YCLO - BACSU - GREMLIN Contacts

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YCLO - Uncharacterized ABC transporter permease protein YclO

UniProt:	P94419	Sequences: MRNQMKIALLVGLAIVCIGLFLFYDLGNWDYTLPRRIKKVAAIVLTGGAIAFSTMIFQTITNNRILTPSILGLDSLYMLIQTGIIFLFGSANMVIMNKNINFIISVLLMILFSLVLYQIMFKGEGRNIFFLLLIGIVFGTLFSSLSSFMQMLIDPNEFQVVQDKMFASFNNINTDLLWLAFIIFLLTGVYVWRFTKFFDVLSLGREHAVNLGIDYDKVVKQMLIVVAILVSVSTALVGPIMFLGLLVVNLAREFLKTYKHSYLIAGSVFISIIALVGGQFVVEKVFTFSTTLSVIINFAGGIYFIYLLLKENKSW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	315 (295)
Sequences:	13409 (9543)
Seq/√Len:	555.6

ECOLI - FEPG FEPD FECC BTUC FECD FHUB
BACSU - YCLO FHUB FHUG YCLN FEUC YVRB YFHA YFIZ FEUB YFME YFMD
HALSA - Q9HMG0 Q9HMG7 BTUCA
SULSO - Q97ZU1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
199_D	259_K	4.839	1.00
48_G	268_V	3.944	1.00
84_I	104_I	3.759	1.00
56_I	191_V	3.668	1.00
214_D	217_K	3.364	1.00
44_V	272_I	3.294	1.00
56_I	222_M	3.251	1.00
49_A	184_F	3.243	1.00
12_G	15_I	3.049	1.00
43_I	169_F	2.998	1.00
251_A	270_I	2.957	1.00
42_A	172_I	2.784	1.00
49_A	233_S	2.650	1.00
49_A	229_L	2.634	1.00
52_F	268_V	2.598	1.00
79_L	145_L	2.455	1.00
205_R	219_V	2.454	1.00
46_T	233_S	2.365	1.00
255_L	266_G	2.321	1.00
44_V	276_V	2.306	1.00
55_M	267_S	2.284	1.00
52_F	188_G	2.281	1.00
25_D	28_N	2.195	1.00
15_I	18_I	2.191	1.00
79_L	142_F	2.150	1.00
39_K	279_Q	2.118	1.00
46_T	237_V	2.112	1.00
197_F	218_V	2.094	1.00
45_L	181_F	2.090	1.00
199_D	260_H	2.073	1.00
183_I	232_V	2.006	1.00
59_T	260_H	2.001	1.00
57_F	226_V	1.938	1.00
83_G	87_L	1.937	1.00
19_G	22_L	1.917	1.00
194_F	197_F	1.912	1.00
200_V	213_I	1.888	1.00
82_T	146_S	1.834	1.00
172_I	176_L	1.824	1.00
190_Y	225_V	1.797	1.00
187_T	229_L	1.762	1.00
19_G	23_F	1.751	1.00
15_I	28_N	1.736	1.00
26_L	29_W	1.698	1.00
281_V	285_V	1.691	1.00
29_W	33_L	1.685	1.00
194_F	221_Q	1.659	1.00
109_M	231_S	1.651	1.00
55_M	263_L	1.636	1.00
18_I	22_L	1.633	1.00
243_L	275_L	1.619	1.00
217_K	221_Q	1.605	1.00
178_W	182_I	1.604	1.00
41_A	177_L	1.589	1.00
18_I	23_F	1.587	1.00
81_Q	105_S	1.575	1.00
194_F	218_V	1.569	1.00
113_S	227_A	1.568	1.00
187_T	228_I	1.563	1.00
17_C	21_F	1.561	1.00
173_N	176_L	1.551	1.00
282_V	292_L	1.542	1.00
80_I	104_I	1.528	1.00
187_T	225_V	1.457	1.00
251_A	266_G	1.447	1.00
169_F	275_L	1.442	1.00
281_V	295_I	1.433	1.00
262_Y	265_A	1.428	1.00
53_S	229_L	1.390	1.00
78_M	146_S	1.386	1.00
112_F	142_F	1.370	1.00
251_A	263_L	1.369	1.00
141_L	301_G	1.361	1.00
42_A	236_L	1.339	1.00
51_A	247_V	1.333	1.00
190_Y	194_F	1.323	1.00
12_G	18_I	1.317	1.00
178_W	181_F	1.312	1.00
74_D	230_V	1.310	1.00
194_F	222_M	1.306	1.00
45_L	177_L	1.301	1.00
182_I	186_L	1.296	1.00
209_V	216_D	1.275	1.00
247_V	274_A	1.274	1.00
283_E	289_S	1.266	1.00
247_V	270_I	1.257	1.00
60_I	222_M	1.243	1.00
180_A	236_L	1.237	1.00
217_K	220_K	1.235	1.00
80_I	108_L	1.228	1.00
207_H	210_N	1.222	1.00
30_D	34_P	1.217	1.00
218_V	221_Q	1.206	1.00
55_M	264_I	1.201	1.00
23_F	29_W	1.199	1.00
200_V	211_L	1.190	1.00
260_H	263_L	1.189	1.00
27_G	30_D	1.185	1.00
216_D	219_V	1.182	1.00
43_I	276_V	1.179	1.00
190_Y	221_Q	1.178	1.00
82_T	161_V	1.178	1.00
237_V	240_I	1.178	1.00
40_V	280_F	1.175	1.00
106_V	228_I	1.175	1.00
78_M	165_M	1.172	1.00
79_L	83_G	1.156	1.00
55_M	260_H	1.152	1.00
273_I	277_G	1.151	1.00
279_Q	283_E	1.151	1.00
19_G	24_Y	1.149	1.00
191_V	225_V	1.144	1.00
14_A	18_I	1.142	1.00
204_G	208_A	1.140	1.00
42_A	177_L	1.137	1.00
76_L	112_F	1.129	1.00
118_Q	121_F	1.128	1.00
103_I	107_L	1.115	1.00
45_L	180_A	1.114	1.00
116_L	138_F	1.113	1.00
265_A	268_V	1.103	1.00
43_I	275_L	1.101	1.00
155_P	159_Q	1.087	1.00
48_G	272_I	1.083	1.00
41_A	174_T	1.080	1.00
86_F	149_M	1.079	1.00
19_G	33_L	1.077	1.00
104_I	108_L	1.076	1.00
48_G	51_A	1.074	1.00
76_L	108_L	1.072	1.00
262_Y	266_G	1.069	1.00
139_G	143_S	1.063	1.00
216_D	220_K	1.059	1.00
189_V	193_R	1.048	1.00
247_V	251_A	1.044	1.00
255_L	262_Y	1.042	1.00
240_I	275_L	1.040	1.00
75_S	142_F	1.037	1.00
180_A	184_F	1.035	1.00
187_T	232_V	1.034	1.00
281_V	284_K	1.034	1.00
83_G	149_M	1.019	1.00
33_L	37_I	1.013	1.00
218_V	222_M	1.010	1.00
206_E	209_V	1.010	1.00
297_N	302_I	1.009	1.00
282_V	295_I	1.004	1.00
186_L	189_V	0.999	1.00
233_S	237_V	0.995	1.00
154_D	157_E	0.992	1.00
198_F	222_M	0.984	1.00
284_K	287_T	0.984	1.00
74_D	239_P	0.983	1.00
79_L	146_S	0.976	1.00
182_I	185_L	0.973	1.00
174_T	177_L	0.972	1.00
15_I	22_L	0.972	1.00
179_L	182_I	0.964	1.00
40_V	276_V	0.964	1.00
79_L	149_M	0.948	1.00
254_F	270_I	0.948	1.00
213_I	218_V	0.945	1.00
302_I	306_Y	0.944	1.00
48_G	188_G	0.944	1.00
73_L	109_M	0.940	1.00
45_L	184_F	0.940	1.00
19_G	29_W	0.933	1.00
49_A	53_S	0.931	1.00
18_I	24_Y	0.928	1.00
18_I	21_F	0.925	1.00
263_L	267_S	0.925	1.00
277_G	281_V	0.919	1.00
303_Y	306_Y	0.911	1.00
111_L	115_V	0.908	1.00
15_I	23_F	0.906	1.00
148_F	152_L	0.901	1.00
12_G	19_G	0.897	1.00
69_S	74_D	0.896	1.00
77_Y	109_M	0.893	1.00
29_W	34_P	0.890	1.00
260_H	265_A	0.889	1.00
12_G	20_L	0.884	1.00
54_T	248_V	0.881	1.00
205_R	209_V	0.875	1.00
117_Y	216_D	0.874	1.00
155_P	158_F	0.873	1.00
53_S	226_V	0.873	1.00
282_V	291_T	0.869	1.00
259_K	262_Y	0.868	1.00
161_V	165_M	0.854	1.00
20_L	23_F	0.854	1.00
39_K	283_E	0.854	1.00
183_I	187_T	0.854	1.00
194_F	225_V	0.851	1.00
199_D	261_S	0.851	1.00
92_N	100_I	0.848	1.00
12_G	16_V	0.847	1.00
39_K	289_S	0.843	1.00
277_G	280_F	0.842	1.00
107_L	111_L	0.841	1.00
117_Y	220_K	0.839	1.00
208_A	215_Y	0.836	1.00
15_I	19_G	0.835	1.00
81_Q	101_N	0.835	1.00
190_Y	193_R	0.834	1.00
195_T	261_S	0.832	1.00
205_R	215_Y	0.829	1.00
51_A	55_M	0.829	1.00
114_L	118_Q	0.828	1.00
12_G	22_L	0.825	1.00
220_K	224_I	0.824	1.00
159_Q	162_Q	0.823	1.00
176_L	236_L	0.820	1.00
251_A	255_L	0.819	1.00
48_G	184_F	0.818	1.00
243_L	296_I	0.817	1.00
12_G	23_F	0.817	1.00
185_L	189_V	0.815	1.00
255_L	258_Y	0.811	1.00
156_N	160_V	0.811	1.00
110_I	231_S	0.804	1.00
109_M	227_A	0.802	1.00
14_A	17_C	0.801	1.00
37_I	174_T	0.794	1.00
175_D	178_W	0.790	1.00
57_F	71_L	0.789	1.00
251_A	254_F	0.789	1.00
191_V	222_M	0.789	1.00
85_I	101_N	0.788	1.00
67_T	70_I	0.784	1.00
223_L	227_A	0.781	1.00
106_V	110_I	0.778	1.00
252_R	263_L	0.774	1.00
286_F	290_T	0.773	1.00
298_F	302_I	0.765	1.00
76_L	142_F	0.762	1.00
26_L	30_D	0.762	1.00
83_G	145_L	0.761	1.00
73_L	113_S	0.759	1.00
75_S	78_M	0.759	1.00
215_Y	219_V	0.758	1.00
50_I	243_L	0.758	1.00
25_D	29_W	0.755	1.00
13_L	17_C	0.749	1.00
275_L	296_I	0.747	1.00
52_F	191_V	0.746	1.00
180_A	232_V	0.745	1.00
250_L	270_I	0.737	1.00
199_D	265_A	0.736	1.00
274_A	278_G	0.735	1.00
30_D	33_L	0.731	1.00
269_F	273_I	0.730	1.00
52_F	264_I	0.727	1.00
197_F	213_I	0.724	1.00
83_G	88_F	0.723	1.00
13_L	20_L	0.723	1.00
82_T	150_Q	0.722	1.00
15_I	24_Y	0.722	1.00
184_F	233_S	0.717	1.00
86_F	153_I	0.715	1.00
16_V	19_G	0.712	1.00
209_V	215_Y	0.709	1.00
193_R	197_F	0.708	1.00
51_A	268_V	0.707	1.00
113_S	223_L	0.707	1.00
120_M	124_E	0.707	1.00
279_Q	289_S	0.706	1.00
61_T	132_L	0.706	1.00
13_L	18_I	0.705	1.00
85_I	160_V	0.701	1.00
84_I	101_N	0.701	1.00
30_D	35_R	0.697	1.00
306_Y	310_K	0.695	1.00
180_A	183_I	0.695	1.00
174_T	178_W	0.692	1.00
232_V	236_L	0.691	1.00
201_L	215_Y	0.686	1.00
41_A	45_L	0.684	1.00
59_T	202_S	0.681	1.00
187_T	191_V	0.680	1.00
42_A	180_A	0.680	1.00
48_G	52_F	0.679	1.00
181_F	185_L	0.677	1.00
272_I	276_V	0.676	1.00
240_I	292_L	0.672	1.00
275_L	292_L	0.670	1.00
78_M	239_P	0.668	1.00
53_S	230_V	0.668	1.00
192_W	195_T	0.668	1.00
268_V	272_I	0.667	1.00
162_Q	165_M	0.665	1.00
250_L	253_E	0.664	1.00
56_I	225_V	0.663	1.00
276_V	280_F	0.662	1.00
248_V	267_S	0.662	1.00
232_V	235_A	0.660	1.00
278_G	295_I	0.660	1.00
67_T	244_G	0.657	1.00
253_E	307_L	0.653	1.00
74_D	77_Y	0.652	1.00
85_I	161_V	0.652	1.00
110_I	227_A	0.652	1.00
129_F	132_L	0.652	1.00
150_Q	162_Q	0.651	1.00
46_T	169_F	0.650	1.00
37_I	41_A	0.649	1.00
243_L	274_A	0.649	1.00
282_V	289_S	0.646	1.00
183_I	228_I	0.644	1.00
157_E	160_V	0.644	1.00
250_L	274_A	0.642	1.00
265_A	269_F	0.640	1.00
188_G	192_W	0.639	1.00
147_S	164_K	0.639	1.00
80_I	84_I	0.639	1.00
227_A	231_S	0.637	1.00
14_A	23_F	0.637	1.00
127_N	130_F	0.637	1.00
112_F	116_L	0.636	1.00
245_L	307_L	0.632	1.00
246_L	304_F	0.628	1.00
108_L	112_F	0.628	1.00
112_F	138_F	0.626	1.00
32_T	37_I	0.623	1.00
120_M	134_I	0.623	1.00
57_F	66_L	0.623	1.00
19_G	28_N	0.622	1.00
153_I	158_F	0.621	1.00
61_T	64_R	0.619	1.00
274_A	299_A	0.617	1.00
122_K	216_D	0.614	1.00
12_G	24_Y	0.612	1.00
280_F	284_K	0.611	1.00
309_L	312_N	0.610	1.00
184_F	188_G	0.610	1.00
256_K	265_A	0.609	1.00
87_L	90_S	0.609	1.00
197_F	200_V	0.609	1.00
84_I	88_F	0.608	1.00
169_F	237_V	0.607	1.00
17_C	22_L	0.607	1.00
122_K	126_R	0.604	1.00
270_I	273_I	0.604	1.00
151_M	154_D	0.603	1.00
150_Q	165_M	0.600	1.00
143_S	147_S	0.600	1.00
221_Q	224_I	0.600	1.00
122_K	125_G	0.596	1.00
57_F	73_L	0.595	1.00
214_D	221_Q	0.595	1.00
143_S	165_M	0.591	1.00
134_I	137_V	0.591	1.00
75_S	139_G	0.591	1.00
186_L	190_Y	0.590	1.00
193_R	196_K	0.589	1.00
42_A	46_T	0.589	1.00
111_L	114_L	0.588	1.00
246_L	303_Y	0.581	1.00
177_L	181_F	0.579	1.00
169_F	292_L	0.579	1.00
199_D	202_S	0.579	1.00
153_I	157_E	0.578	0.99
221_Q	225_V	0.576	0.99
231_S	235_A	0.575	0.99
88_F	91_A	0.575	0.99
175_D	179_L	0.574	0.99
24_Y	29_W	0.573	0.99
230_V	234_T	0.572	0.99
147_S	151_M	0.572	0.99
261_S	265_A	0.572	0.99
199_D	263_L	0.571	0.99
107_L	110_I	0.571	0.99
115_V	118_Q	0.570	0.99
201_L	218_V	0.570	0.99
73_L	116_L	0.569	0.99
43_I	292_L	0.569	0.99
13_L	16_V	0.568	0.99
246_L	250_L	0.567	0.99
222_M	226_V	0.563	0.99
179_L	232_V	0.560	0.99
15_I	20_L	0.560	0.99
191_V	264_I	0.560	0.99
250_L	303_Y	0.559	0.99
150_Q	158_F	0.554	0.99
84_I	100_I	0.552	0.99
241_M	246_L	0.552	0.99
266_G	269_F	0.549	0.99
193_R	221_Q	0.549	0.99
198_F	260_H	0.548	0.99
62_N	205_R	0.545	0.99
55_M	251_A	0.545	0.99
179_L	183_I	0.545	0.99
184_F	189_V	0.543	0.99
81_Q	104_I	0.543	0.99
214_D	220_K	0.543	0.99
66_L	73_L	0.543	0.99
51_A	271_S	0.543	0.99
75_S	143_S	0.542	0.99
150_Q	161_V	0.542	0.99
16_V	32_T	0.542	0.99
27_G	31_Y	0.540	0.99
42_A	237_V	0.539	0.99
126_R	130_F	0.538	0.99
250_L	254_F	0.538	0.99
159_Q	165_M	0.538	0.99
251_A	267_S	0.537	0.99
123_G	126_R	0.535	0.99
52_F	184_F	0.534	0.99
158_F	161_V	0.532	0.99
44_V	169_F	0.531	0.99
120_M	123_G	0.530	0.99
60_I	226_V	0.530	0.99
196_K	199_D	0.530	0.99
55_M	59_T	0.527	0.99
134_I	138_F	0.526	0.99
163_D	168_S	0.526	0.99
226_V	231_S	0.525	0.99
86_F	151_M	0.525	0.99
57_F	227_A	0.524	0.99
188_G	268_V	0.524	0.99
101_N	104_I	0.523	0.99
249_N	252_R	0.522	0.99
177_L	180_A	0.520	0.99
148_F	294_V	0.519	0.99
41_A	181_F	0.519	0.99
198_F	264_I	0.518	0.99
93_M	100_I	0.516	0.99
62_N	204_G	0.516	0.99
142_F	145_L	0.515	0.99
59_T	263_L	0.515	0.99
56_I	226_V	0.514	0.99
247_V	278_G	0.514	0.99
61_T	130_F	0.509	0.99
67_T	239_P	0.509	0.99
306_Y	309_L	0.506	0.99
44_V	273_I	0.505	0.99
23_F	33_L	0.505	0.99
115_V	138_F	0.505	0.99
15_I	21_F	0.503	0.99
76_L	138_F	0.501	0.99
12_G	28_N	0.501	0.99
67_T	296_I	0.500	0.99

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)
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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
2nq2A	2	0.9111	100	0.193	Contact Map
2qi9A	2	0.9619	100	0.203	Contact Map
4g1uA	2	0.8984	100	0.205	Contact Map
3o7qA	1	0.3492	9	0.968	Contact Map
1pw4A	1	0.8857	7.9	0.969	Contact Map
2l9uA	2	0.0921	7.8	0.969	Contact Map
2cfqA	1	0.4	5.3	0.972	Contact Map
3l1lA	2	0.854	4.9	0.972	Contact Map
1u7gA	3	0.6	4.5	0.972	Contact Map
4ikvA	1	0.9048	4.4	0.972	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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