YESQ - BACSU - GREMLIN Contacts

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YESQ - Probable ABC transporter permease protein YesQ

UniProt:	O31520	Sequences: MEPVNQPVREAPVFERKKAGRVSPKRILFHVFTATLAVLLLYPVIWLFVSSFKESASIFTTSHSLIPDPFILSNYAEGWKGIAGQPFLTFIKNSAIIVGLSTIGAVMSSAVIAYGFARIPFKGKKFWFACMMGTLMLPHEVLMIPQYIMFAKLDWLNSFKPIVVPQFFGHAFFIFLMIQFIRTIPEELDEAARIDGCGRFACFWRIILPLIAPALATSAIFSFYWKWEELIQPLLYLNKPELYPVSLALKLFLDTESASNWGAMFAMSAVSLLPVILVFFLFQKYIVQGISTTGLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	296 (255)
Sequences:	69446 (45828)
Seq/√Len:	2869.8

ECOLI - YCJP MALG POTH UGPE YDCU UGPA PSTA YCJO PSTC YDCV POTI MALF POTB POTC CYST CYSW THIP YNJC MODB TAUC PHNE SSUC PROW YEHW YEHY METI
BACSU - YESQ YURM LPLC MDXG GANQ ARAQ GANP YTCP ARAP AMYC MDXF AMYD YESP YTEP LPLB YQGH YURN YQGI YVGM SSUC YTLD OPUAB TCYB METP TCYL YXEN OPUCB OPUBB OPUCD
HALSA - Q9HHQ6 Q9HML6 Q9HP01 Q9HHQ7 Q9HP02 Q9HMT4 Q9HS11 Q9HR05 Q9HPK3 Q9HNI9
SULSO - Q97UF3 Q97YY3 Q97UY9 Q97ZC1 Q97YY2 Q97VC0 Q97ZT6 Q97UZ0 Q97UF4 Q97ZT7 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
201_A	205_R	4.001	1.00
92_K	96_I	3.220	1.00
193_R	202_C	3.038	1.00
178_I	182_R	2.999	1.00
90_F	248_A	2.669	1.00
89_T	92_K	2.615	1.00
198_G	201_A	2.541	1.00
118_R	189_D	2.528	1.00
192_A	202_C	2.522	1.00
51_S	75_Y	2.486	1.00
180_F	214_A	2.478	1.00
76_A	80_K	2.473	1.00
189_D	207_I	2.466	1.00
104_G	167_F	2.429	1.00
243_Y	251_L	2.420	1.00
88_L	92_K	2.391	1.00
73_S	76_A	2.329	1.00
199_R	202_C	2.288	1.00
102_T	219_A	2.281	1.00
100_L	163_V	2.265	1.00
73_S	77_E	2.222	1.00
200_F	204_W	2.209	1.00
177_M	215_L	2.203	1.00
260_N	263_A	2.149	1.00
121_F	124_K	2.099	1.00
197_C	201_A	2.069	1.00
201_A	204_W	2.021	1.00
110_A	203_F	2.003	1.00
45_I	49_V	1.958	1.00
173_F	218_S	1.955	1.00
181_I	211_I	1.915	1.00
117_A	182_R	1.911	1.00
188_L	210_L	1.903	1.00
192_A	197_C	1.863	1.00
49_V	53_K	1.818	1.00
128_F	178_I	1.813	1.00
110_A	211_I	1.809	1.00
106_V	219_A	1.788	1.00
89_T	93_N	1.741	1.00
193_R	199_R	1.728	1.00
189_D	202_C	1.678	1.00
98_V	223_F	1.668	1.00
101_S	226_K	1.657	1.00
96_I	100_L	1.655	1.00
240_P	243_Y	1.649	1.00
109_S	173_F	1.625	1.00
110_A	177_M	1.594	1.00
112_I	174_I	1.581	1.00
77_E	263_A	1.571	1.00
189_D	193_R	1.559	1.00
116_F	174_I	1.539	1.00
30_H	34_A	1.483	1.00
186_E	189_D	1.479	1.00
230_L	234_L	1.471	1.00
77_E	80_K	1.467	1.00
123_G	126_F	1.465	1.00
248_A	252_F	1.432	1.00
120_P	124_K	1.432	1.00
173_F	222_S	1.431	1.00
48_F	269_A	1.431	1.00
117_A	178_I	1.394	1.00
42_Y	46_W	1.383	1.00
97_I	244_P	1.382	1.00
72_L	76_A	1.376	1.00
113_A	177_M	1.371	1.00
217_T	221_F	1.357	1.00
280_F	284_K	1.340	1.00
208_L	215_L	1.340	1.00
105_A	222_S	1.335	1.00
181_I	207_I	1.331	1.00
71_I	74_N	1.328	1.00
177_M	218_S	1.328	1.00
86_P	89_T	1.323	1.00
46_W	50_S	1.307	1.00
107_M	111_V	1.303	1.00
237_L	242_L	1.276	1.00
186_E	190_E	1.275	1.00
165_P	236_Y	1.272	1.00
163_V	167_F	1.269	1.00
118_R	186_E	1.263	1.00
230_L	250_K	1.258	1.00
232_Q	236_Y	1.242	1.00
192_A	206_I	1.236	1.00
187_E	190_E	1.234	1.00
159_F	242_L	1.233	1.00
150_F	161_P	1.228	1.00
110_A	215_L	1.227	1.00
114_Y	181_I	1.225	1.00
126_F	129_A	1.212	1.00
239_K	242_L	1.209	1.00
103_I	107_M	1.208	1.00
252_F	260_N	1.193	1.00
94_S	245_V	1.186	1.00
25_K	29_F	1.179	1.00
23_S	27_I	1.179	1.00
243_Y	248_A	1.178	1.00
34_A	38_V	1.176	1.00
184_I	210_L	1.168	1.00
100_L	103_I	1.167	1.00
57_S	69_P	1.151	1.00
47_L	269_A	1.137	1.00
198_G	202_C	1.134	1.00
106_V	215_L	1.133	1.00
93_N	96_I	1.132	1.00
24_P	28_L	1.124	1.00
27_I	31_V	1.123	1.00
252_F	258_A	1.123	1.00
212_A	216_A	1.115	1.00
126_F	130_C	1.080	1.00
229_E	232_Q	1.080	1.00
177_M	214_A	1.072	1.00
244_P	247_L	1.070	1.00
22_V	25_K	1.068	1.00
189_D	199_R	1.064	1.00
284_K	287_V	1.057	1.00
24_P	27_I	1.054	1.00
27_I	30_H	1.047	1.00
100_L	104_G	1.046	1.00
155_W	160_K	1.041	1.00
162_I	233_P	1.038	1.00
275_V	279_F	1.035	1.00
101_S	105_A	1.035	1.00
148_I	152_K	1.031	1.00
79_W	88_L	1.031	1.00
170_H	174_I	1.030	1.00
114_Y	203_F	1.024	1.00
210_L	213_P	1.020	1.00
243_Y	247_L	1.013	1.00
117_A	181_I	1.011	1.00
176_L	218_S	1.010	1.00
95_A	99_G	1.010	1.00
46_W	49_V	1.002	1.00
114_Y	199_R	0.994	1.00
111_V	115_G	0.992	1.00
157_N	239_K	0.987	1.00
54_E	57_S	0.974	1.00
104_G	163_V	0.971	1.00
101_S	166_Q	0.968	1.00
91_I	245_V	0.965	1.00
75_Y	269_A	0.964	1.00
103_I	219_A	0.961	1.00
202_C	205_R	0.955	1.00
197_C	202_C	0.953	1.00
80_K	84_G	0.942	1.00
233_P	244_P	0.933	1.00
248_A	267_M	0.932	1.00
124_K	182_R	0.928	1.00
74_N	262_G	0.927	1.00
26_R	30_H	0.923	1.00
229_E	233_P	0.921	1.00
113_A	117_A	0.909	1.00
37_A	41_L	0.908	1.00
281_L	285_Y	0.908	1.00
29_F	33_T	0.906	1.00
99_G	103_I	0.906	1.00
146_Q	236_Y	0.905	1.00
132_M	175_F	0.901	1.00
96_I	99_G	0.897	1.00
248_A	251_L	0.893	1.00
50_S	265_F	0.886	1.00
125_K	128_F	0.885	1.00
253_L	264_M	0.883	1.00
165_P	232_Q	0.882	1.00
101_S	163_V	0.882	1.00
166_Q	226_K	0.878	1.00
180_F	211_I	0.877	1.00
105_A	109_S	0.874	1.00
77_E	84_G	0.873	1.00
234_L	247_L	0.868	1.00
122_K	125_K	0.866	1.00
96_I	159_F	0.858	1.00
250_K	254_D	0.858	1.00
22_V	26_R	0.858	1.00
211_I	214_A	0.857	1.00
87_F	267_M	0.854	1.00
91_I	95_A	0.853	1.00
147_Y	151_A	0.849	1.00
109_S	174_I	0.847	1.00
173_F	177_M	0.845	1.00
212_A	215_L	0.843	1.00
202_C	207_I	0.838	1.00
177_M	211_I	0.838	1.00
204_W	208_L	0.837	1.00
203_F	208_L	0.837	1.00
52_F	70_F	0.832	1.00
197_C	205_R	0.831	1.00
116_F	128_F	0.830	1.00
84_G	88_L	0.829	1.00
104_G	107_M	0.823	1.00
78_G	270_V	0.818	1.00
115_G	121_F	0.817	1.00
277_L	281_L	0.817	1.00
50_S	53_K	0.815	1.00
86_P	240_P	0.813	1.00
100_L	167_F	0.811	1.00
222_S	226_K	0.807	1.00
113_A	174_I	0.806	1.00
92_K	95_A	0.805	1.00
163_V	166_Q	0.805	1.00
97_I	166_Q	0.800	1.00
252_F	267_M	0.799	1.00
252_F	263_A	0.797	1.00
53_K	57_S	0.796	1.00
139_H	169_G	0.790	1.00
47_L	265_F	0.788	1.00
199_R	203_F	0.786	1.00
212_A	285_Y	0.779	1.00
161_P	165_P	0.779	1.00
188_L	206_I	0.769	1.00
271_S	275_V	0.763	1.00
56_A	59_F	0.761	1.00
90_F	93_N	0.759	1.00
143_M	231_I	0.759	1.00
113_A	181_I	0.754	1.00
70_F	73_S	0.749	1.00
66_I	69_P	0.748	1.00
143_M	235_L	0.743	1.00
105_A	173_F	0.741	1.00
162_I	166_Q	0.737	1.00
76_A	79_W	0.734	1.00
112_I	170_H	0.732	1.00
85_Q	89_T	0.730	1.00
77_E	260_N	0.729	1.00
146_Q	165_P	0.729	1.00
251_L	257_S	0.726	1.00
42_Y	45_I	0.726	1.00
132_M	135_L	0.723	1.00
166_Q	169_G	0.717	1.00
177_M	181_I	0.716	1.00
116_F	127_W	0.715	1.00
47_L	268_S	0.714	1.00
98_V	102_T	0.714	1.00
203_F	207_I	0.713	1.00
184_I	211_I	0.712	1.00
229_E	244_P	0.712	1.00
72_L	75_Y	0.712	1.00
106_V	177_M	0.711	1.00
53_K	67_P	0.710	1.00
52_F	71_I	0.710	1.00
116_F	178_I	0.710	1.00
237_L	243_Y	0.706	1.00
108_S	170_H	0.706	1.00
151_A	156_L	0.705	1.00
57_S	68_D	0.705	1.00
139_H	231_I	0.702	1.00
263_A	267_M	0.701	1.00
247_L	251_L	0.701	1.00
245_V	271_S	0.700	1.00
265_F	269_A	0.700	1.00
215_L	218_S	0.698	1.00
54_E	69_P	0.696	1.00
88_L	91_I	0.696	1.00
282_F	285_Y	0.696	1.00
105_A	226_K	0.695	1.00
102_T	106_V	0.694	1.00
28_L	31_V	0.693	1.00
186_E	193_R	0.693	1.00
74_N	77_E	0.691	1.00
102_T	223_F	0.690	1.00
109_S	177_M	0.689	1.00
71_I	75_Y	0.682	1.00
54_E	68_D	0.681	1.00
28_L	32_F	0.681	1.00
90_F	245_V	0.681	1.00
142_L	168_F	0.680	1.00
37_A	40_L	0.679	1.00
191_A	195_D	0.676	1.00
31_V	34_A	0.674	1.00
249_L	267_M	0.669	1.00
153_L	156_L	0.668	1.00
262_G	265_F	0.662	1.00
94_S	246_S	0.660	1.00
281_L	284_K	0.659	1.00
279_F	283_Q	0.656	1.00
207_I	210_L	0.653	1.00
148_I	151_A	0.645	1.00
112_I	131_M	0.643	1.00
214_A	218_S	0.642	1.00
215_L	219_A	0.641	1.00
191_A	194_I	0.640	1.00
36_L	40_L	0.638	1.00
33_T	37_A	0.637	1.00
69_P	72_L	0.636	1.00
121_F	127_W	0.636	1.00
78_G	267_M	0.631	1.00
246_S	271_S	0.627	1.00
115_G	119_I	0.627	1.00
69_P	73_S	0.622	1.00
123_G	127_W	0.621	1.00
276_I	280_F	0.619	1.00
97_I	162_I	0.617	1.00
120_P	125_K	0.616	1.00
94_S	227_W	0.615	1.00
41_L	45_I	0.615	1.00
131_M	171_A	0.613	1.00
122_K	126_F	0.612	1.00
85_Q	88_L	0.612	1.00
128_F	175_F	0.611	1.00
86_P	248_A	0.608	1.00
176_L	214_A	0.605	1.00
233_P	247_L	0.602	1.00
113_A	178_I	0.600	1.00
50_S	54_E	0.599	1.00
146_Q	149_M	0.598	1.00
53_K	69_P	0.597	1.00
162_I	237_L	0.597	1.00
265_F	268_S	0.597	1.00
98_V	226_K	0.597	1.00
75_Y	266_A	0.593	1.00
97_I	101_S	0.592	1.00
98_V	227_W	0.592	1.00
55_S	59_F	0.591	1.00
55_S	67_P	0.590	1.00
140_E	235_L	0.589	1.00
108_S	167_F	0.588	1.00
150_F	156_L	0.585	1.00
53_K	68_D	0.585	1.00
105_A	167_F	0.585	1.00
23_S	26_R	0.585	1.00
219_A	222_S	0.584	1.00
129_A	133_G	0.583	1.00
135_L	171_A	0.583	1.00
202_C	206_I	0.583	1.00
257_S	260_N	0.582	1.00
51_S	266_A	0.582	1.00
26_R	29_F	0.581	1.00
231_I	234_L	0.580	1.00
225_W	228_E	0.580	1.00
78_G	263_A	0.579	1.00
97_I	163_V	0.576	1.00
204_W	207_I	0.574	1.00
261_W	265_F	0.573	1.00
32_F	36_L	0.569	1.00
216_A	219_A	0.568	1.00
224_Y	228_E	0.568	1.00
161_P	236_Y	0.568	1.00
226_K	229_E	0.565	1.00
119_I	199_R	0.565	1.00
125_K	129_A	0.564	1.00
114_Y	207_I	0.564	1.00
93_N	242_L	0.559	1.00
155_W	158_S	0.559	1.00
67_P	70_F	0.558	1.00
97_I	159_F	0.558	1.00
106_V	110_A	0.558	1.00
135_L	172_F	0.553	1.00
120_P	186_E	0.547	1.00
127_W	131_M	0.547	1.00
268_S	271_S	0.545	1.00
93_N	244_P	0.544	1.00
259_S	263_A	0.544	1.00
38_V	42_Y	0.542	1.00
274_P	277_L	0.542	1.00
143_M	147_Y	0.542	1.00
51_S	269_A	0.539	1.00
134_T	171_A	0.538	1.00
139_H	143_M	0.537	1.00
190_E	193_R	0.537	1.00
198_G	204_W	0.536	1.00
35_T	39_L	0.536	1.00
263_A	266_A	0.535	1.00
128_F	182_R	0.531	1.00
233_P	237_L	0.530	1.00
166_Q	229_E	0.530	1.00
110_A	208_L	0.528	1.00
130_C	134_T	0.528	1.00
101_S	167_F	0.527	1.00
30_H	33_T	0.527	1.00
184_I	189_D	0.526	1.00
261_W	264_M	0.517	1.00
112_I	115_G	0.516	1.00
89_T	96_I	0.514	1.00
149_M	156_L	0.512	1.00
231_I	235_L	0.512	1.00
155_W	159_F	0.510	1.00
102_T	107_M	0.509	1.00
218_S	222_S	0.509	1.00
102_T	226_K	0.508	1.00
106_V	111_V	0.507	1.00
277_L	280_F	0.505	1.00
86_P	243_Y	0.502	1.00
247_L	250_K	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	0.9122	100	0.307	Contact Map
3rlfG	1	0.9088	100	0.33	Contact Map
2onkC	2	0.8176	100	0.349	Contact Map
3d31C	2	0.7973	100	0.374	Contact Map
4tquM	1	0.8716	100	0.397	Contact Map
3rlfF	1	0.9223	100	0.431	Contact Map
4ymuD	2	0.7162	99.9	0.54	Contact Map
3tuiA	2	0.6993	99.9	0.563	Contact Map
2kogA	1	0.1588	35	0.938	Contact Map
3hd7A	1	0.1588	16.2	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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