YLBC - BACSU - GREMLIN Contacts

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YLBC - Uncharacterized membrane protein YlbC

UniProt:	O34586	Sequences: MKNILRAMVILLIICGTYVLFIQYGSVPEKKSNDSEPQVSNEEAQSGKRIHMPTSGLLSFMGKHADEVTKKLGEPERIDPSAYDYDWWVYNQGKDQYIQIGVLNNKVVTLFASGNDINAKPFKIGESTGEVFKTTQVAPFVNVEYKGNSYRFEFSEEDINTRPTVKVGKMYVQLYMDKFEGKLSSIRAFDAQTFVKQRPYEVVYRGELIKPKAVSDEKWKKIQTTSEKQILDLTNVIRVKHGLAKLEWDQPTAEVAFGHSEDMKENNYFSHVSKKYGSLKDRLEEGHVDFQQAGENIAYNYVDGPAAVEGWLNSEGHRKALLNSDYTHLGVGVDRKYYTQNFIKRW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	346 (292)
Sequences:	386 (331)
Seq/√Len:	19.4

BACSU - YLBC YKWD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
278_S	281_D	4.726	1.00
259_H	282_R	4.479	1.00
185_S	309_E	4.464	1.00
315_E	319_K	4.423	1.00
260_S	339_T	4.222	1.00
273_S	277_G	4.026	1.00
174_L	183_L	3.918	1.00
249_D	328_H	3.870	1.00
294_G	326_Y	3.752	1.00
68_V	107_V	3.635	1.00
77_R	232_D	3.044	0.99
227_E	257_F	2.979	0.99
99_Q	232_D	2.905	0.99
164_T	194_F	2.801	0.99
72_L	98_I	2.680	0.98
263_M	339_T	2.397	0.96
260_S	263_M	2.385	0.96
262_D	273_S	2.376	0.96
214_V	222_I	2.371	0.96
261_E	265_E	2.262	0.95
268_Y	274_K	2.220	0.94
233_L	243_L	2.171	0.93
172_V	188_A	2.123	0.93
53_P	56_G	2.088	0.92
259_H	263_M	2.067	0.92
231_L	248_W	2.062	0.91
231_L	329_L	2.052	0.91
292_Q	323_N	1.982	0.90
234_T	329_L	1.959	0.89
230_I	297_I	1.949	0.89
34_D	37_P	1.948	0.89
248_W	329_L	1.944	0.89
271_H	295_E	1.870	0.87
258_G	286_G	1.870	0.87
262_D	266_N	1.857	0.86
260_S	332_G	1.810	0.85
50_I	53_P	1.801	0.85
75_P	90_Y	1.798	0.84
263_M	271_H	1.794	0.84
77_R	90_Y	1.785	0.84
283_L	293_A	1.765	0.83
255_V	286_G	1.762	0.83
184_S	309_E	1.714	0.81
100_I	110_L	1.681	0.80
78_I	86_D	1.678	0.80
68_V	100_I	1.668	0.80
230_I	311_W	1.640	0.78
252_T	255_V	1.640	0.78
79_D	232_D	1.608	0.77
262_D	281_D	1.603	0.77
229_Q	232_D	1.598	0.76
65_A	88_W	1.559	0.75
274_K	277_G	1.535	0.73
99_Q	229_Q	1.520	0.73
279_L	312_L	1.516	0.73
235_N	296_N	1.510	0.72
219_W	335_R	1.496	0.71
271_H	316_G	1.490	0.71
263_M	282_R	1.463	0.70
79_D	89_V	1.445	0.69
314_S	317_H	1.445	0.69
282_R	341_N	1.436	0.68
190_D	193_T	1.435	0.68
263_M	332_G	1.427	0.68
69_T	74_E	1.424	0.68
296_N	317_H	1.415	0.67
235_N	317_H	1.387	0.66
166_K	169_K	1.386	0.65
36_E	44_A	1.369	0.64
260_S	269_F	1.361	0.64
237_I	308_V	1.345	0.63
101_G	109_T	1.339	0.63
269_F	332_G	1.323	0.62
89_V	326_Y	1.322	0.62
95_D	104_N	1.295	0.60
230_I	340_Q	1.289	0.60
179_F	315_E	1.283	0.59
297_I	340_Q	1.268	0.58
263_M	269_F	1.261	0.58
304_G	308_V	1.249	0.57
290_F	300_N	1.247	0.57
234_T	308_V	1.233	0.56
101_G	240_K	1.226	0.56
259_H	341_N	1.225	0.56
269_F	295_E	1.222	0.55
174_L	338_Y	1.211	0.55
283_L	343_I	1.209	0.55
109_T	198_R	1.201	0.54
257_F	287_H	1.197	0.54
36_E	43_E	1.188	0.53
263_M	273_S	1.182	0.53
73_G	77_R	1.180	0.53
47_G	51_H	1.175	0.53
117_I	155_S	1.165	0.52
111_F	309_E	1.162	0.52
142_N	149_S	1.159	0.51
34_D	38_Q	1.155	0.51
316_G	320_A	1.154	0.51
140_F	309_E	1.153	0.51
282_R	339_T	1.149	0.51
101_G	108_V	1.147	0.51
52_M	58_L	1.145	0.51
117_I	342_F	1.139	0.50
112_A	305_P	1.135	0.50
308_V	336_K	1.135	0.50
238_R	296_N	1.127	0.49
123_K	250_Q	1.125	0.49
301_Y	306_A	1.117	0.49
187_R	194_F	1.111	0.48
39_V	44_A	1.105	0.48
259_H	339_T	1.102	0.48
187_R	303_D	1.095	0.47
96_Q	169_K	1.094	0.47
230_I	331_V	1.092	0.47
73_G	90_Y	1.084	0.47
259_H	295_E	1.082	0.47
113_S	233_L	1.081	0.47
311_W	340_Q	1.076	0.46
89_V	99_Q	1.065	0.46
55_S	64_H	1.064	0.45
36_E	46_S	1.058	0.45
259_H	269_F	1.053	0.45
115_N	172_V	1.052	0.45
81_S	101_G	1.049	0.44
35_S	38_Q	1.047	0.44
271_H	317_H	1.042	0.44
56_G	59_S	1.035	0.44
175_Y	333_V	1.033	0.43
259_H	307_A	1.033	0.43
122_F	183_L	1.031	0.43
292_Q	325_D	1.029	0.43
248_W	253_A	1.018	0.43
229_Q	333_V	1.015	0.42
272_V	280_K	1.003	0.42
194_F	303_D	0.996	0.41
235_N	238_R	0.994	0.41
39_V	45_Q	0.993	0.41
49_R	287_H	0.992	0.41
238_R	317_H	0.989	0.41
263_M	298_A	0.988	0.41
280_K	293_A	0.984	0.40
82_A	303_D	0.984	0.40
298_A	332_G	0.982	0.40
124_I	290_F	0.974	0.40
152_F	164_T	0.971	0.40
194_F	301_Y	0.971	0.40
233_L	246_L	0.965	0.39
37_P	40_S	0.961	0.39
39_V	324_S	0.957	0.39
289_D	342_F	0.957	0.39
85_Y	194_F	0.954	0.39
84_D	186_I	0.950	0.38
273_S	282_R	0.942	0.38
295_E	332_G	0.937	0.38
239_V	245_K	0.937	0.38
272_V	278_S	0.934	0.37
223_Q	326_Y	0.933	0.37
65_A	69_T	0.926	0.37
166_K	191_A	0.924	0.37
45_Q	48_K	0.919	0.37
64_H	106_K	0.910	0.36
38_Q	43_E	0.909	0.36
259_H	318_R	0.907	0.36
79_D	99_Q	0.906	0.36
87_W	99_Q	0.906	0.36
237_I	312_L	0.904	0.36
62_G	77_R	0.904	0.36
42_E	67_E	0.901	0.35
175_Y	187_R	0.892	0.35
282_R	307_A	0.891	0.35
283_L	294_G	0.865	0.33
62_G	73_G	0.864	0.33
40_S	43_E	0.863	0.33
107_V	138_A	0.863	0.33
46_S	247_E	0.863	0.33
254_E	324_S	0.861	0.33
246_L	321_L	0.858	0.33
35_S	42_E	0.858	0.33
45_Q	67_E	0.858	0.33
61_M	232_D	0.856	0.33
263_M	314_S	0.851	0.33
235_N	314_S	0.846	0.32
81_S	102_V	0.839	0.32
51_H	54_T	0.839	0.32
296_N	314_S	0.839	0.32
279_L	283_L	0.839	0.32
240_K	309_E	0.837	0.32
217_E	337_Y	0.833	0.32
85_Y	101_G	0.833	0.32
94_K	239_V	0.830	0.31
175_Y	306_A	0.830	0.31
38_Q	67_E	0.828	0.31
51_H	55_S	0.820	0.31
162_R	301_Y	0.819	0.31
68_V	92_Q	0.816	0.31
83_Y	87_W	0.813	0.31
259_H	271_H	0.813	0.31
269_F	316_G	0.812	0.30
132_F	172_V	0.807	0.30
129_G	167_V	0.805	0.30
73_G	97_Y	0.803	0.30
226_S	262_D	0.801	0.30
61_M	86_D	0.801	0.30
260_S	282_R	0.796	0.30
249_D	252_T	0.789	0.29
79_D	304_G	0.789	0.29
86_D	270_S	0.788	0.29
285_E	337_Y	0.787	0.29
238_R	295_E	0.787	0.29
126_E	333_V	0.782	0.29
34_D	39_V	0.781	0.29
41_N	46_S	0.779	0.29
91_N	231_L	0.779	0.29
79_D	91_N	0.778	0.29
43_E	267_N	0.778	0.29
109_T	306_A	0.775	0.28
37_P	41_N	0.774	0.28
271_H	339_T	0.772	0.28
35_S	46_S	0.772	0.28
182_K	266_N	0.770	0.28
188_A	320_A	0.768	0.28
110_L	117_I	0.766	0.28
273_S	276_Y	0.766	0.28
297_I	329_L	0.766	0.28
255_V	274_K	0.765	0.28
79_D	229_Q	0.761	0.28
319_K	325_D	0.760	0.28
103_L	196_K	0.758	0.28
45_Q	220_K	0.758	0.28
234_T	312_L	0.757	0.28
173_Q	306_A	0.752	0.27
291_Q	344_K	0.751	0.27
36_E	64_H	0.749	0.27
101_G	303_D	0.747	0.27
173_Q	308_V	0.746	0.27
38_Q	41_N	0.744	0.27
72_L	231_L	0.742	0.27
295_E	316_G	0.742	0.27
223_Q	309_E	0.738	0.27
127_S	326_Y	0.735	0.26
230_I	342_F	0.735	0.26
73_G	107_V	0.735	0.26
77_R	177_D	0.734	0.26
298_A	307_A	0.732	0.26
88_W	229_Q	0.731	0.26
173_Q	303_D	0.730	0.26
35_S	41_N	0.729	0.26
85_Y	303_D	0.728	0.26
67_E	250_Q	0.726	0.26
127_S	130_E	0.724	0.26
68_V	102_V	0.720	0.26
70_K	191_A	0.720	0.26
87_W	329_L	0.719	0.26
102_V	107_V	0.717	0.26
101_G	340_Q	0.717	0.26
43_E	46_S	0.717	0.26
74_E	130_E	0.712	0.25
44_A	59_S	0.712	0.25
35_S	40_S	0.712	0.25
221_K	302_V	0.711	0.25
74_E	251_P	0.711	0.25
259_H	273_S	0.710	0.25
168_G	247_E	0.707	0.25
178_K	252_T	0.707	0.25
37_P	43_E	0.702	0.25
66_D	254_E	0.700	0.25
290_F	313_N	0.697	0.25
232_D	331_V	0.696	0.25
241_H	304_G	0.696	0.25
81_S	85_Y	0.696	0.25
162_R	175_Y	0.695	0.25
303_D	306_A	0.695	0.25
163_P	176_M	0.691	0.24
90_Y	232_D	0.687	0.24
234_T	248_W	0.686	0.24
97_Y	311_W	0.683	0.24
75_P	81_S	0.681	0.24
283_L	315_E	0.679	0.24
142_N	249_D	0.676	0.24
268_Y	278_S	0.675	0.24
109_T	163_P	0.674	0.24
297_I	341_N	0.673	0.24
162_R	173_Q	0.673	0.24
75_P	79_D	0.672	0.23
227_E	290_F	0.671	0.23
177_D	338_Y	0.671	0.23
35_S	47_G	0.667	0.23
87_W	232_D	0.666	0.23
66_D	244_A	0.665	0.23
133_K	265_E	0.665	0.23
308_V	311_W	0.664	0.23
332_G	339_T	0.660	0.23
289_D	327_T	0.659	0.23
89_V	102_V	0.658	0.23
37_P	323_N	0.658	0.23
271_H	297_I	0.657	0.23
177_D	318_R	0.657	0.23
239_V	242_G	0.657	0.23
66_D	102_V	0.652	0.23
275_K	343_I	0.651	0.23
54_T	106_K	0.650	0.22
221_K	244_A	0.650	0.22
293_A	307_A	0.649	0.22
281_D	300_N	0.649	0.22
39_V	42_E	0.648	0.22
64_H	251_P	0.648	0.22
66_D	287_H	0.646	0.22
43_E	48_K	0.646	0.22
46_S	54_T	0.645	0.22
35_S	285_E	0.644	0.22
316_G	333_V	0.644	0.22
300_N	320_A	0.643	0.22
253_A	311_W	0.643	0.22
41_N	49_R	0.641	0.22
113_S	305_P	0.639	0.22
154_F	334_D	0.638	0.22
214_V	218_K	0.637	0.22
175_Y	311_W	0.637	0.22
170_M	240_K	0.637	0.22
37_P	49_R	0.637	0.22
176_M	188_A	0.636	0.22
53_P	178_K	0.636	0.22
216_D	219_W	0.633	0.22
215_S	219_W	0.630	0.22
288_V	293_A	0.629	0.22
227_E	300_N	0.629	0.22
99_Q	248_W	0.629	0.22
80_P	225_T	0.627	0.21
112_A	306_A	0.625	0.21
35_S	44_A	0.624	0.21
318_R	322_L	0.623	0.21
79_D	185_S	0.623	0.21
237_I	321_L	0.623	0.21
288_V	341_N	0.621	0.21
259_H	332_G	0.620	0.21
44_A	49_R	0.619	0.21
177_D	187_R	0.619	0.21
111_F	178_K	0.615	0.21
176_M	183_L	0.615	0.21
56_G	118_N	0.615	0.21
246_L	283_L	0.613	0.21
252_T	343_I	0.612	0.21
281_D	320_A	0.611	0.21
39_V	104_N	0.611	0.21
183_L	304_G	0.610	0.21
269_F	339_T	0.608	0.21
40_S	287_H	0.604	0.20
287_H	324_S	0.603	0.20
262_D	268_Y	0.603	0.20
54_T	285_E	0.602	0.20
132_F	153_E	0.600	0.20
167_V	172_V	0.594	0.20
271_H	282_R	0.594	0.20
50_I	56_G	0.592	0.20
41_N	45_Q	0.590	0.20
40_S	45_Q	0.589	0.20
125_G	324_S	0.587	0.20
70_K	192_Q	0.586	0.20
259_H	262_D	0.586	0.20
311_W	336_K	0.586	0.20
169_K	323_N	0.584	0.20
35_S	45_Q	0.584	0.20
266_N	274_K	0.583	0.20
263_M	268_Y	0.583	0.20
230_I	333_V	0.583	0.20
49_R	54_T	0.583	0.20
279_L	301_Y	0.581	0.20
54_T	70_K	0.580	0.20
155_S	241_H	0.580	0.20
297_I	311_W	0.579	0.19
83_Y	177_D	0.579	0.19
51_H	106_K	0.578	0.19
176_M	255_V	0.578	0.19
188_A	193_T	0.577	0.19
96_Q	254_E	0.577	0.19
213_A	216_D	0.576	0.19
66_D	294_G	0.576	0.19
262_D	297_I	0.575	0.19
272_V	285_E	0.575	0.19
227_E	320_A	0.575	0.19
328_H	343_I	0.574	0.19
72_L	100_I	0.573	0.19
145_Y	176_M	0.573	0.19
40_S	44_A	0.570	0.19
221_K	251_P	0.567	0.19
249_D	343_I	0.566	0.19
143_V	171_Y	0.566	0.19
277_G	281_D	0.563	0.19
54_T	287_H	0.562	0.19
131_V	137_V	0.560	0.19
108_V	299_Y	0.559	0.19
150_Y	171_Y	0.559	0.19
127_S	285_E	0.558	0.19
61_M	299_Y	0.557	0.19
295_E	340_Q	0.556	0.19
51_H	59_S	0.556	0.19
173_Q	273_S	0.556	0.19
282_R	295_E	0.556	0.19
128_T	137_V	0.555	0.19
338_Y	343_I	0.553	0.18
312_L	339_T	0.553	0.18
133_K	185_S	0.551	0.18
187_R	306_A	0.550	0.18
137_V	176_M	0.549	0.18
271_H	332_G	0.547	0.18
308_V	312_L	0.546	0.18
98_I	129_G	0.546	0.18
86_D	126_E	0.545	0.18
294_G	332_G	0.543	0.18
86_D	232_D	0.542	0.18
74_E	88_W	0.541	0.18
36_E	45_Q	0.540	0.18
73_G	88_W	0.537	0.18
192_Q	292_Q	0.533	0.18
238_R	314_S	0.532	0.18
248_W	259_H	0.530	0.18
173_Q	194_F	0.530	0.18
89_V	97_Y	0.527	0.17
57_L	60_F	0.526	0.17
49_R	133_K	0.526	0.17
122_F	250_Q	0.525	0.17
41_N	44_A	0.524	0.17
260_S	273_S	0.524	0.17
38_Q	216_D	0.521	0.17
36_E	41_N	0.520	0.17
154_F	173_Q	0.519	0.17
314_S	318_R	0.518	0.17
62_G	90_Y	0.518	0.17
236_V	239_V	0.517	0.17
260_S	318_R	0.516	0.17
182_K	290_F	0.514	0.17
302_V	343_I	0.512	0.17
250_Q	254_E	0.510	0.17
215_S	343_I	0.509	0.17
273_S	343_I	0.504	0.17
44_A	47_G	0.503	0.17
137_V	175_Y	0.502	0.17
173_Q	187_R	0.500	0.16

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
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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
4ifaA	1	0.8613	100	0.269	Contact Map
4h0aA	1	0.8699	100	0.294	Contact Map
4aiwA	1	0.3266	99.9	0.757	Contact Map
1cfeA	1	0.3006	99.8	0.78	Contact Map
3q2uA	1	0.3555	99.6	0.83	Contact Map
4p27A	1	0.3208	99.6	0.832	Contact Map
2ddbA	2	0.3237	99.5	0.843	Contact Map
1xtaA	2	0.3468	99.4	0.844	Contact Map
4tpvA	2	0.3237	99.1	0.87	Contact Map
1qnxA	1	0.4335	98.9	0.879	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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