CWLA - BACSU - GREMLIN Contacts

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CWLA - N-acetylmuramoyl-L-alanine amidase CwlA

UniProt:	P24808	Sequences: MAIKVVKNLVSKSKYGLKCPNPMKAEYITIHNTANDASAANEISYMKNNSSSTSFHFAVDDKQVIQGIPTNRNAWHTGDGTNGTGNRKSIGVEICYSKSGGVRYKAAEKLAIKFVAQLLKERGWGIDRVRKHQDWNGKYCPHRILSEGRWIQVKTAIEAELKKLGGKTNSSKASVAKKKTTNTSSKKTSYALPSGIFKVKSPMMRGEKVTQIQKALAALYFYPDKGAKNNGIDGVYGPKTADAIRRFQSMYGLTQDGIYGPKTKAKLEALLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	272 (240)
Sequences:	337 (248)
Seq/√Len:	16.0

ECOLI - AMID
BACSU - CWLA XLYB CWLH XLYA BLYA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
76_H	91_G	7.133	1.00
233_D	237_G	4.076	1.00
153_V	157_I	3.322	0.99
57_F	114_F	2.895	0.98
234_G	240_T	2.716	0.97
94_I	111_A	2.684	0.96
55_F	93_E	2.532	0.95
150_W	154_K	2.505	0.95
68_I	74_A	2.493	0.95
233_D	240_T	2.472	0.94
134_D	150_W	2.449	0.94
261_P	265_A	2.417	0.94
60_D	95_C	2.387	0.93
108_E	156_A	2.330	0.92
112_I	156_A	2.238	0.91
213_Q	240_T	2.202	0.90
29_T	135_W	2.192	0.90
116_A	124_W	2.174	0.89
80_G	85_G	2.133	0.88
236_Y	240_T	2.131	0.88
57_F	70_T	2.115	0.88
248_Q	257_G	2.066	0.87
50_S	54_S	2.066	0.87
37_A	95_C	2.031	0.86
236_Y	241_A	2.029	0.86
206_G	213_Q	2.019	0.85
240_T	243_A	1.979	0.84
33_T	93_E	1.924	0.83
131_K	134_D	1.923	0.82
111_A	153_V	1.915	0.82
179_K	183_T	1.857	0.80
96_Y	104_Y	1.856	0.80
79_D	136_N	1.844	0.80
237_G	240_T	1.831	0.79
85_G	135_W	1.831	0.79
116_A	119_L	1.714	0.74
42_E	46_M	1.704	0.74
107_A	145_L	1.695	0.73
67_G	77_T	1.693	0.73
248_Q	256_D	1.684	0.73
47_K	71_N	1.682	0.73
27_Y	89_S	1.660	0.72
234_G	237_G	1.656	0.72
62_K	65_I	1.652	0.71
32_N	96_Y	1.647	0.71
43_I	46_M	1.639	0.71
251_Y	263_T	1.613	0.70
58_A	67_G	1.605	0.69
247_F	253_L	1.593	0.69
200_K	203_M	1.582	0.68
116_A	161_L	1.570	0.67
250_M	264_K	1.566	0.67
37_A	42_E	1.559	0.67
222_Y	231_G	1.525	0.65
246_R	250_M	1.519	0.65
39_A	43_I	1.507	0.64
42_E	45_Y	1.495	0.64
223_P	246_R	1.442	0.61
213_Q	233_D	1.386	0.58
195_G	200_K	1.385	0.57
244_I	259_Y	1.374	0.57
213_Q	237_G	1.373	0.57
38_S	42_E	1.364	0.56
221_F	243_A	1.350	0.55
31_H	132_H	1.293	0.52
167_K	171_S	1.287	0.52
54_S	75_W	1.280	0.51
33_T	37_A	1.277	0.51
251_Y	266_K	1.273	0.51
241_A	245_R	1.269	0.51
253_L	262_K	1.269	0.51
244_I	263_T	1.266	0.51
54_S	140_C	1.253	0.50
236_Y	243_A	1.246	0.49
215_A	218_A	1.246	0.49
55_F	96_Y	1.236	0.49
40_A	44_S	1.224	0.48
33_T	138_K	1.223	0.48
131_K	145_L	1.218	0.48
210_T	240_T	1.214	0.48
221_F	250_M	1.211	0.47
54_S	134_D	1.179	0.46
259_Y	264_K	1.175	0.45
108_E	112_I	1.172	0.45
80_G	135_W	1.162	0.45
38_S	48_N	1.162	0.45
245_R	262_K	1.137	0.43
244_I	253_L	1.136	0.43
167_K	177_K	1.132	0.43
210_T	234_G	1.130	0.43
159_A	166_G	1.123	0.42
192_L	195_G	1.118	0.42
92_V	114_F	1.095	0.41
57_F	140_C	1.095	0.41
69_P	72_R	1.092	0.41
93_E	96_Y	1.072	0.39
210_T	231_G	1.061	0.39
117_Q	121_E	1.059	0.39
91_G	138_K	1.055	0.39
30_I	115_V	1.048	0.38
54_S	68_I	1.046	0.38
134_D	154_K	1.046	0.38
199_V	206_G	1.043	0.38
21_N	87_R	1.042	0.38
94_I	107_A	1.042	0.38
244_I	247_F	1.034	0.37
173_A	182_N	1.033	0.37
86_N	132_H	1.031	0.37
247_F	263_T	1.016	0.36
39_A	42_E	1.016	0.36
130_R	150_W	1.011	0.36
29_T	130_R	1.011	0.36
237_G	248_Q	1.002	0.36
29_T	89_S	0.998	0.35
31_H	86_N	0.988	0.35
195_G	202_P	0.988	0.35
253_L	263_T	0.983	0.35
236_Y	239_K	0.982	0.35
217_A	223_P	0.980	0.35
70_T	121_E	0.980	0.35
179_K	182_N	0.979	0.34
76_H	86_N	0.975	0.34
79_D	137_G	0.972	0.34
86_N	91_G	0.966	0.34
235_V	262_K	0.962	0.34
197_F	200_K	0.948	0.33
54_S	72_R	0.947	0.33
238_P	242_D	0.945	0.33
59_V	111_A	0.937	0.32
222_Y	240_T	0.937	0.32
118_L	129_V	0.926	0.32
119_L	161_L	0.925	0.32
170_S	180_T	0.924	0.32
163_K	167_K	0.920	0.31
217_A	232_I	0.919	0.31
64_V	113_K	0.918	0.31
220_Y	223_P	0.915	0.31
206_G	209_V	0.906	0.31
76_H	138_K	0.905	0.31
35_N	69_P	0.902	0.31
213_Q	222_Y	0.900	0.30
104_Y	107_A	0.897	0.30
188_T	191_A	0.895	0.30
248_Q	255_Q	0.891	0.30
78_G	93_E	0.889	0.30
212_I	244_I	0.887	0.30
46_M	51_S	0.886	0.30
32_N	138_K	0.879	0.29
254_T	262_K	0.876	0.29
180_T	183_T	0.873	0.29
213_Q	243_A	0.868	0.29
66_Q	114_F	0.868	0.29
245_R	249_S	0.867	0.29
212_I	221_F	0.867	0.29
248_Q	260_G	0.865	0.29
258_I	261_P	0.865	0.29
55_F	91_G	0.863	0.29
238_P	245_R	0.859	0.28
253_L	260_G	0.859	0.28
215_A	264_K	0.859	0.28
259_Y	263_T	0.857	0.28
232_I	239_K	0.856	0.28
209_V	243_A	0.852	0.28
54_S	93_E	0.849	0.28
249_S	259_Y	0.848	0.28
233_D	236_Y	0.845	0.28
78_G	86_N	0.843	0.28
28_I	117_Q	0.841	0.28
166_G	170_S	0.841	0.28
217_A	241_A	0.840	0.28
107_A	131_K	0.838	0.28
46_M	55_F	0.836	0.27
35_N	42_E	0.835	0.27
196_I	202_P	0.834	0.27
206_G	243_A	0.831	0.27
32_N	117_Q	0.819	0.27
190_Y	204_M	0.816	0.26
27_Y	154_K	0.810	0.26
34_A	42_E	0.806	0.26
95_C	107_A	0.805	0.26
241_A	264_K	0.805	0.26
124_W	161_L	0.799	0.26
197_F	204_M	0.792	0.25
36_D	97_S	0.791	0.25
165_G	170_S	0.785	0.25
177_K	183_T	0.785	0.25
55_F	58_A	0.785	0.25
249_S	255_Q	0.783	0.25
27_Y	104_Y	0.781	0.25
45_Y	60_D	0.778	0.25
27_Y	150_W	0.776	0.25
39_A	95_C	0.770	0.24
230_N	242_D	0.768	0.24
46_M	58_A	0.767	0.24
23_M	140_C	0.766	0.24
54_S	89_S	0.763	0.24
13_S	118_L	0.763	0.24
54_S	66_Q	0.760	0.24
38_S	41_N	0.757	0.24
38_S	45_Y	0.756	0.24
209_V	212_I	0.755	0.24
79_D	140_C	0.755	0.24
249_S	262_K	0.755	0.24
220_Y	267_L	0.739	0.23
29_T	85_G	0.738	0.23
163_K	168_T	0.738	0.23
51_S	70_T	0.738	0.23
178_K	183_T	0.735	0.23
37_A	45_Y	0.735	0.23
210_T	233_D	0.735	0.23
210_T	232_I	0.735	0.23
236_Y	259_Y	0.734	0.23
170_S	179_K	0.733	0.23
55_F	67_G	0.732	0.23
74_A	91_G	0.726	0.23
46_M	54_S	0.726	0.23
247_F	251_Y	0.726	0.23
240_T	260_G	0.724	0.23
221_F	264_K	0.724	0.23
140_C	145_L	0.722	0.22
77_T	91_G	0.721	0.22
89_S	140_C	0.716	0.22
52_S	78_G	0.714	0.22
92_V	129_V	0.712	0.22
37_A	41_N	0.712	0.22
258_I	266_K	0.711	0.22
196_I	200_K	0.711	0.22
215_A	243_A	0.702	0.22
137_G	140_C	0.694	0.21
32_N	104_Y	0.693	0.21
94_I	103_R	0.693	0.21
218_A	222_Y	0.692	0.21
175_V	178_K	0.692	0.21
158_E	166_G	0.691	0.21
50_S	75_W	0.690	0.21
242_D	246_R	0.689	0.21
251_Y	254_T	0.687	0.21
237_G	260_G	0.686	0.21
26_E	88_K	0.685	0.21
131_K	150_W	0.684	0.21
75_W	93_E	0.684	0.21
193_P	197_F	0.683	0.21
190_Y	198_K	0.683	0.21
56_H	86_N	0.679	0.21
53_T	72_R	0.676	0.21
55_F	74_A	0.676	0.21
213_Q	234_G	0.674	0.21
211_Q	215_A	0.673	0.21
41_N	45_Y	0.671	0.20
241_A	259_Y	0.670	0.20
48_N	118_L	0.668	0.20
36_D	129_V	0.667	0.20
190_Y	193_P	0.666	0.20
174_S	177_K	0.664	0.20
163_K	172_K	0.662	0.20
59_V	110_L	0.659	0.20
231_G	234_G	0.656	0.20
42_E	95_C	0.652	0.20
231_G	239_K	0.650	0.20
253_L	261_P	0.648	0.20
138_K	142_H	0.647	0.20
215_A	220_Y	0.646	0.20
38_S	46_M	0.645	0.20
129_V	142_H	0.641	0.19
68_I	75_W	0.639	0.19
250_M	259_Y	0.638	0.19
64_V	114_F	0.635	0.19
39_A	63_Q	0.635	0.19
60_D	63_Q	0.635	0.19
62_K	110_L	0.628	0.19
59_V	94_I	0.627	0.19
206_G	221_F	0.623	0.19
235_V	265_A	0.619	0.19
27_Y	130_R	0.619	0.19
205_R	219_L	0.617	0.19
55_F	76_H	0.617	0.19
190_Y	202_P	0.614	0.18
249_S	264_K	0.612	0.18
74_A	96_Y	0.612	0.18
78_G	138_K	0.611	0.18
172_K	177_K	0.611	0.18
210_T	213_Q	0.610	0.18
218_A	231_G	0.608	0.18
195_G	199_V	0.607	0.18
233_D	258_I	0.601	0.18
213_Q	263_T	0.601	0.18
231_G	237_G	0.601	0.18
221_F	234_G	0.600	0.18
213_Q	236_Y	0.595	0.18
231_G	250_M	0.595	0.18
208_K	215_A	0.595	0.18
96_Y	138_K	0.594	0.18
163_K	217_A	0.592	0.18
29_T	140_C	0.589	0.18
35_N	39_A	0.587	0.17
258_I	265_A	0.586	0.17
46_M	53_T	0.583	0.17
199_V	215_A	0.582	0.17
20_P	72_R	0.581	0.17
152_Q	173_A	0.580	0.17
55_F	68_I	0.579	0.17
36_D	67_G	0.575	0.17
89_S	154_K	0.575	0.17
121_E	154_K	0.574	0.17
175_V	179_K	0.574	0.17
192_L	197_F	0.574	0.17
33_T	153_V	0.569	0.17
53_T	93_E	0.565	0.17
44_S	47_K	0.565	0.17
95_C	111_A	0.565	0.17
54_S	103_R	0.564	0.17
44_S	48_N	0.563	0.17
223_P	234_G	0.563	0.17
212_I	215_A	0.561	0.17
178_K	181_T	0.560	0.17
106_A	201_S	0.560	0.17
55_F	107_A	0.557	0.17
97_S	101_G	0.555	0.16
241_A	255_Q	0.555	0.16
233_D	243_A	0.554	0.16
200_K	215_A	0.551	0.16
257_G	263_T	0.550	0.16
32_N	150_W	0.549	0.16
28_I	115_V	0.547	0.16
217_A	231_G	0.546	0.16
78_G	136_N	0.544	0.16
205_R	208_K	0.543	0.16
207_E	220_Y	0.541	0.16
253_L	266_K	0.541	0.16
188_T	201_S	0.537	0.16
54_S	57_F	0.537	0.16
16_G	73_N	0.536	0.16
25_A	104_Y	0.534	0.16
205_R	235_V	0.533	0.16
131_K	140_C	0.529	0.16
223_P	232_I	0.529	0.16
192_L	202_P	0.528	0.16
237_G	257_G	0.528	0.16
64_V	159_A	0.527	0.16
200_K	206_G	0.527	0.16
96_Y	140_C	0.526	0.16
242_D	254_T	0.525	0.16
63_Q	66_Q	0.524	0.15
222_Y	264_K	0.519	0.15
176_A	181_T	0.518	0.15
243_A	247_F	0.517	0.15
166_G	172_K	0.516	0.15
33_T	96_Y	0.515	0.15
162_K	165_G	0.514	0.15
196_I	199_V	0.510	0.15
166_G	178_K	0.509	0.15
173_A	176_A	0.507	0.15
32_N	91_G	0.507	0.15
232_I	240_T	0.506	0.15
262_K	265_A	0.501	0.15
91_G	131_K	0.501	0.15
39_A	46_M	0.501	0.15
236_Y	249_S	0.500	0.15
89_S	92_V	0.500	0.15
182_N	201_S	0.500	0.15

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
4bolA	2	0.8199	100	0.366	Contact Map
3d2yA	3	0.8346	100	0.373	Contact Map
4bxjA	4	0.8162	100	0.378	Contact Map
1yb0A	3	0.5846	100	0.495	Contact Map
3rdrA	4	0.5515	100	0.519	Contact Map
4ivvA	1	0.5662	100	0.521	Contact Map
4knkA	1	0.6213	100	0.523	Contact Map
4olsA	2	0.5772	100	0.526	Contact Map
1j3gA	1	0.5846	100	0.573	Contact Map
1ohtA	1	0.5772	100	0.586	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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