_A	160_G	0.727	1.00
112_L	173_R	0.724	1.00
161_P	231_A	0.720	1.00
86_Y	89_N	0.715	1.00
28_L	32_G	0.711	1.00
69_N	72_Q	0.709	1.00
31_L	34_F	0.708	1.00
198_L	202_L	0.708	1.00
181_D	188_H	0.707	1.00
210_I	213_V	0.705	1.00
68_S	71_L	0.697	1.00
101_K	221_S	0.696	1.00
179_I	206_S	0.696	1.00
57_E	67_G	0.695	1.00
28_L	31_L	0.695	1.00
84_G	87_L	0.694	1.00
76_A	257_Q	0.692	1.00
186_T	190_D	0.691	1.00
158_I	162_Y	0.689	1.00
135_V	165_S	0.679	1.00
105_S	172_F	0.679	1.00
53_Q	66_P	0.676	1.00
232_V	238_Q	0.675	1.00
98_V	218_F	0.674	1.00
47_A	265_A	0.673	1.00
160_G	164_A	0.673	1.00
186_T	189_V	0.673	1.00
157_A	162_Y	0.672	1.00
100_G	159_T	0.671	1.00
202_L	205_M	0.671	1.00
278_V	281_R	0.671	1.00
98_V	102_V	0.670	1.00
135_V	226_L	0.669	1.00
47_A	262_M	0.667	1.00
54_T	68_S	0.667	1.00
152_T	155_L	0.666	1.00
68_S	72_Q	0.665	1.00
172_F	176_F	0.665	1.00
92_V	155_L	0.664	1.00
75_Q	78_L	0.660	1.00
37_I	40_M	0.660	1.00
209_M	213_V	0.658	1.00
33_L	37_I	0.658	1.00
52_T	70_A	0.656	1.00
265_A	268_A	0.649	1.00
55_T	59_Y	0.649	1.00
81_Y	84_G	0.646	1.00
162_Y	221_S	0.642	1.00
117_L	123_I	0.641	1.00
144_Q	147_A	0.641	1.00
118_P	122_A	0.639	1.00
90_S	222_W	0.637	1.00
36_A	40_M	0.637	1.00
161_P	227_W	0.636	1.00
131_L	166_A	0.634	1.00
108_A	127_V	0.633	1.00
97_V	159_T	0.632	1.00
70_A	74_Y	0.627	1.00
210_I	214_C	0.625	1.00
273_L	277_L	0.625	1.00
66_P	69_N	0.624	1.00
23_L	26_N	0.622	1.00
116_E	121_R	0.618	1.00
171_L	209_M	0.618	1.00
240_A	268_A	0.617	1.00
119_Y	123_I	0.617	1.00
142_L	145_L	0.615	1.00
161_P	164_A	0.615	1.00
109_A	173_R	0.613	1.00
41_A	45_V	0.606	1.00
247_I	250_A	0.601	1.00
77_A	264_A	0.601	1.00
149_L	152_T	0.600	1.00
220_Y	223_N	0.599	1.00
111_A	115_Y	0.598	1.00
26_N	29_M	0.595	1.00
158_I	228_P	0.592	1.00
127_V	166_A	0.592	1.00
197_F	201_V	0.591	1.00
242_V	245_R	0.590	1.00
53_Q	68_S	0.590	1.00
130_T	166_A	0.587	1.00
131_L	167_T	0.586	1.00
256_T	260_V	0.585	1.00
150_G	153_N	0.585	1.00
247_I	255_L	0.585	1.00
157_A	231_A	0.584	1.00
125_M	129_L	0.582	1.00
224_Q	239_V	0.581	1.00
214_C	217_T	0.580	1.00
226_L	229_L	0.580	1.00
124_F	170_F	0.577	1.00
244_I	264_A	0.577	1.00
94_S	222_W	0.576	1.00
211_A	214_C	0.575	1.00
93_M	97_V	0.574	1.00
146_M	152_T	0.572	1.00
219_I	223_N	0.568	1.00
121_R	125_M	0.566	1.00
160_G	163_I	0.566	1.00
98_V	103_T	0.565	1.00
93_M	162_Y	0.565	1.00
257_Q	261_I	0.564	1.00
260_V	263_A	0.564	1.00
32_G	36_A	0.559	1.00
115_Y	194_P	0.558	1.00
243_G	248_Q	0.557	1.00
262_M	265_A	0.554	1.00
110_L	202_L	0.553	1.00
94_S	221_S	0.552	1.00
199_V	202_L	0.552	1.00
277_L	280_H	0.550	1.00
193_G	199_V	0.548	1.00
82_N	243_G	0.547	1.00
152_T	156_L	0.544	1.00
89_N	237_S	0.544	1.00
116_E	181_D	0.543	1.00
136_P	230_I	0.542	1.00
123_I	127_V	0.541	1.00
117_L	121_R	0.541	1.00
38_A	42_A	0.541	1.00
55_T	66_P	0.539	1.00
86_Y	240_A	0.537	1.00
185_E	188_H	0.537	1.00
226_L	230_I	0.536	1.00
67_G	70_A	0.536	1.00
151_W	155_L	0.536	1.00
98_V	221_S	0.536	1.00
133_L	137_V	0.535	1.00
139_I	143_F	0.535	1.00
271_P	274_A	0.534	1.00
90_S	241_Q	0.532	1.00
102_V	106_L	0.527	1.00
68_S	74_Y	0.527	1.00
30_H	33_L	0.526	1.00
96_A	163_I	0.524	1.00
74_Y	263_A	0.524	1.00
124_F	177_R	0.523	1.00
77_A	260_V	0.521	1.00
271_P	275_V	0.520	1.00
51_S	263_A	0.519	1.00
85_T	92_V	0.518	1.00
241_Q	244_I	0.517	1.00
250_A	255_L	0.516	1.00
124_F	169_V	0.514	1.00
274_A	277_L	0.514	1.00
241_Q	268_A	0.512	1.00
217_T	220_Y	0.511	1.00
246_Y	249_G	0.510	1.00
179_I	184_V	0.510	1.00
126_F	130_T	0.508	1.00
35_G	39_L	0.508	1.00
135_V	139_I	0.505	1.00
108_A	111_A	0.505	1.00
221_S	224_Q	0.504	1.00
97_V	163_I	0.502	1.00
106_L	203_I	0.502	1.00
149_L	154_T	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
4tquN	1	0.9281	100	0.31	Contact Map
3rlfG	1	0.9041	100	0.323	Contact Map
2onkC	2	0.8253	100	0.332	Contact Map
3d31C	2	0.8048	100	0.348	Contact Map
4tquM	1	0.8801	100	0.378	Contact Map
3rlfF	1	0.9315	100	0.409	Contact Map
4ymuD	2	0.726	99.9	0.524	Contact Map
3tuiA	2	0.7055	99.9	0.564	Contact Map
3tx3A	2	0.2432	18.9	0.944	Contact Map
2kogA	1	0.1678	14	0.947	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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