LYTG - BACSU - GREMLIN Contacts

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LYTG - Exo-glucosaminidase LytG

UniProt:	O32083	Sequences: MARKKLKKRKLLISLFFLVSIPLALFVLATTLSKPIEISKETEEIDEQQVFIDSLSGHAQILYEKYHVLPSITIAQAILESDWGNSELAAKANNLFGVKGNYKGHHVTMETDEVEKGKRKTIRAKFRKYSTFFESMDDHAQLFVRGTSWNKKKYKPVLEAGNYKEAATALQTSGYATDPDYADKISAIVEKYDLDEYDEVNPSLKSVDLNASIKDSAVQDVWSKPSTDDRSIRLTSAQSYVGKDIKVVSKKQKGQSVWYQFQINDKLIGWIDDSAVEIKEAT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	282 (230)
Sequences:	375 (298)
Seq/√Len:	19.6

ECOLI - FLGJ
BACSU - LYTG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
167_A	186_S	5.770	1.00
178_D	184_K	4.697	1.00
62_L	140_A	3.737	1.00
226_S	241_V	3.430	1.00
193_D	196_E	3.406	1.00
74_I	197_Y	3.293	1.00
48_Q	83_W	3.166	0.99
114_V	179_P	3.076	0.99
79_L	184_K	2.775	0.99
112_D	121_T	2.766	0.99
102_Y	106_H	2.488	0.97
93_N	128_K	2.418	0.97
164_K	190_E	2.265	0.95
249_S	257_V	2.213	0.94
169_A	174_G	2.192	0.94
72_I	167_A	2.153	0.93
48_Q	78_I	2.107	0.93
237_A	252_Q	2.104	0.93
226_S	232_I	2.017	0.91
234_L	245_I	1.968	0.90
62_L	136_M	1.939	0.89
102_Y	130_S	1.931	0.89
115_E	120_K	1.882	0.87
187_A	191_K	1.875	0.87
144_V	158_L	1.866	0.87
237_A	248_V	1.865	0.87
69_L	73_T	1.828	0.86
234_L	254_G	1.801	0.85
226_S	237_A	1.749	0.83
127_R	138_D	1.695	0.81
114_V	118_K	1.645	0.79
95_L	132_F	1.635	0.79
87_E	109_M	1.629	0.78
72_I	186_S	1.616	0.78
115_E	118_K	1.591	0.77
234_L	249_S	1.590	0.77
77_A	136_M	1.587	0.77
172_T	182_A	1.570	0.76
231_S	252_Q	1.561	0.75
231_S	237_A	1.554	0.75
243_K	247_V	1.550	0.75
254_G	259_Y	1.542	0.74
112_D	119_R	1.510	0.73
63_Y	69_L	1.501	0.72
228_D	237_A	1.476	0.71
232_I	252_Q	1.475	0.71
228_D	232_I	1.464	0.70
60_Q	200_V	1.461	0.70
131_T	134_E	1.438	0.69
139_H	179_P	1.435	0.69
74_I	173_S	1.429	0.69
69_L	158_L	1.422	0.68
72_I	163_Y	1.404	0.67
55_L	136_M	1.403	0.67
100_G	130_S	1.384	0.66
249_S	256_S	1.381	0.66
99_K	126_F	1.373	0.65
162_N	174_G	1.330	0.63
63_Y	73_T	1.323	0.62
228_D	262_Q	1.323	0.62
83_W	188_I	1.320	0.62
153_K	174_G	1.296	0.61
87_E	91_K	1.267	0.59
79_L	188_I	1.263	0.59
126_F	177_T	1.257	0.58
89_A	93_N	1.247	0.58
160_A	165_E	1.246	0.58
142_L	153_K	1.232	0.57
114_V	119_R	1.228	0.56
130_S	134_E	1.227	0.56
51_F	124_A	1.223	0.56
92_A	167_A	1.207	0.55
47_E	85_N	1.198	0.55
244_D	259_Y	1.194	0.54
114_V	122_I	1.193	0.54
102_Y	105_H	1.191	0.54
79_L	178_D	1.190	0.54
129_Y	138_D	1.189	0.54
233_R	239_S	1.187	0.54
122_I	125_K	1.184	0.54
88_L	126_F	1.183	0.54
78_I	83_W	1.166	0.53
180_D	212_S	1.166	0.53
100_G	105_H	1.158	0.52
35_P	38_I	1.152	0.52
72_I	170_L	1.147	0.51
139_H	143_F	1.140	0.51
136_M	140_A	1.139	0.51
33_S	39_S	1.138	0.51
55_L	74_I	1.137	0.51
259_Y	262_Q	1.124	0.50
259_Y	263_I	1.121	0.50
99_K	177_T	1.118	0.49
73_T	157_V	1.115	0.49
88_L	99_K	1.110	0.49
232_I	240_Y	1.101	0.48
162_N	165_E	1.100	0.48
226_S	231_S	1.100	0.48
180_D	184_K	1.077	0.47
234_L	243_K	1.074	0.47
83_W	109_M	1.068	0.46
107_V	128_K	1.059	0.46
73_T	139_H	1.053	0.45
228_D	263_I	1.050	0.45
120_K	179_P	1.043	0.45
136_M	139_H	1.041	0.45
228_D	231_S	1.035	0.44
108_T	125_K	1.031	0.44
135_S	175_Y	1.030	0.44
51_F	83_W	1.019	0.43
156_P	159_E	1.013	0.43
157_V	174_G	1.006	0.42
102_Y	107_V	1.006	0.42
111_T	124_A	1.003	0.42
100_G	103_K	0.996	0.42
92_A	186_S	0.995	0.42
254_G	262_Q	0.995	0.42
105_H	128_K	0.982	0.41
130_S	145_R	0.966	0.40
88_L	177_T	0.961	0.40
67_H	160_A	0.960	0.39
228_D	248_V	0.945	0.39
73_T	174_G	0.943	0.38
233_R	241_V	0.942	0.38
127_R	154_Y	0.940	0.38
129_Y	166_A	0.938	0.38
248_V	252_Q	0.935	0.38
219_Q	224_K	0.933	0.38
56_S	188_I	0.928	0.38
75_A	176_A	0.928	0.38
180_D	183_D	0.922	0.37
134_E	179_P	0.922	0.37
29_A	33_S	0.920	0.37
139_H	158_L	0.920	0.37
156_P	173_S	0.917	0.37
206_S	210_N	0.913	0.37
114_V	121_T	0.913	0.37
220_D	223_S	0.912	0.37
55_L	132_F	0.907	0.36
208_D	225_P	0.906	0.36
95_L	166_A	0.903	0.36
68_V	166_A	0.902	0.36
232_I	237_A	0.898	0.36
254_G	263_I	0.895	0.36
42_T	45_I	0.894	0.35
103_K	239_S	0.892	0.35
231_S	248_V	0.891	0.35
29_A	32_L	0.891	0.35
33_S	36_I	0.882	0.35
70_P	184_K	0.878	0.35
153_K	157_V	0.878	0.35
119_R	139_H	0.876	0.34
98_V	138_D	0.870	0.34
139_H	157_V	0.868	0.34
118_K	139_H	0.867	0.34
234_L	263_I	0.864	0.34
180_D	253_K	0.861	0.34
69_L	157_V	0.861	0.34
30_T	34_K	0.857	0.33
53_D	57_G	0.856	0.33
61_I	133_F	0.851	0.33
139_H	169_A	0.843	0.33
163_Y	190_E	0.841	0.32
34_K	39_S	0.838	0.32
221_V	259_Y	0.834	0.32
209_L	216_S	0.833	0.32
68_V	173_S	0.832	0.32
232_I	259_Y	0.827	0.32
135_S	138_D	0.822	0.31
157_V	173_S	0.821	0.31
69_L	166_A	0.821	0.31
162_N	167_A	0.817	0.31
52_I	192_Y	0.816	0.31
205_K	208_D	0.812	0.31
49_Q	53_D	0.812	0.31
160_A	170_L	0.811	0.31
168_T	186_S	0.811	0.31
232_I	262_Q	0.808	0.31
54_S	131_T	0.808	0.31
252_Q	263_I	0.807	0.31
51_F	55_L	0.807	0.31
72_I	138_D	0.806	0.30
104_G	107_V	0.805	0.30
162_N	172_T	0.803	0.30
207_V	216_S	0.800	0.30
82_D	143_F	0.796	0.30
71_S	198_D	0.794	0.30
67_H	159_E	0.790	0.30
160_A	172_T	0.789	0.30
59_A	74_I	0.785	0.29
33_S	37_E	0.784	0.29
100_G	106_H	0.784	0.29
55_L	95_L	0.778	0.29
254_G	261_F	0.768	0.28
56_S	178_D	0.762	0.28
32_L	36_I	0.761	0.28
69_L	139_H	0.759	0.28
157_V	169_A	0.756	0.28
211_A	218_V	0.755	0.28
233_R	245_I	0.752	0.28
29_A	34_K	0.751	0.28
159_E	170_L	0.746	0.27
83_W	89_A	0.745	0.27
249_S	258_W	0.733	0.27
246_K	249_S	0.732	0.27
131_T	200_V	0.730	0.27
73_T	158_L	0.729	0.26
212_S	218_V	0.728	0.26
129_Y	185_I	0.722	0.26
252_Q	262_Q	0.721	0.26
113_E	166_A	0.718	0.26
222_W	253_K	0.712	0.26
118_K	179_P	0.710	0.26
114_V	139_H	0.709	0.25
73_T	173_S	0.708	0.25
82_D	169_A	0.708	0.25
138_D	163_Y	0.708	0.25
228_D	233_R	0.708	0.25
232_I	257_V	0.707	0.25
102_Y	134_E	0.707	0.25
86_S	111_T	0.704	0.25
196_E	200_V	0.700	0.25
34_K	38_I	0.697	0.25
69_L	162_N	0.695	0.25
69_L	113_E	0.691	0.25
234_L	261_F	0.690	0.25
232_I	248_V	0.688	0.24
232_I	241_V	0.688	0.24
127_R	190_E	0.687	0.24
228_D	241_V	0.686	0.24
63_Y	68_V	0.683	0.24
100_G	166_A	0.678	0.24
134_E	196_E	0.677	0.24
233_R	261_F	0.671	0.24
73_T	162_N	0.669	0.24
228_D	252_Q	0.666	0.23
73_T	140_A	0.664	0.23
184_K	188_I	0.662	0.23
69_L	132_F	0.661	0.23
45_I	193_D	0.660	0.23
226_S	244_D	0.660	0.23
228_D	254_G	0.659	0.23
63_Y	173_S	0.658	0.23
232_I	263_I	0.652	0.23
68_V	174_G	0.651	0.23
207_V	212_S	0.650	0.23
70_P	197_Y	0.644	0.22
246_K	250_K	0.643	0.22
36_I	39_S	0.640	0.22
245_I	261_F	0.638	0.22
100_G	113_E	0.636	0.22
232_I	254_G	0.632	0.22
236_S	246_K	0.630	0.22
69_L	95_L	0.628	0.22
187_A	218_V	0.627	0.22
130_S	193_D	0.626	0.22
68_V	157_V	0.625	0.22
61_I	89_A	0.624	0.22
88_L	175_Y	0.622	0.21
221_V	225_P	0.622	0.21
95_L	113_E	0.620	0.21
53_D	56_S	0.619	0.21
53_D	229_D	0.616	0.21
74_I	77_A	0.616	0.21
143_F	154_Y	0.615	0.21
52_I	70_P	0.612	0.21
98_V	142_L	0.608	0.21
211_A	222_W	0.608	0.21
160_A	174_G	0.608	0.21
70_P	74_I	0.607	0.21
243_K	252_Q	0.607	0.21
114_V	180_D	0.604	0.21
142_L	157_V	0.598	0.20
258_W	263_I	0.596	0.20
72_I	173_S	0.594	0.20
63_Y	143_F	0.593	0.20
51_F	166_A	0.591	0.20
143_F	157_V	0.591	0.20
118_K	172_T	0.590	0.20
51_F	113_E	0.589	0.20
249_S	254_G	0.588	0.20
47_E	161_G	0.587	0.20
69_L	174_G	0.586	0.20
143_F	158_L	0.584	0.20
137_D	141_Q	0.583	0.20
243_K	251_K	0.583	0.20
237_A	262_Q	0.581	0.20
243_K	248_V	0.580	0.20
206_S	209_L	0.580	0.20
145_R	233_R	0.578	0.20
72_I	100_G	0.576	0.20
113_E	126_F	0.572	0.19
75_A	185_I	0.571	0.19
108_T	124_A	0.570	0.19
72_I	101_N	0.569	0.19
244_D	262_Q	0.568	0.19
232_I	244_D	0.567	0.19
237_A	244_D	0.567	0.19
51_F	95_L	0.566	0.19
217_A	244_D	0.565	0.19
60_Q	86_S	0.565	0.19
69_L	136_M	0.564	0.19
226_S	254_G	0.560	0.19
193_D	223_S	0.559	0.19
212_S	215_D	0.558	0.19
155_K	218_V	0.557	0.19
215_D	224_K	0.556	0.19
92_A	132_F	0.549	0.18
231_S	263_I	0.546	0.18
126_F	175_Y	0.543	0.18
126_F	176_A	0.542	0.18
252_Q	259_Y	0.541	0.18
178_D	188_I	0.541	0.18
95_L	136_M	0.541	0.18
207_V	213_I	0.540	0.18
229_D	246_K	0.540	0.18
61_I	131_T	0.540	0.18
103_K	106_H	0.538	0.18
63_Y	70_P	0.538	0.18
140_A	184_K	0.535	0.18
216_S	220_D	0.531	0.18
217_A	223_S	0.531	0.18
128_K	245_I	0.527	0.18
101_N	111_T	0.526	0.18
63_Y	136_M	0.523	0.17
78_I	139_H	0.522	0.17
233_R	252_Q	0.520	0.17
100_G	104_G	0.520	0.17
68_V	73_T	0.520	0.17
136_M	166_A	0.520	0.17
68_V	127_R	0.519	0.17
81_S	93_N	0.519	0.17
114_V	120_K	0.516	0.17
59_A	95_L	0.515	0.17
234_L	244_D	0.515	0.17
247_V	257_V	0.512	0.17
254_G	257_V	0.511	0.17
60_Q	64_E	0.508	0.17
212_S	238_Q	0.505	0.17
51_F	125_K	0.505	0.17
218_V	221_V	0.504	0.17
231_S	259_Y	0.503	0.17
54_S	61_I	0.503	0.17
50_V	243_K	0.500	0.17
52_I	120_K	0.500	0.17

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
3fi7A	4	0.6135	100	0.47	Contact Map
2zycA	1	0.5319	100	0.498	Contact Map
4qdnA	2	0.4113	100	0.561	Contact Map
4kt3A	1	0.4858	100	0.591	Contact Map
4q2wA	1	0.5532	100	0.652	Contact Map
2l9yA	1	0.422	99	0.872	Contact Map
2djpA	1	0.2624	98.2	0.903	Contact Map
2mkxA	1	0.1809	98	0.906	Contact Map
4xcmA	2	0.2092	97.8	0.911	Contact Map
2mpwA	1	0.2943	97.8	0.912	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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