0.013966
0.008064
0.000000
0.000000
0.016127
0.000000
0.000000
0.000000
0.005056
0.00000
0.00000
0.00000
Wong, J.
Midtgaard, S.
Gysel, K.
Thygesen, M.B.
Sorensen, K.K.
Jensen, K.J.
Stougaard, J.
Thirup, S.
Blaise, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
71.600
71.600
197.790
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Acta Crystallogr.,Sect.D
ABCRE6
1399-0047
71
592
605
10.1107/S139900471402793X
25760608
An intermolecular binding mechanism involving multiple LysM domains mediates carbohydrate recognition by an endopeptidase.
2015
100
1
CCD
2012-09-29
MARMOSAIC 225 mm CCD
SINGLE WAVELENGTH
M
x-ray
1
0.979
1.0
I911-3
MAX II
0.979
SYNCHROTRON
MAX II BEAMLINE I911-3
26689.967
Cell wall-binding endopeptidase-related protein
UNP residues 15-258
2
man
polymer
18.015
water
16
nat
water
no
yes
AQATYTVAPGDTLYSIARRYGTTVEEL(MSE)RLNGLESFLLQPGQVLKLPSRERTHVVAPGDTLFSLARRYGTTVEAL
(MSE)RLNGLSSPEIKVGQVLRLPEEGEAPPPPPPEPEALDPESPLLRAVLRYLGVPYKYGANSPLALDCSAFVAQVYAE
LGVALPRTTKEQYQAFPPVEAPRPGDLVFFSFGGKEVDHVGIYLGRGVFAHASSYGSRVVIESLEAPFYRKVYRGARRV
(MSE)ASPEPPPAPSATP
AQATYTVAPGDTLYSIARRYGTTVEELMRLNGLESFLLQPGQVLKLPSRERTHVVAPGDTLFSLARRYGTTVEALMRLNG
LSSPEIKVGQVLRLPEEGEAPPPPPPEPEALDPESPLLRAVLRYLGVPYKYGANSPLALDCSAFVAQVYAELGVALPRTT
KEQYQAFPPVEAPRPGDLVFFSFGGKEVDHVGIYLGRGVFAHASSYGSRVVIESLEAPFYRKVYRGARRVMASPEPPPAP
SATP
A,B
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
1
244
TTHA0266
300852
Thermus thermophilus HB8
469008
Escherichia coli
BL21(DE3)
rosetta2
Biological sequence
2.75
55
VAPOR DIFFUSION, SITTING DROP
5.5
0.1 M sodium citrate pH 5.5, 16%
PEG 4000, 15% 2-propanol
292
diffrn_source
repository
Initial release
Database references
Database references
Data collection
1
0
2015-01-14
1
1
2015-03-11
1
2
2016-07-20
1
3
2018-01-17
_diffrn_source.pdbx_synchrotron_site
N
RCSB
Y
PDBE
2014-12-18
REL
REL
HOH
water
HOH
6
2
HOH
HOH
301
A
HOH
1
2
HOH
HOH
302
A
HOH
2
2
HOH
HOH
303
A
HOH
4
2
HOH
HOH
304
A
HOH
13
2
HOH
HOH
305
A
HOH
15
2
HOH
HOH
306
A
HOH
21
2
HOH
HOH
307
A
HOH
23
2
HOH
HOH
308
A
HOH
22
2
HOH
HOH
301
B
HOH
11
2
HOH
HOH
302
B
HOH
3
2
HOH
HOH
303
B
HOH
5
2
HOH
HOH
304
B
HOH
9
2
HOH
HOH
305
B
HOH
10
2
HOH
HOH
306
B
HOH
12
2
HOH
HOH
307
B
HOH
24
2
HOH
HOH
308
B
n
1
15
A
n
2
16
A
ALA
17
n
3
ALA
17
A
THR
18
n
4
THR
18
A
TYR
19
n
5
TYR
19
A
THR
20
n
6
THR
20
A
VAL
21
n
7
VAL
21
A
ALA
22
n
8
ALA
22
A
PRO
23
n
9
PRO
23
A
GLY
24
n
10
GLY
24
A
ASP
25
n
11
ASP
25
A
THR
26
n
12
THR
26
A
LEU
27
n
13
LEU
27
A
TYR
28
n
14
TYR
28
A
SER
29
n
15
SER
29
A
ILE
30
n
16
ILE
30
A
ALA
31
n
17
ALA
31
A
ARG
32
n
18
ARG
32
A
ARG
33
n
19
ARG
33
A
TYR
34
n
20
TYR
34
A
GLY
35
n
21
GLY
35
A
THR
36
n
22
THR
36
A
THR
37
n
23
THR
37
A
VAL
38
n
24
VAL
38
A
GLU
39
n
25
GLU
39
A
GLU
40
n
26
GLU
40
A
LEU
41
n
27
LEU
41
A
MSE
42
n
28
MSE
42
A
ARG
43
n
29
ARG
43
A
LEU
44
n
30
LEU
44
A
ASN
45
n
31
ASN
45
A
GLY
46
n
32
GLY
46
A
LEU
47
n
33
LEU
47
A
GLU
48
n
34
GLU
48
A
SER
49
n
35
SER
49
A
PHE
50
n
36
PHE
50
A
LEU
51
n
37
LEU
51
A
LEU
52
n
38
LEU
52
A
GLN
53
n
39
GLN
53
A
PRO
54
n
40
PRO
54
A
GLY
55
n
41
GLY
55
A
GLN
56
n
42
GLN
56
A
VAL
57
n
43
VAL
57
A
LEU
58
n
44
LEU
58
A
LYS
59
n
45
LYS
59
A
LEU
60
n
46
LEU
60
A
PRO
61
n
47
PRO
61
A
n
48
62
A
n
49
63
A
n
50
64
A
n
51
65
A
n
52
66
A
n
53
67
A
n
54
68
A
n
55
69
A
n
56
70
A
n
57
71
A
n
58
72
A
n
59
73
A
n
60
74
A
n
61
75
A
n
62
76
A
n
63
77
A
n
64
78
A
n
65
79
A
n
66
80
A
n
67
81
A
n
68
82
A
n
69
83
A
n
70
84
A
n
71
85
A
n
72
86
A
n
73
87
A
n
74
88
A
n
75
89
A
n
76
90
A
n
77
91
A
n
78
92
A
n
79
93
A
n
80
94
A
n
81
95
A
n
82
96
A
n
83
97
A
n
84
98
A
n
85
99
A
n
86
100
A
n
87
101
A
n
88
102
A
n
89
103
A
n
90
104
A
n
91
105
A
n
92
106
A
n
93
107
A
n
94
108
A
n
95
109
A
n
96
110
A
n
97
111
A
n
98
112
A
n
99
113
A
n
100
114
A
n
101
115
A
n
102
116
A
PRO
117
n
103
PRO
117
A
PRO
118
n
104
PRO
118
A
PRO
119
n
105
PRO
119
A
PRO
120
n
106
PRO
120
A
GLU
121
n
107
GLU
121
A
PRO
122
n
108
PRO
122
A
GLU
123
n
109
GLU
123
A
ALA
124
n
110
ALA
124
A
LEU
125
n
111
LEU
125
A
ASP
126
n
112
ASP
126
A
PRO
127
n
113
PRO
127
A
GLU
128
n
114
GLU
128
A
SER
129
n
115
SER
129
A
PRO
130
n
116
PRO
130
A
LEU
131
n
117
LEU
131
A
LEU
132
n
118
LEU
132
A
ARG
133
n
119
ARG
133
A
ALA
134
n
120
ALA
134
A
VAL
135
n
121
VAL
135
A
LEU
136
n
122
LEU
136
A
ARG
137
n
123
ARG
137
A
TYR
138
n
124
TYR
138
A
LEU
139
n
125
LEU
139
A
GLY
140
n
126
GLY
140
A
VAL
141
n
127
VAL
141
A
PRO
142
n
128
PRO
142
A
TYR
143
n
129
TYR
143
A
LYS
144
n
130
LYS
144
A
TYR
145
n
131
TYR
145
A
GLY
146
n
132
GLY
146
A
ALA
147
n
133
ALA
147
A
ASN
148
n
134
ASN
148
A
SER
149
n
135
SER
149
A
PRO
150
n
136
PRO
150
A
LEU
151
n
137
LEU
151
A
ALA
152
n
138
ALA
152
A
LEU
153
n
139
LEU
153
A
ASP
154
n
140
ASP
154
A
CYS
155
n
141
CYS
155
A
SER
156
n
142
SER
156
A
ALA
157
n
143
ALA
157
A
PHE
158
n
144
PHE
158
A
VAL
159
n
145
VAL
159
A
ALA
160
n
146
ALA
160
A
GLN
161
n
147
GLN
161
A
VAL
162
n
148
VAL
162
A
TYR
163
n
149
TYR
163
A
ALA
164
n
150
ALA
164
A
GLU
165
n
151
GLU
165
A
LEU
166
n
152
LEU
166
A
GLY
167
n
153
GLY
167
A
VAL
168
n
154
VAL
168
A
ALA
169
n
155
ALA
169
A
LEU
170
n
156
LEU
170
A
PRO
171
n
157
PRO
171
A
ARG
172
n
158
ARG
172
A
THR
173
n
159
THR
173
A
THR
174
n
160
THR
174
A
LYS
175
n
161
LYS
175
A
GLU
176
n
162
GLU
176
A
GLN
177
n
163
GLN
177
A
TYR
178
n
164
TYR
178
A
GLN
179
n
165
GLN
179
A
ALA
180
n
166
ALA
180
A
PHE
181
n
167
PHE
181
A
PRO
182
n
168
PRO
182
A
PRO
183
n
169
PRO
183
A
VAL
184
n
170
VAL
184
A
GLU
185
n
171
GLU
185
A
ALA
186
n
172
ALA
186
A
PRO
187
n
173
PRO
187
A
ARG
188
n
174
ARG
188
A
PRO
189
n
175
PRO
189
A
GLY
190
n
176
GLY
190
A
ASP
191
n
177
ASP
191
A
LEU
192
n
178
LEU
192
A
VAL
193
n
179
VAL
193
A
PHE
194
n
180
PHE
194
A
PHE
195
n
181
PHE
195
A
SER
196
n
182
SER
196
A
PHE
197
n
183
PHE
197
A
GLY
198
n
184
GLY
198
A
GLY
199
n
185
GLY
199
A
LYS
200
n
186
LYS
200
A
GLU
201
n
187
GLU
201
A
VAL
202
n
188
VAL
202
A
ASP
203
n
189
ASP
203
A
HIS
204
n
190
HIS
204
A
VAL
205
n
191
VAL
205
A
GLY
206
n
192
GLY
206
A
ILE
207
n
193
ILE
207
A
TYR
208
n
194
TYR
208
A
LEU
209
n
195
LEU
209
A
GLY
210
n
196
GLY
210
A
ARG
211
n
197
ARG
211
A
GLY
212
n
198
GLY
212
A
VAL
213
n
199
VAL
213
A
PHE
214
n
200
PHE
214
A
ALA
215
n
201
ALA
215
A
HIS
216
n
202
HIS
216
A
ALA
217
n
203
ALA
217
A
SER
218
n
204
SER
218
A
SER
219
n
205
SER
219
A
TYR
220
n
206
TYR
220
A
GLY
221
n
207
GLY
221
A
SER
222
n
208
SER
222
A
ARG
223
n
209
ARG
223
A
VAL
224
n
210
VAL
224
A
VAL
225
n
211
VAL
225
A
ILE
226
n
212
ILE
226
A
GLU
227
n
213
GLU
227
A
SER
228
n
214
SER
228
A
LEU
229
n
215
LEU
229
A
GLU
230
n
216
GLU
230
A
ALA
231
n
217
ALA
231
A
PRO
232
n
218
PRO
232
A
PHE
233
n
219
PHE
233
A
TYR
234
n
220
TYR
234
A
ARG
235
n
221
ARG
235
A
LYS
236
n
222
LYS
236
A
VAL
237
n
223
VAL
237
A
TYR
238
n
224
TYR
238
A
ARG
239
n
225
ARG
239
A
GLY
240
n
226
GLY
240
A
ALA
241
n
227
ALA
241
A
ARG
242
n
228
ARG
242
A
ARG
243
n
229
ARG
243
A
VAL
244
n
230
VAL
244
A
MSE
245
n
231
MSE
245
A
ALA
246
n
232
ALA
246
A
n
233
247
A
n
234
248
A
n
235
249
A
n
236
250
A
n
237
251
A
n
238
252
A
n
239
253
A
n
240
254
A
n
241
255
A
n
242
256
A
n
243
257
A
n
244
258
A
n
1
15
B
n
2
16
B
ALA
17
n
3
ALA
17
B
THR
18
n
4
THR
18
B
TYR
19
n
5
TYR
19
B
THR
20
n
6
THR
20
B
VAL
21
n
7
VAL
21
B
ALA
22
n
8
ALA
22
B
PRO
23
n
9
PRO
23
B
GLY
24
n
10
GLY
24
B
ASP
25
n
11
ASP
25
B
THR
26
n
12
THR
26
B
LEU
27
n
13
LEU
27
B
TYR
28
n
14
TYR
28
B
SER
29
n
15
SER
29
B
ILE
30
n
16
ILE
30
B
ALA
31
n
17
ALA
31
B
ARG
32
n
18
ARG
32
B
ARG
33
n
19
ARG
33
B
TYR
34
n
20
TYR
34
B
GLY
35
n
21
GLY
35
B
THR
36
n
22
THR
36
B
THR
37
n
23
THR
37
B
VAL
38
n
24
VAL
38
B
GLU
39
n
25
GLU
39
B
GLU
40
n
26
GLU
40
B
LEU
41
n
27
LEU
41
B
MSE
42
n
28
MSE
42
B
ARG
43
n
29
ARG
43
B
LEU
44
n
30
LEU
44
B
ASN
45
n
31
ASN
45
B
GLY
46
n
32
GLY
46
B
LEU
47
n
33
LEU
47
B
GLU
48
n
34
GLU
48
B
SER
49
n
35
SER
49
B
PHE
50
n
36
PHE
50
B
LEU
51
n
37
LEU
51
B
LEU
52
n
38
LEU
52
B
GLN
53
n
39
GLN
53
B
PRO
54
n
40
PRO
54
B
GLY
55
n
41
GLY
55
B
GLN
56
n
42
GLN
56
B
VAL
57
n
43
VAL
57
B
LEU
58
n
44
LEU
58
B
LYS
59
n
45
LYS
59
B
LEU
60
n
46
LEU
60
B
PRO
61
n
47
PRO
61
B
SER
62
n
48
SER
62
B
ARG
63
n
49
ARG
63
B
GLU
64
n
50
GLU
64
B
ARG
65
n
51
ARG
65
B
THR
66
n
52
THR
66
B
HIS
67
n
53
HIS
67
B
VAL
68
n
54
VAL
68
B
VAL
69
n
55
VAL
69
B
ALA
70
n
56
ALA
70
B
PRO
71
n
57
PRO
71
B
GLY
72
n
58
GLY
72
B
ASP
73
n
59
ASP
73
B
THR
74
n
60
THR
74
B
LEU
75
n
61
LEU
75
B
PHE
76
n
62
PHE
76
B
SER
77
n
63
SER
77
B
LEU
78
n
64
LEU
78
B
ALA
79
n
65
ALA
79
B
ARG
80
n
66
ARG
80
B
ARG
81
n
67
ARG
81
B
TYR
82
n
68
TYR
82
B
GLY
83
n
69
GLY
83
B
THR
84
n
70
THR
84
B
THR
85
n
71
THR
85
B
VAL
86
n
72
VAL
86
B
GLU
87
n
73
GLU
87
B
ALA
88
n
74
ALA
88
B
LEU
89
n
75
LEU
89
B
MSE
90
n
76
MSE
90
B
ARG
91
n
77
ARG
91
B
LEU
92
n
78
LEU
92
B
ASN
93
n
79
ASN
93
B
GLY
94
n
80
GLY
94
B
LEU
95
n
81
LEU
95
B
SER
96
n
82
SER
96
B
SER
97
n
83
SER
97
B
PRO
98
n
84
PRO
98
B
GLU
99
n
85
GLU
99
B
ILE
100
n
86
ILE
100
B
LYS
101
n
87
LYS
101
B
VAL
102
n
88
VAL
102
B
GLY
103
n
89
GLY
103
B
GLN
104
n
90
GLN
104
B
VAL
105
n
91
VAL
105
B
LEU
106
n
92
LEU
106
B
ARG
107
n
93
ARG
107
B
LEU
108
n
94
LEU
108
B
PRO
109
n
95
PRO
109
B
GLU
110
n
96
GLU
110
B
n
97
111
B
n
98
112
B
n
99
113
B
n
100
114
B
n
101
115
B
n
102
116
B
n
103
117
B
n
104
118
B
n
105
119
B
n
106
120
B
n
107
121
B
PRO
122
n
108
PRO
122
B
GLU
123
n
109
GLU
123
B
ALA
124
n
110
ALA
124
B
LEU
125
n
111
LEU
125
B
ASP
126
n
112
ASP
126
B
PRO
127
n
113
PRO
127
B
GLU
128
n
114
GLU
128
B
SER
129
n
115
SER
129
B
PRO
130
n
116
PRO
130
B
LEU
131
n
117
LEU
131
B
LEU
132
n
118
LEU
132
B
ARG
133
n
119
ARG
133
B
ALA
134
n
120
ALA
134
B
VAL
135
n
121
VAL
135
B
LEU
136
n
122
LEU
136
B
ARG
137
n
123
ARG
137
B
TYR
138
n
124
TYR
138
B
LEU
139
n
125
LEU
139
B
GLY
140
n
126
GLY
140
B
VAL
141
n
127
VAL
141
B
PRO
142
n
128
PRO
142
B
TYR
143
n
129
TYR
143
B
LYS
144
n
130
LYS
144
B
TYR
145
n
131
TYR
145
B
GLY
146
n
132
GLY
146
B
ALA
147
n
133
ALA
147
B
ASN
148
n
134
ASN
148
B
SER
149
n
135
SER
149
B
PRO
150
n
136
PRO
150
B
LEU
151
n
137
LEU
151
B
ALA
152
n
138
ALA
152
B
LEU
153
n
139
LEU
153
B
ASP
154
n
140
ASP
154
B
CYS
155
n
141
CYS
155
B
SER
156
n
142
SER
156
B
ALA
157
n
143
ALA
157
B
PHE
158
n
144
PHE
158
B
VAL
159
n
145
VAL
159
B
ALA
160
n
146
ALA
160
B
GLN
161
n
147
GLN
161
B
VAL
162
n
148
VAL
162
B
TYR
163
n
149
TYR
163
B
ALA
164
n
150
ALA
164
B
GLU
165
n
151
GLU
165
B
LEU
166
n
152
LEU
166
B
GLY
167
n
153
GLY
167
B
VAL
168
n
154
VAL
168
B
ALA
169
n
155
ALA
169
B
LEU
170
n
156
LEU
170
B
PRO
171
n
157
PRO
171
B
ARG
172
n
158
ARG
172
B
THR
173
n
159
THR
173
B
THR
174
n
160
THR
174
B
LYS
175
n
161
LYS
175
B
GLU
176
n
162
GLU
176
B
GLN
177
n
163
GLN
177
B
TYR
178
n
164
TYR
178
B
GLN
179
n
165
GLN
179
B
ALA
180
n
166
ALA
180
B
PHE
181
n
167
PHE
181
B
PRO
182
n
168
PRO
182
B
PRO
183
n
169
PRO
183
B
VAL
184
n
170
VAL
184
B
GLU
185
n
171
GLU
185
B
ALA
186
n
172
ALA
186
B
PRO
187
n
173
PRO
187
B
ARG
188
n
174
ARG
188
B
PRO
189
n
175
PRO
189
B
GLY
190
n
176
GLY
190
B
ASP
191
n
177
ASP
191
B
LEU
192
n
178
LEU
192
B
VAL
193
n
179
VAL
193
B
PHE
194
n
180
PHE
194
B
PHE
195
n
181
PHE
195
B
SER
196
n
182
SER
196
B
PHE
197
n
183
PHE
197
B
GLY
198
n
184
GLY
198
B
GLY
199
n
185
GLY
199
B
LYS
200
n
186
LYS
200
B
GLU
201
n
187
GLU
201
B
VAL
202
n
188
VAL
202
B
ASP
203
n
189
ASP
203
B
HIS
204
n
190
HIS
204
B
VAL
205
n
191
VAL
205
B
GLY
206
n
192
GLY
206
B
ILE
207
n
193
ILE
207
B
TYR
208
n
194
TYR
208
B
LEU
209
n
195
LEU
209
B
GLY
210
n
196
GLY
210
B
ARG
211
n
197
ARG
211
B
GLY
212
n
198
GLY
212
B
VAL
213
n
199
VAL
213
B
PHE
214
n
200
PHE
214
B
ALA
215
n
201
ALA
215
B
HIS
216
n
202
HIS
216
B
ALA
217
n
203
ALA
217
B
SER
218
n
204
SER
218
B
SER
219
n
205
SER
219
B
TYR
220
n
206
TYR
220
B
GLY
221
n
207
GLY
221
B
SER
222
n
208
SER
222
B
ARG
223
n
209
ARG
223
B
VAL
224
n
210
VAL
224
B
VAL
225
n
211
VAL
225
B
ILE
226
n
212
ILE
226
B
GLU
227
n
213
GLU
227
B
SER
228
n
214
SER
228
B
LEU
229
n
215
LEU
229
B
GLU
230
n
216
GLU
230
B
ALA
231
n
217
ALA
231
B
PRO
232
n
218
PRO
232
B
PHE
233
n
219
PHE
233
B
TYR
234
n
220
TYR
234
B
ARG
235
n
221
ARG
235
B
LYS
236
n
222
LYS
236
B
VAL
237
n
223
VAL
237
B
TYR
238
n
224
TYR
238
B
ARG
239
n
225
ARG
239
B
GLY
240
n
226
GLY
240
B
ALA
241
n
227
ALA
241
B
ARG
242
n
228
ARG
242
B
ARG
243
n
229
ARG
243
B
VAL
244
n
230
VAL
244
B
MSE
245
n
231
MSE
245
B
n
232
246
B
n
233
247
B
n
234
248
B
n
235
249
B
n
236
250
B
n
237
251
B
n
238
252
B
n
239
253
B
n
240
254
B
n
241
255
B
n
242
256
B
n
243
257
B
n
244
258
B
3.4154
3.4156
5.0244
9.1943
5.4354
10.1269
0.8270
0.0872
-1.2441
1.1720
-0.1427
-0.4224
1.4915
-0.3203
-0.6334
0.8095
-0.2029
-0.0869
0.7224
-0.1181
0.7158
refined
-51.0697
-17.6172
-4.5884
X-RAY DIFFRACTION
0.7720
2.7042
0.7390
7.2370
0.0995
4.8408
-1.0991
1.3664
0.8295
-0.6138
0.6009
0.6116
-0.6939
0.3590
0.2186
1.1366
-0.2299
-0.2660
0.8596
0.0128
0.9546
refined
-47.6647
-2.8125
-8.5911
X-RAY DIFFRACTION
8.0482
3.9166
-0.7654
10.7082
-1.1668
5.5867
-0.0046
0.2940
0.5765
-0.0072
-0.1090
-0.0167
-0.3517
0.2263
0.0383
0.6009
-0.0814
0.0516
0.4251
0.0953
0.4631
refined
-35.5846
14.2311
3.2161
X-RAY DIFFRACTION
4.9333
-1.9155
-2.1395
4.6588
-0.1252
1.3345
-0.1898
0.3145
-0.7377
-0.2508
-0.1363
-2.3940
-0.0856
1.0530
0.2876
0.6270
-0.1705
0.1086
1.0828
0.1480
1.5946
refined
-14.1845
18.0453
-1.8182
X-RAY DIFFRACTION
4.5854
-1.4484
-2.1059
4.8550
-3.6243
10.0344
-0.0396
0.5350
0.0040
-0.6242
0.2035
0.0322
0.9254
0.0486
-0.0571
1.4020
0.2488
-0.1921
1.7125
-0.1293
1.1330
refined
14.5080
21.8545
10.5412
X-RAY DIFFRACTION
8.8556
7.1712
1.2717
4.6022
1.3150
-0.3237
-1.5116
1.7405
-0.5566
-0.9224
1.6769
-0.5235
-0.8356
0.3890
-0.1236
1.3618
0.0563
-0.0831
1.2877
-0.1213
1.1991
refined
-9.1836
9.4728
4.6206
X-RAY DIFFRACTION
7.9249
3.7646
5.1831
6.1523
1.7037
8.7367
0.6484
-0.1666
-1.0364
0.6568
-0.0824
-0.2487
1.8208
-0.1014
-0.4841
1.0215
-0.0175
-0.0477
0.3704
-0.0140
0.4562
refined
-39.1509
-10.4327
9.2544
X-RAY DIFFRACTION
8.7872
-3.8872
-0.3411
6.5514
0.0120
3.1607
0.4896
-0.1547
-0.4799
0.8819
-0.2168
-0.5740
0.8790
0.2116
-0.1527
1.0829
0.0553
-0.2093
0.5153
0.0236
0.4821
refined
-32.6277
-6.5517
18.3077
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
chain 'A' and (resid 17 through 59 )
X-RAY DIFFRACTION
2
chain 'A' and (resid 60 through 129 )
X-RAY DIFFRACTION
3
chain 'A' and (resid 130 through 246 )
X-RAY DIFFRACTION
4
chain 'B' and (resid 17 through 64 )
X-RAY DIFFRACTION
5
chain 'B' and (resid 65 through 104 )
X-RAY DIFFRACTION
6
chain 'B' and (resid 105 through 129 )
X-RAY DIFFRACTION
7
chain 'B' and (resid 130 through 228 )
X-RAY DIFFRACTION
8
chain 'B' and (resid 229 through 245 )
software_defined_assembly
PISA
2
dimeric
4320
-29
19090
A
MSE
42
modified residue
A
MSE
28
MET
A
MSE
245
modified residue
A
MSE
231
MET
B
MSE
42
modified residue
B
MSE
28
MET
B
MSE
90
modified residue
B
MSE
76
MET
B
MSE
245
modified residue
B
MSE
231
MET
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
TYR
19
A
N
TYR
5
A
O
LEU
58
A
O
LEU
44
A
O
GLU
227
A
O
GLU
213
A
N
PHE
214
A
N
PHE
200
A
O
VAL
213
A
O
VAL
199
A
N
LEU
209
A
N
LEU
195
A
O
HIS
204
A
O
HIS
190
A
N
PHE
195
A
N
PHE
181
A
N
LEU
192
A
N
LEU
178
A
O
ARG
242
A
O
ARG
228
B
N
TYR
19
B
N
TYR
5
B
O
LEU
58
B
O
LEU
44
B
N
HIS
67
B
N
HIS
53
B
O
LEU
106
B
O
LEU
92
B
N
VAL
184
B
N
VAL
170
B
O
ALA
241
B
O
ALA
227
B
O
GLY
240
B
O
GLY
226
B
N
PHE
194
B
N
PHE
180
B
N
VAL
193
B
N
VAL
179
B
O
GLY
206
B
O
GLY
192
B
N
ILE
207
B
N
ILE
193
B
O
ALA
215
B
O
ALA
201
B
N
PHE
214
B
N
PHE
200
B
O
GLU
227
B
O
GLU
213
1
A
ALA
15
A
ALA
1
1
Y
1
A
GLN
16
A
GLN
2
1
Y
1
A
SER
62
A
SER
48
1
Y
1
A
ARG
63
A
ARG
49
1
Y
1
A
GLU
64
A
GLU
50
1
Y
1
A
ARG
65
A
ARG
51
1
Y
1
A
THR
66
A
THR
52
1
Y
1
A
HIS
67
A
HIS
53
1
Y
1
A
VAL
68
A
VAL
54
1
Y
1
A
VAL
69
A
VAL
55
1
Y
1
A
ALA
70
A
ALA
56
1
Y
1
A
PRO
71
A
PRO
57
1
Y
1
A
GLY
72
A
GLY
58
1
Y
1
A
ASP
73
A
ASP
59
1
Y
1
A
THR
74
A
THR
60
1
Y
1
A
LEU
75
A
LEU
61
1
Y
1
A
PHE
76
A
PHE
62
1
Y
1
A
SER
77
A
SER
63
1
Y
1
A
LEU
78
A
LEU
64
1
Y
1
A
ALA
79
A
ALA
65
1
Y
1
A
ARG
80
A
ARG
66
1
Y
1
A
ARG
81
A
ARG
67
1
Y
1
A
TYR
82
A
TYR
68
1
Y
1
A
GLY
83
A
GLY
69
1
Y
1
A
THR
84
A
THR
70
1
Y
1
A
THR
85
A
THR
71
1
Y
1
A
VAL
86
A
VAL
72
1
Y
1
A
GLU
87
A
GLU
73
1
Y
1
A
ALA
88
A
ALA
74
1
Y
1
A
LEU
89
A
LEU
75
1
Y
1
A
MSE
90
A
MSE
76
1
Y
1
A
ARG
91
A
ARG
77
1
Y
1
A
LEU
92
A
LEU
78
1
Y
1
A
ASN
93
A
ASN
79
1
Y
1
A
GLY
94
A
GLY
80
1
Y
1
A
LEU
95
A
LEU
81
1
Y
1
A
SER
96
A
SER
82
1
Y
1
A
SER
97
A
SER
83
1
Y
1
A
PRO
98
A
PRO
84
1
Y
1
A
GLU
99
A
GLU
85
1
Y
1
A
ILE
100
A
ILE
86
1
Y
1
A
LYS
101
A
LYS
87
1
Y
1
A
VAL
102
A
VAL
88
1
Y
1
A
GLY
103
A
GLY
89
1
Y
1
A
GLN
104
A
GLN
90
1
Y
1
A
VAL
105
A
VAL
91
1
Y
1
A
LEU
106
A
LEU
92
1
Y
1
A
ARG
107
A
ARG
93
1
Y
1
A
LEU
108
A
LEU
94
1
Y
1
A
PRO
109
A
PRO
95
1
Y
1
A
GLU
110
A
GLU
96
1
Y
1
A
GLU
111
A
GLU
97
1
Y
1
A
GLY
112
A
GLY
98
1
Y
1
A
GLU
113
A
GLU
99
1
Y
1
A
ALA
114
A
ALA
100
1
Y
1
A
PRO
115
A
PRO
101
1
Y
1
A
PRO
116
A
PRO
102
1
Y
1
A
SER
247
A
SER
233
1
Y
1
A
PRO
248
A
PRO
234
1
Y
1
A
GLU
249
A
GLU
235
1
Y
1
A
PRO
250
A
PRO
236
1
Y
1
A
PRO
251
A
PRO
237
1
Y
1
A
PRO
252
A
PRO
238
1
Y
1
A
ALA
253
A
ALA
239
1
Y
1
A
PRO
254
A
PRO
240
1
Y
1
A
SER
255
A
SER
241
1
Y
1
A
ALA
256
A
ALA
242
1
Y
1
A
THR
257
A
THR
243
1
Y
1
A
PRO
258
A
PRO
244
1
Y
1
B
ALA
15
B
ALA
1
1
Y
1
B
GLN
16
B
GLN
2
1
Y
1
B
GLU
111
B
GLU
97
1
Y
1
B
GLY
112
B
GLY
98
1
Y
1
B
GLU
113
B
GLU
99
1
Y
1
B
ALA
114
B
ALA
100
1
Y
1
B
PRO
115
B
PRO
101
1
Y
1
B
PRO
116
B
PRO
102
1
Y
1
B
PRO
117
B
PRO
103
1
Y
1
B
PRO
118
B
PRO
104
1
Y
1
B
PRO
119
B
PRO
105
1
Y
1
B
PRO
120
B
PRO
106
1
Y
1
B
GLU
121
B
GLU
107
1
Y
1
B
ALA
246
B
ALA
232
1
Y
1
B
SER
247
B
SER
233
1
Y
1
B
PRO
248
B
PRO
234
1
Y
1
B
GLU
249
B
GLU
235
1
Y
1
B
PRO
250
B
PRO
236
1
Y
1
B
PRO
251
B
PRO
237
1
Y
1
B
PRO
252
B
PRO
238
1
Y
1
B
ALA
253
B
ALA
239
1
Y
1
B
PRO
254
B
PRO
240
1
Y
1
B
SER
255
B
SER
241
1
Y
1
B
ALA
256
B
ALA
242
1
Y
1
B
THR
257
B
THR
243
1
Y
1
B
PRO
258
B
PRO
244
1
Y
1
A
A
OH
O
TYR
GLY
163
190
2.04
1
B
B
OH
OD2
TYR
ASP
19
25
2.15
1
B
B
OH
O
TYR
GLY
163
190
2.17
1
B
B
NH1
OE1
ARG
GLU
137
165
2.19
1
A
THR
36
-128.93
-163.42
1
A
PRO
127
-48.70
-14.23
1
B
GLU
123
-127.56
-159.31
1
B
ALA
124
-158.22
-68.09
1
B
ASP
203
-141.53
22.31
1
B
SER
222
59.97
11.65
0.2383
0.1941
0.1986
2.650
29.584
3316
32875
10.09
99.87
0.32
1
FREE R-VALUE
1.39
SAD
27.73
0.90
1.11
ML
FLAT BULK SOLVENT MODEL
2.650
29.584
16
3072
0
0
3056
0.003
3134
0.706
4262
13.630
1169
0.044
470
0.004
555
0.3269
0.3050
2.6880
136
1252
100.00
2.7281
126
1191
100.00
0.3351
0.2634
2.7707
146
1230
100.00
0.3443
0.2592
2.8160
140
1252
100.00
0.3563
0.2727
2.8646
140
1289
100.00
0.3305
0.2792
2.9166
122
1185
100.00
0.3782
0.2543
2.9727
148
1234
100.00
0.2954
0.2476
3.0333
144
1209
100.00
0.3149
0.2482
3.0992
133
1271
100.00
0.3557
0.2338
3.1712
140
1196
100.00
0.2990
0.2303
3.2504
144
1281
100.00
0.2942
0.2360
3.3382
128
1185
100.00
0.2511
0.2081
3.4362
142
1254
100.00
0.3039
0.2195
3.5470
134
1221
100.00
0.2714
0.1996
3.6735
138
1197
100.00
0.2672
0.1980
3.8203
152
1274
100.00
0.2115
0.1883
3.9938
140
1230
100.00
0.2394
0.1716
4.2038
136
1248
100.00
0.1849
0.1649
4.4663
140
1225
100.00
0.1691
0.1392
4.8098
138
1229
100.00
0.1897
0.1451
5.2914
141
1217
100.00
0.1834
0.1828
6.0514
128
1234
100.00
0.2230
0.1824
7.6026
132
1247
100.00
0.1932
0.1747
29.5858
148
1208
99.00
2.6
30
4XCM
34882
34817
0.06
1
15.3
5.9
99.8
0.75
2.6
2.65
2.1
1
5.9
99.8
refinement
PHENIX
(phenix.refine: 1.8_1069)
data reduction
XDS
data scaling
XSCALE
phasing
PHENIX
P60
Crystal structure of the putative NlpC/P60 D,L endopeptidase from T. thermophilus
1
N
N
1
N
N
2
N
N
2
N
N
A
THR
26
A
THR
12
HELX_P
A
TYR
34
A
TYR
20
1
AA1
9
A
THR
37
A
THR
23
HELX_P
A
GLY
46
A
GLY
32
1
AA2
10
A
SER
129
A
SER
115
HELX_P
A
LEU
139
A
LEU
125
1
AA3
11
A
PRO
150
A
PRO
136
HELX_P
A
GLU
165
A
GLU
151
1
AA4
16
A
THR
173
A
THR
159
HELX_P
A
PHE
181
A
PHE
167
1
AA5
9
A
ALA
231
A
ALA
217
HELX_P
A
VAL
237
A
VAL
223
1
AA6
7
B
THR
26
B
THR
12
HELX_P
B
TYR
34
B
TYR
20
1
AA7
9
B
THR
37
B
THR
23
HELX_P
B
GLY
46
B
GLY
32
1
AA8
10
B
THR
74
B
THR
60
HELX_P
B
GLY
83
B
GLY
69
1
AA9
10
B
GLU
87
B
GLU
73
HELX_P
B
LEU
92
B
LEU
78
1
AB1
6
B
SER
129
B
SER
115
HELX_P
B
ARG
137
B
ARG
123
1
AB2
9
B
PRO
150
B
PRO
136
HELX_P
B
GLU
165
B
GLU
151
1
AB3
16
B
THR
173
B
THR
159
HELX_P
B
GLN
179
B
GLN
165
1
AB4
7
B
ALA
231
B
ALA
217
HELX_P
B
VAL
237
B
VAL
223
1
AB5
7
covale
1.330
both
A
LEU
41
A
C
LEU
27
1_555
A
MSE
42
A
N
MSE
28
1_555
covale
1.330
both
A
MSE
42
A
C
MSE
28
1_555
A
ARG
43
A
N
ARG
29
1_555
covale
1.331
both
A
VAL
244
A
C
VAL
230
1_555
A
MSE
245
A
N
MSE
231
1_555
covale
1.331
both
A
MSE
245
A
C
MSE
231
1_555
A
ALA
246
A
N
ALA
232
1_555
covale
1.330
both
B
LEU
41
B
C
LEU
27
1_555
B
MSE
42
B
N
MSE
28
1_555
covale
1.330
both
B
MSE
42
B
C
MSE
28
1_555
B
ARG
43
B
N
ARG
29
1_555
covale
1.328
both
B
LEU
89
B
C
LEU
75
1_555
B
MSE
90
B
N
MSE
76
1_555
covale
1.331
both
B
MSE
90
B
C
MSE
76
1_555
B
ARG
91
B
N
ARG
77
1_555
covale
1.329
both
B
VAL
244
B
C
VAL
230
1_555
B
MSE
245
B
N
MSE
231
1_555
HYDROLASE
NlpC/P60, D, L-endopeptidase, LysM domain, hydrolase
Q5SLM7_THET8
UNP
1
15
Q5SLM7
AQATYTVAPGDTLYSIARRYGTTVEELMRLNGLESFLLQPGQVLKLPSRERTHVVAPGDTLFSLARRYGTTVEALMRLNG
LSSPEIKVGQVLRLPEEGEAPPPPPPEPEALDPESPLLRAVLRYLGVPYKYGANSPLALDCSAFVAQVYAELGVALPRTT
KEQYQAFPPVEAPRPGDLVFFSFGGKEVDHVGIYLGRGVFAHASSYGSRVVIESLEAPFYRKVYRGARRVMASPEPPPAP
SATP
15
258
4XCM
15
258
Q5SLM7
A
1
1
244
15
258
4XCM
15
258
Q5SLM7
B
1
1
244
2
5
2
2
6
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
THR
18
A
THR
4
A
THR
20
A
THR
6
A
VAL
57
A
VAL
43
A
LYS
59
A
LYS
45
A
VAL
224
A
VAL
210
A
SER
228
A
SER
214
A
VAL
213
A
VAL
199
A
ALA
217
A
ALA
203
A
HIS
204
A
HIS
190
A
GLY
210
A
GLY
196
A
LEU
192
A
LEU
178
A
PHE
195
A
PHE
181
A
TYR
238
A
TYR
224
A
ARG
242
A
ARG
228
B
THR
18
B
THR
4
B
THR
20
B
THR
6
B
VAL
57
B
VAL
43
B
LYS
59
B
LYS
45
B
ARG
65
B
ARG
51
B
VAL
68
B
VAL
54
B
VAL
105
B
VAL
91
B
LEU
108
B
LEU
94
B
PRO
183
B
PRO
169
B
VAL
184
B
VAL
170
B
TYR
238
B
TYR
224
B
ARG
242
B
ARG
228
B
LEU
192
B
LEU
178
B
PHE
195
B
PHE
181
B
HIS
204
B
HIS
190
B
GLY
210
B
GLY
196
B
VAL
213
B
VAL
199
B
ALA
217
B
ALA
203
B
VAL
224
B
VAL
210
B
SER
228
B
SER
214
169
P 61