YISY - BACSU - GREMLIN Contacts

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YISY - AB hydrolase superfamily protein YisY

UniProt:	O06734	Sequences: MGHYIKTEEHVTLFVEDIGHGRPIIFLHGWPLNHKMFEYQMNELPKRGFRFIGVDLRGYGQSDRPWEGYDYDTMADDVKAVIYTLQLENAILAGFSMGGAIAIRYMARHEGADVDKLILLSAAAPAFTKRPGYPYGMRKQDIDDMIELFKADRPKTLADLGKQFFEKKVSPELRQWFLNLMLEASSYGTIHSGIALRDEDLRKELAAIKVPTLILHGRKDRIAPFDFAKELKRGIKQSELVPFANSGHGAFYEEKEKINSLIAQFSNS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	268 (249)
Sequences:	63947 (51488)
Seq/√Len:	3262.9

ECOLI - MHPC YBFF PLDB RUTD BIOH MENH YCJY YFHR YJFP
BACSU - YISY YDJP RSBQ YFHM YUGF YCGS YVAM NAP YRAK YBFK MENH YBDG YCLE YBAC PLBAC YQJL EST YQKD CAH YTMA
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0 Q9HPY2 METX
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
17_D	50_R	4.895	1.00
91_I	116_K	4.346	1.00
57_R	77_D	3.663	1.00
40_Q	259_N	3.065	1.00
79_K	105_Y	2.898	1.00
218_R	244_A	2.885	1.00
254_E	257_K	2.763	1.00
91_I	115_D	2.683	1.00
241_V	261_L	2.674	1.00
121_S	220_D	2.619	1.00
89_N	115_D	2.563	1.00
120_L	258_I	2.404	1.00
243_F	261_L	2.398	1.00
12_T	63_D	2.244	1.00
16_E	34_H	2.163	1.00
79_K	113_D	2.132	1.00
105_Y	109_H	2.101	1.00
79_K	83_Y	2.100	1.00
92_L	102_A	2.093	1.00
79_K	109_H	2.092	1.00
218_R	242_P	2.079	1.00
232_K	238_S	2.070	1.00
99_G	122_A	2.011	1.00
83_Y	113_D	1.998	1.00
82_I	90_A	1.967	1.00
14_F	61_Q	1.930	1.00
104_R	108_R	1.909	1.00
48_G	263_A	1.901	1.00
23_P	52_I	1.852	1.00
15_V	81_V	1.843	1.00
76_D	108_R	1.837	1.00
225_F	242_P	1.808	1.00
106_M	117_L	1.802	1.00
43_E	259_N	1.801	1.00
17_D	52_I	1.799	1.00
246_S	254_E	1.788	1.00
23_P	50_R	1.752	1.00
23_P	87_L	1.736	1.00
18_I	53_G	1.730	1.00
91_I	118_I	1.708	1.00
91_I	266_S	1.701	1.00
213_L	241_V	1.655	1.00
212_T	235_I	1.629	1.00
49_F	91_I	1.626	1.00
28_H	59_Y	1.620	1.00
28_H	56_L	1.618	1.00
14_F	34_H	1.614	1.00
72_D	108_R	1.611	1.00
102_A	117_L	1.601	1.00
261_L	264_Q	1.600	1.00
22_R	115_D	1.592	1.00
22_R	91_I	1.591	1.00
230_E	234_G	1.542	1.00
56_L	101_I	1.533	1.00
109_H	113_D	1.514	1.00
75_A	104_R	1.498	1.00
54_V	78_V	1.490	1.00
70_D	73_T	1.474	1.00
78_V	105_Y	1.467	1.00
27_L	56_L	1.448	1.00
32_L	36_M	1.438	1.00
260_S	264_Q	1.421	1.00
105_Y	114_V	1.410	1.00
170_S	173_L	1.402	1.00
27_L	78_V	1.392	1.00
109_H	112_A	1.385	1.00
204_E	207_A	1.385	1.00
14_F	55_D	1.364	1.00
213_L	265_F	1.355	1.00
119_L	122_A	1.354	1.00
34_H	55_D	1.354	1.00
118_I	262_I	1.334	1.00
43_E	263_A	1.331	1.00
83_Y	109_H	1.330	1.00
27_L	102_A	1.319	1.00
257_K	261_L	1.303	1.00
105_Y	113_D	1.287	1.00
216_H	228_A	1.276	1.00
103_I	119_L	1.261	1.00
52_I	81_V	1.258	1.00
104_R	107_A	1.256	1.00
225_F	229_K	1.254	1.00
26_F	93_A	1.248	1.00
43_E	46_K	1.245	1.00
41_M	53_G	1.231	1.00
11_V	57_R	1.228	1.00
229_K	233_R	1.218	1.00
19_G	50_R	1.216	1.00
13_L	77_D	1.216	1.00
118_I	213_L	1.216	1.00
95_F	251_F	1.210	1.00
81_V	85_L	1.205	1.00
31_P	59_Y	1.200	1.00
18_I	41_M	1.190	1.00
26_F	51_F	1.189	1.00
257_K	260_S	1.175	1.00
93_A	120_L	1.159	1.00
87_L	90_A	1.157	1.00
34_H	61_Q	1.151	1.00
25_I	82_I	1.129	1.00
96_S	248_H	1.126	1.00
45_P	48_G	1.126	1.00
29_G	96_S	1.110	1.00
215_L	243_F	1.106	1.00
21_G	50_R	1.104	1.00
235_I	238_S	1.102	1.00
24_I	49_F	1.089	1.00
232_K	240_L	1.082	1.00
206_A	234_G	1.079	1.00
116_K	211_P	1.079	1.00
107_A	204_E	1.076	1.00
43_E	256_E	1.072	1.00
54_V	81_V	1.067	1.00
15_V	85_L	1.066	1.00
216_H	240_L	1.066	1.00
243_F	246_S	1.047	1.00
36_M	251_F	1.045	1.00
216_H	242_P	1.044	1.00
90_A	114_V	1.040	1.00
230_E	233_R	1.039	1.00
34_H	53_G	1.019	1.00
31_P	96_S	1.013	1.00
75_A	101_I	1.009	1.00
72_D	104_R	1.008	1.00
213_L	239_E	1.007	1.00
22_R	49_F	1.004	1.00
239_E	261_L	0.999	1.00
189_T	192_S	0.998	1.00
216_H	225_F	0.995	1.00
256_E	260_S	0.994	1.00
27_L	92_L	0.982	1.00
194_I	197_R	0.976	1.00
229_K	240_L	0.971	1.00
258_I	262_I	0.963	1.00
55_D	60_G	0.961	1.00
171_P	175_Q	0.959	1.00
18_I	45_P	0.957	1.00
79_K	82_I	0.956	1.00
79_K	108_R	0.949	1.00
82_I	105_Y	0.946	1.00
93_A	262_I	0.942	1.00
243_F	257_K	0.935	1.00
229_K	242_P	0.935	1.00
80_A	83_Y	0.933	1.00
143_D	147_E	0.931	1.00
145_M	149_F	0.931	1.00
117_L	212_T	0.929	1.00
215_L	261_L	0.926	1.00
45_P	51_F	0.924	1.00
42_N	45_P	0.924	1.00
229_K	232_K	0.921	1.00
82_I	87_L	0.921	1.00
49_F	266_S	0.919	1.00
218_R	245_N	0.918	1.00
25_I	90_A	0.911	1.00
13_L	62_S	0.910	1.00
247_G	253_E	0.908	1.00
94_G	102_A	0.907	1.00
95_F	249_G	0.905	1.00
246_S	253_E	0.903	1.00
241_V	264_Q	0.902	1.00
90_A	113_D	0.902	1.00
11_V	63_D	0.901	1.00
175_Q	179_N	0.884	1.00
80_A	84_T	0.882	1.00
193_G	196_L	0.882	1.00
24_I	51_F	0.880	1.00
52_I	85_L	0.879	1.00
120_L	251_F	0.878	1.00
38_E	53_G	0.876	1.00
22_R	89_N	0.873	1.00
176_W	179_N	0.867	1.00
192_S	195_A	0.864	1.00
56_L	97_M	0.858	1.00
106_M	114_V	0.851	1.00
246_S	250_A	0.849	1.00
187_Y	191_H	0.842	1.00
27_L	54_V	0.839	1.00
39_Y	42_N	0.838	1.00
152_D	155_K	0.837	1.00
104_R	204_E	0.825	1.00
94_G	99_G	0.824	1.00
175_Q	178_L	0.821	1.00
23_P	49_F	0.813	1.00
214_I	238_S	0.809	1.00
110_E	113_D	0.806	1.00
25_I	78_V	0.799	1.00
23_P	90_A	0.799	1.00
120_L	250_A	0.798	1.00
24_I	93_A	0.797	1.00
241_V	257_K	0.797	1.00
76_D	79_K	0.797	1.00
68_G	73_T	0.792	1.00
75_A	108_R	0.792	1.00
209_K	236_K	0.779	1.00
73_T	76_D	0.775	1.00
217_G	250_A	0.764	1.00
35_K	38_E	0.760	1.00
158_A	161_G	0.759	1.00
92_L	105_Y	0.757	1.00
153_R	156_T	0.750	1.00
143_D	146_I	0.749	1.00
76_D	80_A	0.747	1.00
75_A	105_Y	0.746	1.00
160_L	164_F	0.746	1.00
186_S	189_T	0.743	1.00
228_A	240_L	0.741	1.00
41_M	51_F	0.738	1.00
42_N	46_K	0.736	1.00
22_R	116_K	0.734	1.00
144_D	148_L	0.731	1.00
243_F	254_E	0.729	1.00
259_N	263_A	0.729	1.00
201_L	204_E	0.722	1.00
116_K	266_S	0.722	1.00
178_L	182_L	0.721	1.00
226_D	229_K	0.720	1.00
31_P	97_M	0.715	1.00
194_I	198_D	0.713	1.00
92_L	114_V	0.712	1.00
118_I	266_S	0.710	1.00
154_P	157_L	0.708	1.00
218_R	225_F	0.707	1.00
86_Q	89_N	0.706	1.00
227_F	230_E	0.705	1.00
180_L	183_E	0.704	1.00
157_L	160_L	0.703	1.00
74_M	97_M	0.700	1.00
30_W	97_M	0.700	1.00
55_D	61_Q	0.698	1.00
34_H	54_V	0.698	1.00
121_S	250_A	0.696	1.00
16_E	38_E	0.695	1.00
28_H	54_V	0.690	1.00
245_N	254_E	0.686	1.00
26_F	37_F	0.683	1.00
20_H	50_R	0.679	1.00
146_I	150_K	0.676	1.00
88_E	113_D	0.675	1.00
90_A	115_D	0.673	1.00
107_A	207_A	0.666	1.00
56_L	74_M	0.665	1.00
106_M	210_V	0.665	1.00
173_L	176_W	0.663	1.00
189_T	193_G	0.658	1.00
49_F	263_A	0.656	1.00
195_A	198_D	0.655	1.00
38_E	42_N	0.654	1.00
95_F	121_S	0.653	1.00
215_L	258_I	0.653	1.00
121_S	217_G	0.652	1.00
147_E	151_A	0.651	1.00
156_T	159_D	0.649	1.00
161_G	165_F	0.649	1.00
191_H	195_A	0.647	1.00
188_G	192_S	0.647	1.00
121_S	216_H	0.647	1.00
72_D	76_D	0.646	1.00
174_R	177_F	0.645	1.00
94_G	98_G	0.644	1.00
95_F	120_L	0.643	1.00
116_K	265_F	0.637	1.00
25_I	92_L	0.636	1.00
153_R	157_L	0.636	1.00
171_P	174_R	0.635	1.00
13_L	57_R	0.634	1.00
158_A	162_K	0.632	1.00
52_I	87_L	0.632	1.00
255_K	259_N	0.632	1.00
46_K	263_A	0.630	1.00
18_I	42_N	0.629	1.00
190_I	193_G	0.626	1.00
176_W	180_L	0.625	1.00
40_Q	258_I	0.624	1.00
144_D	147_E	0.624	1.00
154_P	158_A	0.619	1.00
24_I	91_I	0.619	1.00
203_K	206_A	0.619	1.00
100_A	123_A	0.618	1.00
200_D	204_E	0.616	1.00
50_R	87_L	0.615	1.00
260_S	263_A	0.614	1.00
155_K	158_A	0.613	1.00
114_V	210_V	0.613	1.00
172_E	175_Q	0.611	1.00
155_K	159_D	0.611	1.00
40_Q	43_E	0.611	1.00
202_R	234_G	0.610	1.00
177_F	180_L	0.609	1.00
174_R	178_L	0.609	1.00
191_H	194_I	0.607	1.00
172_E	176_W	0.607	1.00
93_A	118_I	0.607	1.00
103_I	124_A	0.607	1.00
142_I	146_I	0.604	1.00
119_L	214_I	0.597	1.00
48_G	51_F	0.596	1.00
159_D	163_Q	0.596	1.00
118_I	215_L	0.596	1.00
156_T	160_L	0.595	1.00
37_F	41_M	0.595	1.00
157_L	161_G	0.593	1.00
57_R	74_M	0.592	1.00
14_F	62_S	0.592	1.00
147_E	150_K	0.589	1.00
219_K	245_N	0.589	1.00
145_M	148_L	0.588	1.00
71_Y	104_R	0.587	1.00
214_I	228_A	0.583	1.00
156_T	161_G	0.582	1.00
169_V	173_L	0.581	1.00
99_G	119_L	0.579	1.00
41_M	45_P	0.578	1.00
37_F	40_Q	0.578	1.00
90_A	105_Y	0.577	1.00
26_F	53_G	0.575	1.00
16_E	35_K	0.575	1.00
188_G	191_H	0.573	1.00
21_G	49_F	0.572	1.00
186_S	192_S	0.568	1.00
161_G	164_F	0.562	1.00
170_S	174_R	0.561	1.00
220_D	248_H	0.560	1.00
56_L	59_Y	0.558	1.00
24_I	266_S	0.558	1.00
17_D	85_L	0.556	1.00
228_A	232_K	0.555	1.00
76_D	109_H	0.555	1.00
96_S	249_G	0.555	1.00
215_L	241_V	0.554	1.00
16_E	53_G	0.551	1.00
173_L	177_F	0.551	1.00
103_I	122_A	0.551	1.00
78_V	101_I	0.550	1.00
24_I	44_L	0.548	1.00
192_S	196_L	0.546	1.00
74_M	101_I	0.545	1.00
108_R	204_E	0.545	1.00
214_I	240_L	0.542	1.00
143_D	148_L	0.540	1.00
179_N	182_L	0.539	1.00
169_V	172_E	0.536	1.00
250_A	258_I	0.536	1.00
56_L	78_V	0.533	1.00
193_G	197_R	0.532	1.00
251_F	258_I	0.531	1.00
21_G	48_G	0.527	1.00
232_K	235_I	0.525	1.00
202_R	230_E	0.523	1.00
25_I	54_V	0.521	1.00
142_I	145_M	0.520	1.00
214_I	232_K	0.519	1.00
186_S	193_G	0.518	1.00
211_P	237_Q	0.517	1.00
109_H	114_V	0.517	1.00
73_T	77_D	0.516	1.00
200_D	203_K	0.513	1.00
142_I	149_F	0.511	1.00
44_L	262_I	0.511	1.00
239_E	264_Q	0.511	1.00
132_G	135_Y	0.510	1.00
82_I	113_D	0.510	1.00
106_M	208_I	0.509	1.00
36_M	95_F	0.508	1.00
75_A	79_K	0.507	1.00
208_I	235_I	0.506	1.00
58_G	69_Y	0.505	1.00
116_K	213_L	0.504	1.00
244_A	257_K	0.504	1.00
81_V	84_T	0.502	1.00
214_I	235_I	0.501	1.00
179_N	183_E	0.501	1.00
144_D	149_F	0.501	1.00
159_D	164_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
4inzA	1	0.9888	100	0.126	Contact Map
1ehyA	1	0.9403	100	0.127	Contact Map
3om8A	4	0.9552	100	0.135	Contact Map
1zoiA	3	0.9925	100	0.14	Contact Map
3oosA	1	0.9813	100	0.145	Contact Map
2xuaA	2	0.9478	100	0.148	Contact Map
1iupA	2	0.9664	100	0.152	Contact Map
3fobA	3	0.9925	100	0.153	Contact Map
1a8qA	3	0.9888	100	0.153	Contact Map
4psuA	1	0.9701	100	0.153	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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