YCSE - BACSU - GREMLIN Contacts

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YCSE - Putative phosphatase YcsE

UniProt:	P42962	Sequences: MSVQREDVDIKLIAIDMDGTLLNDEQLISDENRKAIREAEDKGVYVVISTGRTLMTCRELAESLKLSSFLITANGSEIWDSNFNLVERKLLHTDHIQMMWDLRNKHNTNFWASTVNKVWRGEFPENITDHEWLKFGFDIEDDDIRNEVLEELRKNKELEITNSSPTNIEVNALGINKAAALAKVTEKLGFTMENVMAMGDSLNDIAMIKEAGLGVAMGNAQDIVKETADYITDTNIEDGVAKAIRHWVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	249 (231)
Sequences:	11726 (9461)
Seq/√Len:	622.5

ECOLI - YBHA YIGL YIDA SUPH YBJI COF MPGP
BACSU - YCSE YWPJ YHAX YWTE YXEH YKRA YITU NTDB
HALSA - PGP
SULSO - PGP1 PGP2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
233_D	242_K	3.934	1.00
24_D	236_I	3.227	1.00
197_A	211_A	3.040	1.00
234_T	237_E	2.793	1.00
11_K	194_N	2.727	1.00
208_I	214_G	2.579	1.00
29_S	238_D	2.502	1.00
185_T	195_V	2.495	1.00
31_E	238_D	2.447	1.00
15_I	46_V	2.386	1.00
50_T	57_C	2.380	1.00
222_D	226_E	2.293	1.00
23_N	27_L	2.245	1.00
31_E	245_R	2.183	1.00
209_K	227_T	2.179	1.00
182_A	210_E	2.115	1.00
176_N	206_A	1.950	1.00
192_M	210_E	1.932	1.00
202_L	223_I	1.782	1.00
205_I	224_V	1.770	1.00
87_E	183_K	1.759	1.00
10_I	196_M	1.750	1.00
30_D	34_K	1.735	1.00
202_L	221_Q	1.735	1.00
205_I	227_T	1.735	1.00
38_E	41_D	1.716	1.00
191_T	194_N	1.693	1.00
12_L	47_V	1.692	1.00
14_A	181_L	1.685	1.00
92_H	95_H	1.654	1.00
38_E	245_R	1.651	1.00
39_A	44_V	1.644	1.00
215_V	243_A	1.615	1.00
214_G	229_D	1.612	1.00
233_D	237_E	1.608	1.00
80_D	84_N	1.593	1.00
183_K	186_E	1.583	1.00
216_A	228_A	1.575	1.00
222_D	225_K	1.569	1.00
33_R	63_S	1.568	1.00
183_K	187_K	1.564	1.00
36_I	46_V	1.558	1.00
104_N	121_G	1.538	1.00
182_A	186_E	1.536	1.00
197_A	207_M	1.526	1.00
230_Y	247_W	1.511	1.00
178_A	210_E	1.500	1.00
213_L	230_Y	1.499	1.00
213_L	229_D	1.493	1.00
10_I	44_V	1.492	1.00
17_M	22_L	1.490	1.00
224_V	227_T	1.490	1.00
181_L	207_M	1.483	1.00
179_A	182_A	1.470	1.00
38_E	42_K	1.458	1.00
14_A	49_S	1.452	1.00
230_Y	243_A	1.433	1.00
89_K	183_K	1.422	1.00
15_I	198_M	1.410	1.00
34_K	38_E	1.407	1.00
45_Y	188_L	1.393	1.00
95_H	157_E	1.388	1.00
10_I	194_N	1.373	1.00
29_S	32_N	1.369	1.00
198_M	240_V	1.353	1.00
103_R	137_F	1.347	1.00
149_L	153_R	1.328	1.00
40_E	67_S	1.321	1.00
10_I	213_L	1.311	1.00
216_A	220_A	1.309	1.00
98_M	157_E	1.308	1.00
185_T	192_M	1.302	1.00
31_E	242_K	1.294	1.00
198_M	243_A	1.284	1.00
93_T	97_Q	1.263	1.00
32_N	238_D	1.260	1.00
95_H	98_M	1.253	1.00
230_Y	246_H	1.243	1.00
205_I	209_K	1.241	1.00
33_R	37_R	1.228	1.00
193_E	212_G	1.217	1.00
88_R	131_E	1.210	1.00
106_H	151_E	1.199	1.00
240_V	244_I	1.194	1.00
159_E	206_A	1.187	1.00
35_A	241_A	1.184	1.00
192_M	195_V	1.182	1.00
197_A	208_I	1.154	1.00
218_G	234_T	1.153	1.00
223_I	226_E	1.152	1.00
232_T	239_G	1.140	1.00
243_A	247_W	1.138	1.00
31_E	35_A	1.132	1.00
89_K	172_A	1.131	1.00
208_I	224_V	1.129	1.00
225_K	231_I	1.129	1.00
85_L	88_R	1.117	1.00
102_L	106_H	1.116	1.00
47_V	184_V	1.110	1.00
13_I	244_I	1.105	1.00
77_E	85_L	1.095	1.00
37_R	41_D	1.091	1.00
13_I	44_V	1.090	1.00
23_N	236_I	1.080	1.00
144_I	147_E	1.077	1.00
71_I	180_A	1.074	1.00
176_N	179_A	1.072	1.00
195_V	211_A	1.067	1.00
95_H	158_L	1.066	1.00
98_M	155_N	1.064	1.00
40_E	68_S	1.059	1.00
196_M	247_W	1.058	1.00
35_A	245_R	1.048	1.00
17_M	60_L	1.045	1.00
12_L	190_F	1.041	1.00
215_V	232_T	1.029	1.00
157_E	173_L	1.020	1.00
232_T	243_A	1.020	1.00
12_L	185_T	1.018	1.00
14_A	195_V	1.017	1.00
88_R	133_L	1.017	1.00
184_V	188_L	1.016	1.00
220_A	225_K	1.013	1.00
146_N	150_E	1.011	1.00
196_M	215_V	1.010	1.00
241_A	245_R	1.007	1.00
13_I	39_A	1.006	1.00
24_D	235_N	1.006	1.00
150_E	153_R	1.004	1.00
185_T	210_E	0.993	1.00
192_M	212_G	0.991	1.00
159_E	174_G	0.990	1.00
161_T	171_N	0.981	1.00
37_R	40_E	0.981	1.00
219_N	235_N	0.979	1.00
201_S	221_Q	0.973	1.00
30_D	33_R	0.965	1.00
12_L	195_V	0.964	1.00
146_N	162_N	0.964	1.00
221_Q	224_V	0.962	1.00
76_S	175_I	0.957	1.00
78_I	183_K	0.953	1.00
14_A	47_V	0.952	1.00
242_K	246_H	0.951	1.00
21_L	32_N	0.950	1.00
217_M	239_G	0.950	1.00
134_K	169_E	0.946	1.00
178_A	206_A	0.946	1.00
211_A	214_G	0.940	1.00
243_A	246_H	0.936	1.00
37_R	65_K	0.933	1.00
196_M	243_A	0.928	1.00
146_N	149_L	0.927	1.00
215_V	230_Y	0.926	1.00
182_A	192_M	0.924	1.00
102_L	105_K	0.922	1.00
89_K	174_G	0.916	1.00
69_F	188_L	0.913	1.00
233_D	239_G	0.906	1.00
54_L	72_T	0.904	1.00
72_T	77_E	0.899	1.00
185_T	212_G	0.890	1.00
181_L	211_A	0.887	1.00
94_D	98_M	0.887	1.00
217_M	232_T	0.883	1.00
202_L	205_I	0.876	1.00
50_T	72_T	0.874	1.00
196_M	213_L	0.871	1.00
101_D	105_K	0.871	1.00
15_I	240_V	0.869	1.00
79_W	85_L	0.867	1.00
58_R	83_F	0.867	1.00
78_I	87_E	0.865	1.00
172_A	175_I	0.862	1.00
216_A	224_V	0.861	1.00
34_K	37_R	0.861	1.00
218_G	225_K	0.855	1.00
185_T	190_F	0.854	1.00
21_L	36_I	0.854	1.00
171_N	176_N	0.853	1.00
147_E	150_E	0.851	1.00
32_N	241_A	0.836	1.00
39_A	46_V	0.833	1.00
88_R	115_V	0.833	1.00
90_L	131_E	0.830	1.00
98_M	102_L	0.829	1.00
47_V	69_F	0.826	1.00
71_I	184_V	0.826	1.00
97_Q	101_D	0.825	1.00
49_S	71_I	0.822	1.00
100_W	104_N	0.813	1.00
78_I	180_A	0.812	1.00
218_G	233_D	0.807	1.00
151_E	155_N	0.802	1.00
218_G	237_E	0.795	1.00
147_E	151_E	0.791	1.00
44_V	196_M	0.787	1.00
72_T	79_W	0.786	1.00
159_E	176_N	0.785	1.00
208_I	227_T	0.782	1.00
242_K	245_R	0.780	1.00
160_I	170_V	0.779	1.00
17_M	48_I	0.778	1.00
54_L	79_W	0.777	1.00
53_T	73_A	0.776	1.00
233_D	246_H	0.773	1.00
98_M	101_D	0.773	1.00
223_I	227_T	0.772	1.00
13_I	196_M	0.772	1.00
195_V	212_G	0.771	1.00
212_G	229_D	0.767	1.00
149_L	162_N	0.766	1.00
32_N	35_A	0.765	1.00
86_V	187_K	0.759	1.00
58_R	62_E	0.758	1.00
195_V	210_E	0.752	1.00
15_I	21_L	0.747	1.00
39_A	244_I	0.745	1.00
23_N	29_S	0.741	1.00
181_L	197_A	0.738	1.00
217_M	220_A	0.733	1.00
84_N	187_K	0.733	1.00
200_D	220_A	0.733	1.00
151_E	154_K	0.732	1.00
69_F	184_V	0.732	1.00
102_L	151_E	0.726	1.00
156_K	173_L	0.713	1.00
140_E	144_I	0.711	1.00
48_I	57_C	0.710	1.00
105_K	151_E	0.702	1.00
90_L	133_L	0.695	1.00
175_I	179_A	0.689	1.00
179_A	183_K	0.688	1.00
77_E	133_L	0.687	1.00
106_H	147_E	0.685	1.00
31_E	241_A	0.684	1.00
159_E	173_L	0.681	1.00
214_G	224_V	0.679	1.00
79_W	83_F	0.677	1.00
93_T	131_E	0.674	1.00
91_L	172_A	0.672	1.00
182_A	185_T	0.672	1.00
69_F	80_D	0.672	1.00
49_S	207_M	0.672	1.00
232_T	242_K	0.671	1.00
35_A	38_E	0.671	1.00
57_C	72_T	0.670	1.00
23_N	235_N	0.670	1.00
194_N	212_G	0.669	1.00
200_D	217_M	0.665	1.00
220_A	224_V	0.665	1.00
136_G	169_E	0.665	1.00
73_A	169_E	0.664	1.00
142_D	146_N	0.659	1.00
230_Y	242_K	0.658	1.00
145_R	149_L	0.657	1.00
51_G	203_N	0.657	1.00
94_D	97_Q	0.655	1.00
197_A	214_G	0.646	1.00
12_L	184_V	0.645	1.00
74_N	169_E	0.643	1.00
19_G	217_M	0.642	1.00
25_E	236_I	0.642	1.00
104_N	110_F	0.641	1.00
31_E	34_K	0.640	1.00
32_N	36_I	0.638	1.00
54_L	58_R	0.637	1.00
21_L	28_I	0.636	1.00
198_M	215_V	0.635	1.00
230_Y	233_D	0.633	1.00
96_I	100_W	0.627	1.00
17_M	21_L	0.627	1.00
10_I	45_Y	0.627	1.00
45_Y	69_F	0.626	1.00
160_I	168_I	0.624	1.00
76_S	172_A	0.619	1.00
150_E	154_K	0.618	1.00
178_A	182_A	0.612	1.00
208_I	228_A	0.611	1.00
57_C	70_L	0.607	1.00
214_G	228_A	0.607	1.00
13_I	198_M	0.606	1.00
202_L	224_V	0.604	1.00
21_L	48_I	0.603	1.00
206_A	209_K	0.602	1.00
219_N	225_K	0.602	1.00
233_D	243_A	0.602	1.00
85_L	115_V	0.594	1.00
159_E	171_N	0.593	1.00
21_L	235_N	0.592	1.00
96_I	132_W	0.591	1.00
45_Y	68_S	0.590	1.00
102_L	155_N	0.589	1.00
100_W	112_A	0.588	1.00
73_A	76_S	0.583	1.00
48_I	61_A	0.583	1.00
198_M	232_T	0.580	1.00
44_V	194_N	0.580	1.00
11_K	44_V	0.578	1.00
174_G	179_A	0.573	1.00
141_D	144_I	0.573	1.00
107_N	144_I	0.572	1.00
17_M	57_C	0.565	1.00
213_L	243_A	0.564	1.00
35_A	39_A	0.563	1.00
216_A	227_T	0.563	1.00
143_D	147_E	0.559	1.00
28_I	33_R	0.559	1.00
148_V	152_L	0.556	1.00
217_M	235_N	0.552	1.00
78_I	184_V	0.552	1.00
22_L	235_N	0.551	1.00
114_T	132_W	0.543	0.99
49_S	74_N	0.540	0.99
114_T	119_W	0.540	0.99
111_W	136_G	0.539	0.99
99_M	103_R	0.537	0.99
100_W	110_F	0.537	0.99
190_F	195_V	0.536	0.99
53_T	56_T	0.534	0.99
224_V	228_A	0.533	0.99
73_A	167_N	0.531	0.99
20_T	203_N	0.531	0.99
80_D	187_K	0.530	0.99
115_V	130_H	0.530	0.99
73_A	133_L	0.527	0.99
238_D	241_A	0.526	0.99
115_V	131_E	0.524	0.99
15_I	39_A	0.524	0.99
77_E	115_V	0.523	0.99
164_S	201_S	0.523	0.99
61_A	70_L	0.521	0.99
12_L	45_Y	0.520	0.99
40_E	65_K	0.519	0.99
219_N	234_T	0.519	0.99
205_I	208_I	0.519	0.99
78_I	187_K	0.517	0.99
29_S	241_A	0.516	0.99
34_K	245_R	0.515	0.99
221_Q	225_K	0.512	0.99
21_L	240_V	0.508	0.99
56_T	167_N	0.507	0.99
198_M	244_I	0.504	0.99
47_V	68_S	0.503	0.99
73_A	136_G	0.501	0.99
92_H	96_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)
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
1nrwA	1	0.9598	100	0.195	Contact Map
3pgvA	3	0.9639	100	0.212	Contact Map
3l7yA	1	0.9558	100	0.237	Contact Map
4qjbA	1	0.996	100	0.243	Contact Map
1rkqA	1	0.9719	100	0.25	Contact Map
3dnpA	2	0.9598	100	0.251	Contact Map
2b30A	2	0.992	100	0.252	Contact Map
3fzqA	2	0.9558	100	0.255	Contact Map
1nf2A	4	0.9598	100	0.255	Contact Map
2pq0A	1	0.9478	100	0.26	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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