0.014155
0.008172
0.000000
0.000000
0.016345
0.000000
0.000000
0.000000
0.008330
0.000000
0.000000
0.000000
Sohn, J.
Grant, R.A.
Sauer, R.T.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
9
90.000
90.000
120.000
70.647
70.647
120.054
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
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 S
149.211
y
METHIONINE
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
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
N
N
75
S
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
C
N
80
N
C
N
81
N
O
N
82
N
N
N
83
N
O
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
N
N
95
S
C
N
96
N
C
N
97
N
O
N
98
N
C
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
N
N
114
N
C
N
115
N
C
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
N
N
124
S
C
N
125
N
C
N
126
N
O
N
127
N
C
Y
128
N
C
Y
129
N
N
Y
130
N
C
Y
131
N
C
Y
132
N
N
N
133
N
O
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
O
N
145
N
H
N
146
N
H
N
147
N
N
N
148
S
C
N
149
N
C
N
150
N
O
N
151
S
C
N
152
N
C
N
153
N
C
N
154
N
C
N
155
N
O
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
N
N
170
S
C
N
171
N
C
N
172
N
O
N
173
N
C
N
174
N
C
N
175
N
C
N
176
N
C
N
177
N
O
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
N
N
192
S
C
N
193
N
C
N
194
N
O
N
195
N
C
N
196
N
C
N
197
N
C
N
198
N
C
N
199
N
N
N
200
N
O
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
N
N
217
S
C
N
218
N
C
N
219
N
O
N
220
N
C
N
221
N
C
N
222
N
S
N
223
N
C
N
224
N
O
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
N
N
237
S
C
N
238
N
C
N
239
N
O
N
240
N
C
Y
241
N
C
Y
242
N
C
Y
243
N
C
Y
244
N
C
Y
245
N
C
Y
246
N
C
N
247
N
O
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
N
N
260
S
C
N
261
N
C
N
262
N
O
N
263
N
C
N
264
N
C
N
265
N
C
N
266
N
O
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
N
N
277
S
C
N
278
N
C
N
279
N
O
N
280
N
C
N
281
N
O
N
282
N
O
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
N
N
291
S
C
N
292
N
C
N
293
N
O
N
294
R
C
N
295
N
O
N
296
N
C
N
297
N
O
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
H
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
N
N
308
S
C
N
309
N
C
N
310
N
O
N
311
N
C
Y
312
N
C
Y
313
N
C
Y
314
N
C
Y
315
N
C
Y
316
N
C
Y
317
N
C
N
318
N
O
N
319
N
O
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
N
N
332
S
C
N
333
N
C
N
334
N
O
N
335
N
C
N
336
N
C
N
337
N
C
N
338
N
O
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
doub
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
doub
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
Y
127
N
sing
Y
128
N
doub
Y
129
N
doub
N
130
N
sing
Y
131
N
sing
N
132
N
sing
Y
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
doub
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
doub
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
doub
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
Y
235
N
doub
Y
236
N
sing
Y
237
N
sing
N
238
N
sing
Y
239
N
doub
N
240
N
sing
Y
241
N
doub
N
242
N
sing
Y
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
doub
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
doub
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
doub
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
doub
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
Y
304
N
doub
Y
305
N
sing
Y
306
N
sing
N
307
N
sing
Y
308
N
doub
N
309
N
sing
Y
310
N
doub
N
311
N
sing
Y
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
doub
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
285
34039
34047
10.1074/jbc.M110.135541
20739286
Allostery is an intrinsic property of the protease domain of DegS: implications for enzyme function and evolution.
2010
10.2210/pdb3lgt/pdb
pdb_00003lgt
100
1
Varimax-HR
IMAGE PLATE
2009-04-10
RIGAKU RAXIS IV
Varimax-HF
SINGLE WAVELENGTH
M
x-ray
1
1.5416
1.0
1.5416
ROTATING ANODE
RIGAKU MICROMAX-007 HF
25757.049
Protease degS
3.4.21.-
protease domain
Y162A, H198P
1
man
polymer
18.015
water
10
nat
water
no
no
MRGSHHHHHHGRSLNPLSTPQFDSTDETPASYNLAVRRAAPAVVNVYNRGLNTNSHNQLEIRTLGSGVIMDQRGYIITNK
HVINDADQIIVALQDGRVFEALLVGSDSLTDLAVLKINATGGLPTIPINARRVPHIGDVVLAIGNPANLGQTITQGIISA
TGRIGLNPTGRQNFLQTDASINPGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPFQLATKIMDKLIRDGRVI
R
MRGSHHHHHHGRSLNPLSTPQFDSTDETPASYNLAVRRAAPAVVNVYNRGLNTNSHNQLEIRTLGSGVIMDQRGYIITNK
HVINDADQIIVALQDGRVFEALLVGSDSLTDLAVLKINATGGLPTIPINARRVPHIGDVVLAIGNPANLGQTITQGIISA
TGRIGLNPTGRQNFLQTDASINPGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPFQLATKIMDKLIRDGRVI
R
A
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
K12
sample
b3235, degS, hhoB, htrH, JW3204
83333
Escherichia coli
562
Escherichia coli
X90(DE3)
plasmid
pET21b
1
2.24
45.05
VAPOR DIFFUSION, SITTING DROP
6.5
50 mM Sodium Cacodylate, 50-125 mM Sodium Citrate, 10-20% isopropanol, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 300K
300
software
audit_author
database_2
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Refinement description
Structure summary
Database references
Data collection
1
0
2010-08-25
1
1
2011-07-13
1
2
2017-11-01
1
3
2018-01-24
1
4
2021-10-13
1
5
2024-02-21
_audit_author.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
high resolution wild type structure of same domain
RCSB
Y
RCSB
2010-01-21
REL
REL
HOH
water
HOH
1
2
HOH
HOH
1
A
HOH
2
2
HOH
HOH
2
A
HOH
3
2
HOH
HOH
3
A
HOH
4
2
HOH
HOH
4
A
HOH
5
2
HOH
HOH
5
A
HOH
6
2
HOH
HOH
6
A
HOH
7
2
HOH
HOH
7
A
HOH
8
2
HOH
HOH
8
A
HOH
9
2
HOH
HOH
9
A
HOH
10
2
HOH
HOH
10
A
n
1
16
A
n
2
17
A
n
3
18
A
n
4
19
A
n
5
20
A
n
6
21
A
n
7
22
A
n
8
23
A
n
9
24
A
n
10
25
A
n
11
26
A
n
12
27
A
n
13
28
A
n
14
29
A
n
15
30
A
n
16
31
A
n
17
32
A
n
18
33
A
n
19
34
A
n
20
35
A
n
21
36
A
n
22
37
A
n
23
38
A
SER
39
n
24
SER
39
A
THR
40
n
25
THR
40
A
ASP
41
n
26
ASP
41
A
GLU
42
n
27
GLU
42
A
THR
43
n
28
THR
43
A
PRO
44
n
29
PRO
44
A
ALA
45
n
30
ALA
45
A
SER
46
n
31
SER
46
A
TYR
47
n
32
TYR
47
A
ASN
48
n
33
ASN
48
A
LEU
49
n
34
LEU
49
A
ALA
50
n
35
ALA
50
A
VAL
51
n
36
VAL
51
A
ARG
52
n
37
ARG
52
A
ARG
53
n
38
ARG
53
A
ALA
54
n
39
ALA
54
A
ALA
55
n
40
ALA
55
A
PRO
56
n
41
PRO
56
A
ALA
57
n
42
ALA
57
A
VAL
58
n
43
VAL
58
A
VAL
59
n
44
VAL
59
A
ASN
60
n
45
ASN
60
A
VAL
61
n
46
VAL
61
A
TYR
62
n
47
TYR
62
A
ASN
63
n
48
ASN
63
A
ARG
64
n
49
ARG
64
A
n
50
65
A
n
51
66
A
n
52
67
A
n
53
68
A
n
54
69
A
n
55
70
A
n
56
71
A
n
57
72
A
n
58
73
A
n
59
74
A
n
60
75
A
ILE
76
n
61
ILE
76
A
ARG
77
n
62
ARG
77
A
THR
78
n
63
THR
78
A
LEU
79
n
64
LEU
79
A
GLY
80
n
65
GLY
80
A
SER
81
n
66
SER
81
A
GLY
82
n
67
GLY
82
A
VAL
83
n
68
VAL
83
A
ILE
84
n
69
ILE
84
A
MET
85
n
70
MET
85
A
ASP
86
n
71
ASP
86
A
GLN
87
n
72
GLN
87
A
ARG
88
n
73
ARG
88
A
GLY
89
n
74
GLY
89
A
TYR
90
n
75
TYR
90
A
ILE
91
n
76
ILE
91
A
ILE
92
n
77
ILE
92
A
THR
93
n
78
THR
93
A
ASN
94
n
79
ASN
94
A
LYS
95
n
80
LYS
95
A
HIS
96
n
81
HIS
96
A
VAL
97
n
82
VAL
97
A
ILE
98
n
83
ILE
98
A
ASN
99
n
84
ASN
99
A
ASP
100
n
85
ASP
100
A
ALA
101
n
86
ALA
101
A
ASP
102
n
87
ASP
102
A
GLN
103
n
88
GLN
103
A
ILE
104
n
89
ILE
104
A
ILE
105
n
90
ILE
105
A
VAL
106
n
91
VAL
106
A
ALA
107
n
92
ALA
107
A
LEU
108
n
93
LEU
108
A
GLN
109
n
94
GLN
109
A
ASP
110
n
95
ASP
110
A
GLY
111
n
96
GLY
111
A
ARG
112
n
97
ARG
112
A
VAL
113
n
98
VAL
113
A
PHE
114
n
99
PHE
114
A
GLU
115
n
100
GLU
115
A
ALA
116
n
101
ALA
116
A
LEU
117
n
102
LEU
117
A
LEU
118
n
103
LEU
118
A
VAL
119
n
104
VAL
119
A
GLY
120
n
105
GLY
120
A
SER
121
n
106
SER
121
A
ASP
122
n
107
ASP
122
A
SER
123
n
108
SER
123
A
LEU
124
n
109
LEU
124
A
THR
125
n
110
THR
125
A
ASP
126
n
111
ASP
126
A
LEU
127
n
112
LEU
127
A
ALA
128
n
113
ALA
128
A
VAL
129
n
114
VAL
129
A
LEU
130
n
115
LEU
130
A
LYS
131
n
116
LYS
131
A
ILE
132
n
117
ILE
132
A
ASN
133
n
118
ASN
133
A
ALA
134
n
119
ALA
134
A
THR
135
n
120
THR
135
A
GLY
136
n
121
GLY
136
A
GLY
137
n
122
GLY
137
A
LEU
138
n
123
LEU
138
A
PRO
139
n
124
PRO
139
A
THR
140
n
125
THR
140
A
ILE
141
n
126
ILE
141
A
PRO
142
n
127
PRO
142
A
ILE
143
n
128
ILE
143
A
ASN
144
n
129
ASN
144
A
ALA
145
n
130
ALA
145
A
ARG
146
n
131
ARG
146
A
ARG
147
n
132
ARG
147
A
VAL
148
n
133
VAL
148
A
PRO
149
n
134
PRO
149
A
HIS
150
n
135
HIS
150
A
ILE
151
n
136
ILE
151
A
GLY
152
n
137
GLY
152
A
ASP
153
n
138
ASP
153
A
VAL
154
n
139
VAL
154
A
VAL
155
n
140
VAL
155
A
LEU
156
n
141
LEU
156
A
ALA
157
n
142
ALA
157
A
ILE
158
n
143
ILE
158
A
GLY
159
n
144
GLY
159
A
ASN
160
n
145
ASN
160
A
PRO
161
n
146
PRO
161
A
ALA
162
n
147
ALA
162
A
n
148
163
A
n
149
164
A
GLY
165
n
150
GLY
165
A
GLN
166
n
151
GLN
166
A
THR
167
n
152
THR
167
A
ILE
168
n
153
ILE
168
A
THR
169
n
154
THR
169
A
GLN
170
n
155
GLN
170
A
GLY
171
n
156
GLY
171
A
ILE
172
n
157
ILE
172
A
ILE
173
n
158
ILE
173
A
SER
174
n
159
SER
174
A
ALA
175
n
160
ALA
175
A
THR
176
n
161
THR
176
A
GLY
177
n
162
GLY
177
A
n
163
178
A
n
164
179
A
n
165
180
A
n
166
181
A
n
167
182
A
n
168
183
A
n
169
184
A
n
170
185
A
n
171
186
A
n
172
187
A
ASN
188
n
173
ASN
188
A
PHE
189
n
174
PHE
189
A
LEU
190
n
175
LEU
190
A
GLN
191
n
176
GLN
191
A
THR
192
n
177
THR
192
A
ASP
193
n
178
ASP
193
A
ALA
194
n
179
ALA
194
A
SER
195
n
180
SER
195
A
ILE
196
n
181
ILE
196
A
ASN
197
n
182
ASN
197
A
PRO
198
n
183
PRO
198
A
GLY
199
n
184
GLY
199
A
ASN
200
n
185
ASN
200
A
SER
201
n
186
SER
201
A
GLY
202
n
187
GLY
202
A
GLY
203
n
188
GLY
203
A
ALA
204
n
189
ALA
204
A
LEU
205
n
190
LEU
205
A
VAL
206
n
191
VAL
206
A
ASN
207
n
192
ASN
207
A
SER
208
n
193
SER
208
A
LEU
209
n
194
LEU
209
A
GLY
210
n
195
GLY
210
A
GLU
211
n
196
GLU
211
A
LEU
212
n
197
LEU
212
A
MET
213
n
198
MET
213
A
GLY
214
n
199
GLY
214
A
ILE
215
n
200
ILE
215
A
ASN
216
n
201
ASN
216
A
THR
217
n
202
THR
217
A
LEU
218
n
203
LEU
218
A
SER
219
n
204
SER
219
A
n
205
220
A
n
206
221
A
n
207
222
A
n
208
223
A
n
209
224
A
n
210
225
A
n
211
226
A
n
212
227
A
n
213
228
A
n
214
229
A
n
215
230
A
GLY
231
n
216
GLY
231
A
ILE
232
n
217
ILE
232
A
GLY
233
n
218
GLY
233
A
PHE
234
n
219
PHE
234
A
ALA
235
n
220
ALA
235
A
ILE
236
n
221
ILE
236
A
PRO
237
n
222
PRO
237
A
PHE
238
n
223
PHE
238
A
GLN
239
n
224
GLN
239
A
LEU
240
n
225
LEU
240
A
ALA
241
n
226
ALA
241
A
THR
242
n
227
THR
242
A
LYS
243
n
228
LYS
243
A
ILE
244
n
229
ILE
244
A
MET
245
n
230
MET
245
A
ASP
246
n
231
ASP
246
A
LYS
247
n
232
LYS
247
A
LEU
248
n
233
LEU
248
A
ILE
249
n
234
ILE
249
A
ARG
250
n
235
ARG
250
A
ASP
251
n
236
ASP
251
A
GLY
252
n
237
GLY
252
A
ARG
253
n
238
ARG
253
A
n
239
254
A
n
240
255
A
n
241
256
A
author_defined_assembly
3
trimeric
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
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_665
-y+1,x-y+1,z
crystal symmetry operation
35.3235000000
61.1820967012
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
-0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_565
-x+y,-x+1,z
crystal symmetry operation
-35.3235000000
61.1820967012
0.0000000000
A
N
ASN
63
A
N
ASN
48
A
O
ARG
77
A
O
ARG
62
A
N
VAL
83
A
N
VAL
68
A
O
ILE
92
A
O
ILE
77
A
N
ILE
91
A
N
ILE
76
A
O
LEU
130
A
O
LEU
115
A
O
VAL
129
A
O
VAL
114
A
N
VAL
119
A
N
VAL
104
A
O
ALA
116
A
O
ALA
101
A
N
ILE
104
A
N
ILE
89
A
O
ILE
105
A
O
ILE
90
A
N
TYR
62
A
N
TYR
47
A
N
GLY
159
A
N
GLY
144
A
O
THR
167
A
O
THR
152
A
N
ALA
175
A
N
ALA
160
A
O
GLN
191
A
O
GLN
176
A
N
THR
192
A
N
THR
177
A
O
GLY
233
A
O
GLY
218
A
O
PHE
234
A
O
PHE
219
A
N
THR
217
A
N
THR
202
A
O
MET
213
A
O
MET
198
A
N
LEU
205
A
N
LEU
190
A
O
VAL
206
A
O
VAL
191
A
N
LEU
156
A
N
LEU
141
1
A
OG
SER
39
A
OG
SER
24
1
Y
1
A
CG
ASP
41
A
CG
ASP
26
1
Y
1
A
OD1
ASP
41
A
OD1
ASP
26
1
Y
1
A
OD2
ASP
41
A
OD2
ASP
26
1
Y
1
A
CG
ARG
77
A
CG
ARG
62
1
Y
1
A
CD
ARG
77
A
CD
ARG
62
1
Y
1
A
NE
ARG
77
A
NE
ARG
62
1
Y
1
A
CZ
ARG
77
A
CZ
ARG
62
1
Y
1
A
NH1
ARG
77
A
NH1
ARG
62
1
Y
1
A
NH2
ARG
77
A
NH2
ARG
62
1
Y
1
A
CG
ARG
253
A
CG
ARG
238
1
Y
1
A
CD
ARG
253
A
CD
ARG
238
1
Y
1
A
NE
ARG
253
A
NE
ARG
238
1
Y
1
A
CZ
ARG
253
A
CZ
ARG
238
1
Y
1
A
NH1
ARG
253
A
NH1
ARG
238
1
Y
1
A
NH2
ARG
253
A
NH2
ARG
238
1
Y
1
A
MET
16
A
MET
1
1
Y
1
A
ARG
17
A
ARG
2
1
Y
1
A
GLY
18
A
GLY
3
1
Y
1
A
SER
19
A
SER
4
1
Y
1
A
HIS
20
A
HIS
5
1
Y
1
A
HIS
21
A
HIS
6
1
Y
1
A
HIS
22
A
HIS
7
1
Y
1
A
HIS
23
A
HIS
8
1
Y
1
A
HIS
24
A
HIS
9
1
Y
1
A
HIS
25
A
HIS
10
1
Y
1
A
GLY
26
A
GLY
11
1
Y
1
A
ARG
27
A
ARG
12
1
Y
1
A
SER
28
A
SER
13
1
Y
1
A
LEU
29
A
LEU
14
1
Y
1
A
ASN
30
A
ASN
15
1
Y
1
A
PRO
31
A
PRO
16
1
Y
1
A
LEU
32
A
LEU
17
1
Y
1
A
SER
33
A
SER
18
1
Y
1
A
THR
34
A
THR
19
1
Y
1
A
PRO
35
A
PRO
20
1
Y
1
A
GLN
36
A
GLN
21
1
Y
1
A
PHE
37
A
PHE
22
1
Y
1
A
ASP
38
A
ASP
23
1
Y
1
A
GLY
65
A
GLY
50
1
Y
1
A
LEU
66
A
LEU
51
1
Y
1
A
ASN
67
A
ASN
52
1
Y
1
A
THR
68
A
THR
53
1
Y
1
A
ASN
69
A
ASN
54
1
Y
1
A
SER
70
A
SER
55
1
Y
1
A
HIS
71
A
HIS
56
1
Y
1
A
ASN
72
A
ASN
57
1
Y
1
A
GLN
73
A
GLN
58
1
Y
1
A
LEU
74
A
LEU
59
1
Y
1
A
GLU
75
A
GLU
60
1
Y
1
A
ASN
163
A
ASN
148
1
Y
1
A
LEU
164
A
LEU
149
1
Y
1
A
ARG
178
A
ARG
163
1
Y
1
A
ILE
179
A
ILE
164
1
Y
1
A
GLY
180
A
GLY
165
1
Y
1
A
LEU
181
A
LEU
166
1
Y
1
A
ASN
182
A
ASN
167
1
Y
1
A
PRO
183
A
PRO
168
1
Y
1
A
THR
184
A
THR
169
1
Y
1
A
GLY
185
A
GLY
170
1
Y
1
A
ARG
186
A
ARG
171
1
Y
1
A
GLN
187
A
GLN
172
1
Y
1
A
PHE
220
A
PHE
205
1
Y
1
A
ASP
221
A
ASP
206
1
Y
1
A
LYS
222
A
LYS
207
1
Y
1
A
SER
223
A
SER
208
1
Y
1
A
ASN
224
A
ASN
209
1
Y
1
A
ASP
225
A
ASP
210
1
Y
1
A
GLY
226
A
GLY
211
1
Y
1
A
GLU
227
A
GLU
212
1
Y
1
A
THR
228
A
THR
213
1
Y
1
A
PRO
229
A
PRO
214
1
Y
1
A
GLU
230
A
GLU
215
1
Y
1
A
VAL
254
A
VAL
239
1
Y
1
A
ILE
255
A
ILE
240
1
Y
1
A
ARG
256
A
ARG
241
1
Y
1
A
PRO
198
-37.77
-38.85
170.27
101.084
58.05
-31.177
-0.000
0.000
-31.177
-0.000
62.353
To obtain the best possible geometry, this structure was refined with hydrogens whose coordinates were determined by the attached heavy atom. Authors state that although hydrogens cannot be visualized at this resolution, they are present and contribute to scattering. The hydrogens are kept in this entry because independent assessment of many aspects of the geometry, including steric clashes, require their presence. Moreover, removing hydrogen atoms after refinement makes independent assessment of refinement statistics effectively irreproducible.
0.262
0.220
0.221
2.68
16.802
258
5868
4.400
93.510
1.00
0.50
0.719
0.270
1
1.97
MOLECULAR REPLACEMENT
0.900
1.110
ML
FLAT BULK SOLVENT MODEL
60.783
0.340
2.68
16.802
10
1325
0
0
1315
0.004
1327
0.822
1802
0.039
226
0.005
234
15.052
471
0.321
0.245
2.77
134
2799
2933
2
93.000
0.244
0.212
16.802
124
2811
2935
2
94.000
2.670
50.000
3LGT
5910
0.035
1.045
1
20.900
4.500
93.700
0.212
2.67
2.77
492
0.691
3.70
80.90
0.150
2.77
2.88
574
0.696
3.90
88.90
0.131
2.88
3.01
600
0.816
4.20
96.30
0.088
3.01
3.17
648
0.830
4.60
99.80
0.069
3.17
3.36
636
0.891
4.80
100.00
0.066
3.36
3.62
592
1.253
4.70
96.40
0.059
3.62
3.99
515
2.261
4.00
82.30
0.029
3.99
4.56
611
1.038
4.80
97.30
0.026
4.56
5.75
628
1.029
4.90
97.70
0.023
5.75
50.00
614
1.068
4.90
97.20
data reduction
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
DENZO
package
data scaling
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
SCALEPACK
package
phasing
Randy J. Read
cimr-phaser@lists.cam.ac.uk
http://www-structmed.cimr.cam.ac.uk/phaser/
PHASER
program
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.5_2
data extraction
PDB
help@deposit.rcsb.org
June 11, 2008
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.005
data collection
StructureStudio
Y162A/H198P double mutant of DegS-deltaPDZ protease
1
N
N
2
N
N
A
TYR
47
A
TYR
32
HELX_P
A
ALA
55
A
ALA
40
1
1
9
A
ASN
197
A
ASN
182
HELX_P
A
SER
201
A
SER
186
5
2
5
A
PHE
238
A
PHE
223
HELX_P
A
ASP
251
A
ASP
236
1
3
14
HYDROLASE
protease, stress-sensor, HtrA, PDZ OMP, Hydrolase, Serine protease
DEGS_ECOLI
UNP
1
27
P0AEE3
RSLNPLSTPQFDSTDETPASYNLAVRRAAPAVVNVYNRGLNTNSHNQLEIRTLGSGVIMDQRGYIITNKHVINDADQIIV
ALQDGRVFEALLVGSDSLTDLAVLKINATGGLPTIPINARRVPHIGDVVLAIGNPYNLGQTITQGIISATGRIGLNPTGR
QNFLQTDASINHGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPFQLATKIMDKLIRDGRVIR
27
256
3LGT
27
256
P0AEE3
A
1
12
241
1
expression tag
MET
16
3LGT
A
P0AEE3
UNP
1
1
expression tag
ARG
17
3LGT
A
P0AEE3
UNP
2
1
expression tag
GLY
18
3LGT
A
P0AEE3
UNP
3
1
expression tag
SER
19
3LGT
A
P0AEE3
UNP
4
1
expression tag
HIS
20
3LGT
A
P0AEE3
UNP
5
1
expression tag
HIS
21
3LGT
A
P0AEE3
UNP
6
1
expression tag
HIS
22
3LGT
A
P0AEE3
UNP
7
1
expression tag
HIS
23
3LGT
A
P0AEE3
UNP
8
1
expression tag
HIS
24
3LGT
A
P0AEE3
UNP
9
1
expression tag
HIS
25
3LGT
A
P0AEE3
UNP
10
1
expression tag
GLY
26
3LGT
A
P0AEE3
UNP
11
1
TYR
engineered mutation
ALA
162
3LGT
A
P0AEE3
UNP
162
147
1
HIS
engineered mutation
PRO
198
3LGT
A
P0AEE3
UNP
198
183
7
7
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
VAL
58
A
VAL
43
A
ASN
63
A
ASN
48
A
ARG
77
A
ARG
62
A
ILE
84
A
ILE
69
A
TYR
90
A
TYR
75
A
ASN
94
A
ASN
79
A
LEU
127
A
LEU
112
A
LYS
131
A
LYS
116
A
VAL
113
A
VAL
98
A
ASP
122
A
ASP
107
A
ILE
104
A
ILE
89
A
ALA
107
A
ALA
92
A
VAL
58
A
VAL
43
A
ASN
63
A
ASN
48
A
VAL
154
A
VAL
139
A
GLY
159
A
GLY
144
A
THR
167
A
THR
152
A
ALA
175
A
ALA
160
A
LEU
190
A
LEU
175
A
THR
192
A
THR
177
A
GLY
233
A
GLY
218
A
PRO
237
A
PRO
222
A
LEU
212
A
LEU
197
A
THR
217
A
THR
202
A
ALA
204
A
ALA
189
A
ASN
207
A
ASN
192
A
VAL
154
A
VAL
139
A
GLY
159
A
GLY
144
146
H 3