YBAC - BACSU - GREMLIN Contacts

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YBAC - Probable aminopeptidase YbaC

UniProt:	P70981	Sequences: MIPEKKSIAIMKELSIGNTKQMLMINGVDVKNPLLLFLHGGPGTPQIGYVRHYQKELEQYFTVVHWDQRGSGLSYSKRISHHSMTINHFIKDTIQVTQWLLAHFSKSKLYLAGHSWGSILALHVLQQRPDLFYTYYGISQVVNPQDEESTAYQHIREISESKKASILSFLTRFIGAPPWKQDIQHLIYRFCVELTRGGFTHRHRQSLAVLFQMLTGNEYGVRNMHSFLNGLRFSKKHLTDELYRFNAFTSVPSIKVPCVFISGKHDLIVPAEISKQYYQELEAPEKRWFQFENSAHTPHIEEPSLFANTLSRHARHHL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	318 (266)
Sequences:	56207 (46187)
Seq/√Len:	2831.9

ECOLI - MHPC PLDB RUTD YBFF BIOH MENH YCJY YFHR
BACSU - YBAC YBFK YFHM YUGF YCGS RSBQ NAP YCLE YDJP YISY YRAK MENH YBDG YVAM PLBAC YQJL EST YQKD
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0
SULSO - PIP Q7LXY9 Q97WG0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
25_I	62_T	5.336	1.00
110_Y	134_T	4.685	1.00
69_R	92_D	4.446	1.00
94_I	124_V	3.089	1.00
264_K	292_E	3.036	1.00
302_E	305_L	2.946	1.00
110_Y	133_Y	2.909	1.00
289_F	309_T	2.854	1.00
139_S	266_D	2.740	1.00
108_K	133_Y	2.684	1.00
291_F	309_T	2.611	1.00
259_V	313_H	2.573	1.00
138_I	306_F	2.510	1.00
20_K	75_Y	2.460	1.00
124_V	128_R	2.362	1.00
101_L	109_L	2.317	1.00
15_S	20_K	2.260	1.00
94_I	131_L	2.235	1.00
118_S	140_Q	2.210	1.00
111_L	121_A	2.181	1.00
264_K	290_Q	2.175	1.00
94_I	128_R	2.125	1.00
22_M	73_L	2.106	1.00
278_Y	286_K	2.101	1.00
60_Y	311_S	2.068	1.00
102_A	131_L	2.045	1.00
91_K	127_Q	1.969	1.00
94_I	102_A	1.951	1.00
123_H	127_Q	1.928	1.00
25_I	64_V	1.922	1.00
271_A	290_Q	1.917	1.00
294_S	302_E	1.886	1.00
26_N	65_H	1.871	1.00
110_Y	314_A	1.851	1.00
125_L	135_Y	1.827	1.00
23_L	100_L	1.795	1.00
110_Y	136_Y	1.792	1.00
61_F	110_Y	1.768	1.00
121_A	135_Y	1.763	1.00
53_Y	307_A	1.759	1.00
56_E	307_A	1.752	1.00
34_L	64_V	1.746	1.00
259_V	289_F	1.714	1.00
87_N	127_Q	1.697	1.00
34_L	106_K	1.696	1.00
39_H	71_S	1.693	1.00
309_T	312_R	1.690	1.00
66_W	93_T	1.652	1.00
68_Q	120_L	1.625	1.00
39_H	68_Q	1.624	1.00
276_Q	280_E	1.608	1.00
308_N	312_R	1.605	1.00
124_V	132_F	1.598	1.00
17_G	95_Q	1.597	1.00
38_L	93_T	1.591	1.00
258_C	281_L	1.556	1.00
38_L	68_Q	1.540	1.00
90_I	123_H	1.539	1.00
34_L	62_T	1.533	1.00
22_M	67_D	1.523	1.00
85_T	88_H	1.498	1.00
128_R	131_L	1.493	1.00
250_S	253_S	1.468	1.00
59_Q	311_S	1.462	1.00
136_Y	310_L	1.456	1.00
93_T	124_V	1.446	1.00
44_T	48_G	1.367	1.00
124_V	131_L	1.367	1.00
305_L	309_T	1.360	1.00
115_S	296_H	1.345	1.00
38_L	121_A	1.340	1.00
37_F	63_V	1.337	1.00
19_T	69_R	1.309	1.00
123_H	126_Q	1.306	1.00
114_H	299_H	1.306	1.00
21_Q	92_D	1.306	1.00
136_Y	259_V	1.292	1.00
42_P	49_Y	1.291	1.00
137_G	140_Q	1.289	1.00
122_L	137_G	1.285	1.00
56_E	59_Q	1.280	1.00
271_A	275_K	1.262	1.00
305_L	308_N	1.260	1.00
164_A	168_S	1.257	1.00
262_S	274_S	1.253	1.00
67_D	72_G	1.251	1.00
64_V	100_L	1.238	1.00
56_E	311_S	1.221	1.00
291_F	294_S	1.204	1.00
112_A	138_I	1.187	1.00
37_F	112_A	1.175	1.00
275_K	279_Q	1.175	1.00
27_G	62_T	1.169	1.00
100_L	104_F	1.160	1.00
35_L	61_F	1.141	1.00
281_L	286_K	1.138	1.00
261_I	291_F	1.125	1.00
252_P	280_E	1.116	1.00
276_Q	279_Q	1.110	1.00
40_G	115_S	1.107	1.00
60_Y	315_R	1.101	1.00
109_L	132_F	1.097	1.00
106_K	109_L	1.094	1.00
126_Q	250_S	1.092	1.00
66_W	100_L	1.091	1.00
102_A	128_R	1.087	1.00
114_H	297_T	1.081	1.00
278_Y	288_W	1.078	1.00
112_A	310_L	1.074	1.00
262_S	288_W	1.073	1.00
101_L	106_K	1.066	1.00
306_F	310_L	1.065	1.00
262_S	290_Q	1.054	1.00
287_R	309_T	1.053	1.00
28_V	62_T	1.049	1.00
259_V	287_R	1.047	1.00
38_L	111_L	1.034	1.00
262_S	271_A	1.015	1.00
36_L	101_L	1.011	1.00
210_L	213_M	1.007	1.00
213_M	217_N	1.003	1.00
304_S	308_N	1.003	1.00
16_I	95_Q	0.999	1.00
21_Q	74_S	0.999	1.00
33_P	110_Y	0.998	1.00
206_S	209_V	0.997	1.00
275_K	278_Y	0.996	1.00
87_N	123_H	0.992	1.00
90_I	120_L	0.988	1.00
23_L	104_F	0.987	1.00
36_L	109_L	0.986	1.00
61_F	314_A	0.983	1.00
109_L	131_L	0.982	1.00
311_S	315_R	0.982	1.00
295_A	301_E	0.982	1.00
113_G	121_A	0.980	1.00
275_K	290_Q	0.977	1.00
19_T	75_Y	0.967	1.00
68_Q	116_W	0.965	1.00
54_Q	65_H	0.964	1.00
208_A	211_F	0.964	1.00
45_P	49_Y	0.958	1.00
294_S	301_E	0.957	1.00
64_V	104_F	0.951	1.00
291_F	305_L	0.950	1.00
94_I	127_Q	0.937	1.00
45_P	48_G	0.934	1.00
275_K	288_W	0.930	1.00
52_H	307_A	0.918	1.00
138_I	299_H	0.917	1.00
83_S	88_H	0.917	1.00
56_E	304_S	0.911	1.00
168_S	172_R	0.909	1.00
33_P	133_Y	0.901	1.00
88_H	91_K	0.898	1.00
211_F	215_T	0.897	1.00
207_L	210_L	0.895	1.00
138_I	298_P	0.893	1.00
134_T	257_P	0.888	1.00
24_M	46_Q	0.886	1.00
289_F	312_R	0.882	1.00
42_P	71_S	0.876	1.00
289_F	305_L	0.876	1.00
214_L	217_N	0.873	1.00
26_N	54_Q	0.872	1.00
261_I	309_T	0.871	1.00
167_L	170_L	0.858	1.00
206_S	210_L	0.856	1.00
204_R	207_L	0.854	1.00
125_L	132_F	0.852	1.00
168_S	171_T	0.849	1.00
28_V	31_K	0.847	1.00
35_L	112_A	0.847	1.00
44_T	49_Y	0.845	1.00
166_I	170_L	0.845	1.00
35_L	63_V	0.845	1.00
224_M	228_L	0.840	1.00
135_Y	258_C	0.837	1.00
294_S	298_P	0.835	1.00
33_P	61_F	0.832	1.00
260_F	286_K	0.830	1.00
264_K	293_N	0.828	1.00
123_H	250_S	0.828	1.00
16_I	19_T	0.828	1.00
165_S	169_F	0.827	1.00
212_Q	215_T	0.819	1.00
165_S	168_S	0.816	1.00
227_F	230_G	0.815	1.00
47_I	50_V	0.813	1.00
207_L	217_N	0.813	1.00
101_L	124_V	0.807	1.00
224_M	227_F	0.805	1.00
95_Q	102_A	0.800	1.00
36_L	93_T	0.799	1.00
114_H	139_S	0.798	1.00
67_D	73_L	0.797	1.00
34_L	61_F	0.795	1.00
38_L	66_W	0.794	1.00
91_K	95_Q	0.790	1.00
113_G	118_S	0.787	1.00
207_L	211_F	0.785	1.00
134_T	313_H	0.783	1.00
274_S	288_W	0.782	1.00
207_L	213_M	0.780	1.00
291_F	302_E	0.780	1.00
211_F	214_L	0.780	1.00
90_I	127_Q	0.780	1.00
179_W	183_I	0.778	1.00
236_K	239_T	0.777	1.00
90_I	124_V	0.775	1.00
182_D	185_H	0.774	1.00
255_K	284_P	0.770	1.00
22_M	74_S	0.765	1.00
111_L	124_V	0.764	1.00
185_H	189_R	0.762	1.00
183_I	190_F	0.761	1.00
183_I	187_I	0.760	1.00
166_I	172_R	0.758	1.00
91_K	94_I	0.754	1.00
185_H	188_Y	0.754	1.00
25_I	28_V	0.752	1.00
136_Y	314_A	0.751	1.00
43_G	47_I	0.749	1.00
105_S	108_K	0.748	1.00
46_Q	73_L	0.746	1.00
163_K	167_L	0.746	1.00
89_F	116_W	0.746	1.00
95_Q	103_H	0.744	1.00
31_K	34_L	0.738	1.00
227_F	231_L	0.737	1.00
139_S	262_S	0.734	1.00
21_Q	69_R	0.732	1.00
68_Q	89_F	0.731	1.00
247_A	250_S	0.731	1.00
206_S	211_F	0.730	1.00
281_L	285_E	0.729	1.00
61_F	315_R	0.726	1.00
264_K	271_A	0.725	1.00
263_G	298_P	0.720	1.00
61_F	311_S	0.720	1.00
307_A	311_S	0.719	1.00
55_K	58_E	0.716	1.00
87_N	91_K	0.715	1.00
132_F	256_V	0.715	1.00
179_W	182_D	0.714	1.00
35_L	314_A	0.712	1.00
265_H	293_N	0.710	1.00
261_I	306_F	0.706	1.00
163_K	168_S	0.705	1.00
209_V	213_M	0.703	1.00
164_A	167_L	0.694	1.00
68_Q	71_S	0.691	1.00
222_R	225_H	0.687	1.00
125_L	256_V	0.687	1.00
272_E	275_K	0.686	1.00
69_R	89_F	0.684	1.00
186_L	190_F	0.683	1.00
152_Y	155_I	0.681	1.00
223_N	226_S	0.679	1.00
208_A	212_Q	0.679	1.00
39_H	66_W	0.674	1.00
46_Q	50_V	0.673	1.00
52_H	55_K	0.669	1.00
64_V	106_K	0.668	1.00
17_G	88_H	0.665	1.00
111_L	132_F	0.665	1.00
42_P	116_W	0.663	1.00
139_S	298_P	0.663	1.00
164_A	171_T	0.661	1.00
215_T	218_E	0.659	1.00
227_F	232_R	0.658	1.00
32_N	110_Y	0.657	1.00
266_D	296_H	0.654	1.00
249_T	252_P	0.653	1.00
113_G	117_G	0.651	1.00
303_P	307_A	0.651	1.00
308_N	311_S	0.651	1.00
210_L	214_L	0.651	1.00
114_H	138_I	0.645	1.00
42_P	48_G	0.644	1.00
228_L	231_L	0.643	1.00
62_T	106_K	0.642	1.00
109_L	124_V	0.642	1.00
214_L	218_E	0.641	1.00
163_K	170_L	0.641	1.00
26_N	58_E	0.641	1.00
119_I	141_V	0.640	1.00
36_L	111_L	0.640	1.00
293_N	302_E	0.639	1.00
115_S	297_T	0.637	1.00
190_F	193_E	0.637	1.00
107_S	131_L	0.637	1.00
169_F	172_R	0.637	1.00
26_N	55_K	0.633	1.00
122_L	142_V	0.631	1.00
166_I	169_F	0.630	1.00
126_Q	253_S	0.628	1.00
32_N	133_Y	0.626	1.00
222_R	226_S	0.626	1.00
226_S	231_L	0.623	1.00
134_T	314_A	0.621	1.00
166_I	171_T	0.621	1.00
136_Y	261_I	0.619	1.00
46_Q	49_Y	0.619	1.00
213_M	216_G	0.618	1.00
28_V	32_N	0.617	1.00
112_A	136_Y	0.614	1.00
274_S	278_Y	0.613	1.00
118_S	137_G	0.613	1.00
236_K	240_D	0.612	1.00
32_N	61_F	0.612	1.00
86_I	123_H	0.611	1.00
206_S	214_L	0.610	1.00
42_P	115_S	0.610	1.00
273_I	276_Q	0.610	1.00
50_V	65_H	0.608	1.00
189_R	192_V	0.608	1.00
35_L	110_Y	0.606	1.00
42_P	45_P	0.605	1.00
34_L	109_L	0.604	1.00
209_V	212_Q	0.604	1.00
33_P	108_K	0.602	1.00
163_K	166_I	0.602	1.00
226_S	229_N	0.601	1.00
187_I	192_V	0.601	1.00
101_L	131_L	0.600	1.00
238_L	241_E	0.598	1.00
89_F	120_L	0.598	1.00
24_M	65_H	0.593	1.00
68_Q	93_T	0.591	1.00
239_T	242_L	0.587	1.00
54_Q	307_A	0.587	1.00
22_M	46_Q	0.585	1.00
70_G	84_M	0.581	1.00
15_S	18_N	0.581	1.00
109_L	133_Y	0.577	1.00
150_T	153_Q	0.574	1.00
122_L	140_Q	0.572	1.00
136_Y	313_H	0.571	1.00
94_I	101_L	0.570	1.00
204_R	208_A	0.569	1.00
53_Y	56_E	0.569	1.00
36_L	66_W	0.568	1.00
261_I	289_F	0.568	1.00
44_T	47_I	0.567	1.00
189_R	193_E	0.567	1.00
37_F	65_H	0.567	1.00
223_N	227_F	0.565	1.00
212_Q	216_G	0.565	1.00
226_S	230_G	0.563	1.00
181_Q	184_Q	0.562	1.00
116_W	120_L	0.561	1.00
225_H	229_N	0.560	1.00
260_F	288_W	0.556	1.00
32_N	62_T	0.552	1.00
91_K	128_R	0.550	1.00
90_I	94_I	0.549	1.00
25_I	104_F	0.547	1.00
287_R	312_R	0.547	1.00
260_F	281_L	0.547	1.00
32_N	60_Y	0.545	1.00
164_A	170_L	0.542	1.00
207_L	218_E	0.541	1.00
224_M	230_G	0.541	1.00
31_K	62_T	0.540	1.00
46_Q	65_H	0.538	1.00
163_K	169_F	0.533	1.00
187_I	190_F	0.527	1.00
182_D	190_F	0.527	1.00
265_H	294_S	0.527	1.00
211_F	217_N	0.526	1.00
32_N	108_K	0.526	1.00
100_L	105_S	0.525	1.00
299_H	306_F	0.524	1.00
164_A	169_F	0.524	1.00
260_F	278_Y	0.523	1.00
307_A	312_R	0.522	1.00
17_G	91_K	0.522	1.00
277_Y	281_L	0.521	1.00
125_L	254_I	0.521	1.00
254_I	281_L	0.519	1.00
312_R	315_R	0.518	1.00
43_G	48_G	0.518	1.00
248_F	280_E	0.518	1.00
233_F	237_H	0.516	1.00
272_E	276_Q	0.516	1.00
297_T	300_I	0.515	1.00
187_I	191_C	0.515	1.00
222_R	227_F	0.513	1.00
139_S	263_G	0.509	1.00
48_G	52_H	0.507	1.00
184_Q	188_Y	0.507	1.00
292_E	305_L	0.506	1.00
133_Y	136_Y	0.505	1.00
38_L	120_L	0.503	1.00
182_D	186_L	0.502	1.00
232_R	236_K	0.502	1.00
224_M	229_N	0.501	1.00
137_G	260_F	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
1ehyA	1	0.8711	100	0.248	Contact Map
3oosA	1	0.8648	100	0.255	Contact Map
4inzA	1	0.8805	100	0.257	Contact Map
3om8A	4	0.8333	100	0.264	Contact Map
2pujA	4	0.8616	100	0.273	Contact Map
3wmrA	1	0.9119	100	0.277	Contact Map
2wueA	4	0.8679	100	0.28	Contact Map
1mtzA	1	0.8994	100	0.281	Contact Map
1q0rA	1	0.9088	100	0.281	Contact Map
2xuaA	2	0.8176	100	0.281	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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