0.008560
0.004942
0.000000
0.000000
0.009884
0.000000
0.000000
0.000000
0.015605
0.00000
0.00000
0.00000
Chun, S.
Sawaya, M.R.
Yeates, T.O.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
36
90.000
90.000
120.000
116.820
116.820
64.080
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
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
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
N
241
N
C
N
242
N
C
N
243
N
O
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
N
N
254
S
C
N
255
N
C
N
256
N
O
N
257
N
C
N
258
N
O
N
259
N
O
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
S
N
268
N
O
N
269
N
O
N
270
N
O
N
271
N
O
N
272
N
N
N
273
S
C
N
274
N
C
N
275
N
O
N
276
R
C
N
277
N
O
N
278
N
C
N
279
N
O
N
280
N
H
N
281
N
H
N
282
N
H
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
N
N
290
S
C
N
291
N
C
N
292
N
O
N
293
N
C
Y
294
N
C
Y
295
N
C
Y
296
N
C
Y
297
N
C
Y
298
N
C
Y
299
N
C
N
300
N
O
N
301
N
O
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
N
N
314
S
C
N
315
N
C
N
316
N
O
N
317
N
C
N
318
N
C
N
319
N
C
N
320
N
O
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
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
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
doub
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
doub
N
255
N
doub
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
doub
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
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
doub
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
Y
285
N
doub
Y
286
N
sing
Y
287
N
sing
N
288
N
sing
Y
289
N
doub
N
290
N
sing
Y
291
N
doub
N
292
N
sing
Y
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
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
doub
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
112
2990
2995
10.1073/pnas.1423672112
25713376
Selective molecular transport through the protein shell of a bacterial microcompartment organelle.
2015
10.2210/pdb4rbt/pdb
pdb_00004rbt
100
1
PIXEL
2014-04-03
DECTRIS PILATUS 6M-F
SINGLE WAVELENGTH
M
x-ray
1
0.97920
1.0
24-ID-C
APS
0.97920
SYNCHROTRON
APS BEAMLINE 24-ID-C
10401.016
Propanediol utilization protein PduA
UNP residues 2-94
K26A, S40L
3
man
polymer
96.063
SULFATE ION
1
syn
non-polymer
18.015
water
4
nat
water
no
no
MHHHHHHQQEALGMVETKGLTAAIEAADAMVASANVMLVGYEKIGLGLVTVIVRGDVGAVKAATDAGAAAARNVGEVKAV
HVIPRPHTDVEKILPKGISQ
MHHHHHHQQEALGMVETKGLTAAIEAADAMVASANVMLVGYEKIGLGLVTVIVRGDVGAVKAATDAGAAAARNVGEVKAV
HVIPRPHTDVEKILPKGISQ
A,B,C
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
LT2
sample
PduA, STM2038
99287
Salmonella enterica subsp. enterica serovar Typhimurium
469008
Escherichia coli
BL21 CodonPlus(DE3)-RIL
plasmid
pET22b+
1
2.02
39.19
VAPOR DIFFUSION, HANGING DROP
6.5
0.1M MES sodium salt pH 6.5, 2.0M Ammonium sulfate, 5% w/v PEG 400, vapor diffusion, hanging drop, temperature 298K
298
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Database references
Data collection
Database references
Derived calculations
Refinement description
1
0
2015-02-18
1
1
2015-03-11
1
2
2015-03-25
1
3
2023-09-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Different pore mutant
Different pore mutant
RCSB
Y
RCSB
2014-09-12
REL
REL
SO4
SULFATE ION
HOH
water
3NGK
PDB
experimental model
SO4
5
2
SO4
SO4
101
A
HOH
4
3
HOH
HOH
201
A
HOH
5
3
HOH
HOH
202
A
HOH
3
3
HOH
HOH
101
C
HOH
7
3
HOH
HOH
102
C
Phaser MODE: MR_AUTO
n
1
-5
A
n
2
-4
A
n
3
-3
A
n
4
-2
A
n
5
-1
A
n
6
0
A
n
7
1
A
GLN
2
n
8
GLN
2
A
GLN
3
n
9
GLN
3
A
GLU
4
n
10
GLU
4
A
ALA
5
n
11
ALA
5
A
LEU
6
n
12
LEU
6
A
GLY
7
n
13
GLY
7
A
MET
8
n
14
MET
8
A
VAL
9
n
15
VAL
9
A
GLU
10
n
16
GLU
10
A
THR
11
n
17
THR
11
A
LYS
12
n
18
LYS
12
A
GLY
13
n
19
GLY
13
A
LEU
14
n
20
LEU
14
A
THR
15
n
21
THR
15
A
ALA
16
n
22
ALA
16
A
ALA
17
n
23
ALA
17
A
ILE
18
n
24
ILE
18
A
GLU
19
n
25
GLU
19
A
ALA
20
n
26
ALA
20
A
ALA
21
n
27
ALA
21
A
ASP
22
n
28
ASP
22
A
ALA
23
n
29
ALA
23
A
MET
24
n
30
MET
24
A
VAL
25
n
31
VAL
25
A
ALA
26
n
32
ALA
26
A
SER
27
n
33
SER
27
A
ALA
28
n
34
ALA
28
A
ASN
29
n
35
ASN
29
A
VAL
30
n
36
VAL
30
A
MET
31
n
37
MET
31
A
LEU
32
n
38
LEU
32
A
VAL
33
n
39
VAL
33
A
GLY
34
n
40
GLY
34
A
TYR
35
n
41
TYR
35
A
GLU
36
n
42
GLU
36
A
LYS
37
n
43
LYS
37
A
ILE
38
n
44
ILE
38
A
GLY
39
n
45
GLY
39
A
LEU
40
n
46
LEU
40
A
GLY
41
n
47
GLY
41
A
LEU
42
n
48
LEU
42
A
VAL
43
n
49
VAL
43
A
THR
44
n
50
THR
44
A
VAL
45
n
51
VAL
45
A
ILE
46
n
52
ILE
46
A
VAL
47
n
53
VAL
47
A
ARG
48
n
54
ARG
48
A
GLY
49
n
55
GLY
49
A
ASP
50
n
56
ASP
50
A
VAL
51
n
57
VAL
51
A
GLY
52
n
58
GLY
52
A
ALA
53
n
59
ALA
53
A
VAL
54
n
60
VAL
54
A
LYS
55
n
61
LYS
55
A
ALA
56
n
62
ALA
56
A
ALA
57
n
63
ALA
57
A
THR
58
n
64
THR
58
A
ASP
59
n
65
ASP
59
A
ALA
60
n
66
ALA
60
A
GLY
61
n
67
GLY
61
A
ALA
62
n
68
ALA
62
A
ALA
63
n
69
ALA
63
A
ALA
64
n
70
ALA
64
A
ALA
65
n
71
ALA
65
A
ARG
66
n
72
ARG
66
A
ASN
67
n
73
ASN
67
A
VAL
68
n
74
VAL
68
A
GLY
69
n
75
GLY
69
A
GLU
70
n
76
GLU
70
A
VAL
71
n
77
VAL
71
A
LYS
72
n
78
LYS
72
A
ALA
73
n
79
ALA
73
A
VAL
74
n
80
VAL
74
A
HIS
75
n
81
HIS
75
A
VAL
76
n
82
VAL
76
A
ILE
77
n
83
ILE
77
A
PRO
78
n
84
PRO
78
A
ARG
79
n
85
ARG
79
A
PRO
80
n
86
PRO
80
A
HIS
81
n
87
HIS
81
A
THR
82
n
88
THR
82
A
ASP
83
n
89
ASP
83
A
VAL
84
n
90
VAL
84
A
GLU
85
n
91
GLU
85
A
LYS
86
n
92
LYS
86
A
ILE
87
n
93
ILE
87
A
LEU
88
n
94
LEU
88
A
PRO
89
n
95
PRO
89
A
LYS
90
n
96
LYS
90
A
n
97
91
A
n
98
92
A
n
99
93
A
n
100
94
A
n
1
-5
B
n
2
-4
B
n
3
-3
B
n
4
-2
B
n
5
-1
B
n
6
0
B
n
7
1
B
n
8
2
B
n
9
3
B
GLU
4
n
10
GLU
4
B
ALA
5
n
11
ALA
5
B
LEU
6
n
12
LEU
6
B
GLY
7
n
13
GLY
7
B
MET
8
n
14
MET
8
B
VAL
9
n
15
VAL
9
B
GLU
10
n
16
GLU
10
B
THR
11
n
17
THR
11
B
LYS
12
n
18
LYS
12
B
GLY
13
n
19
GLY
13
B
LEU
14
n
20
LEU
14
B
THR
15
n
21
THR
15
B
ALA
16
n
22
ALA
16
B
ALA
17
n
23
ALA
17
B
ILE
18
n
24
ILE
18
B
GLU
19
n
25
GLU
19
B
ALA
20
n
26
ALA
20
B
ALA
21
n
27
ALA
21
B
ASP
22
n
28
ASP
22
B
ALA
23
n
29
ALA
23
B
MET
24
n
30
MET
24
B
VAL
25
n
31
VAL
25
B
ALA
26
n
32
ALA
26
B
SER
27
n
33
SER
27
B
ALA
28
n
34
ALA
28
B
ASN
29
n
35
ASN
29
B
VAL
30
n
36
VAL
30
B
MET
31
n
37
MET
31
B
LEU
32
n
38
LEU
32
B
VAL
33
n
39
VAL
33
B
GLY
34
n
40
GLY
34
B
TYR
35
n
41
TYR
35
B
GLU
36
n
42
GLU
36
B
LYS
37
n
43
LYS
37
B
ILE
38
n
44
ILE
38
B
GLY
39
n
45
GLY
39
B
LEU
40
n
46
LEU
40
B
GLY
41
n
47
GLY
41
B
LEU
42
n
48
LEU
42
B
VAL
43
n
49
VAL
43
B
THR
44
n
50
THR
44
B
VAL
45
n
51
VAL
45
B
ILE
46
n
52
ILE
46
B
VAL
47
n
53
VAL
47
B
ARG
48
n
54
ARG
48
B
GLY
49
n
55
GLY
49
B
ASP
50
n
56
ASP
50
B
VAL
51
n
57
VAL
51
B
GLY
52
n
58
GLY
52
B
ALA
53
n
59
ALA
53
B
VAL
54
n
60
VAL
54
B
LYS
55
n
61
LYS
55
B
ALA
56
n
62
ALA
56
B
ALA
57
n
63
ALA
57
B
THR
58
n
64
THR
58
B
ASP
59
n
65
ASP
59
B
ALA
60
n
66
ALA
60
B
GLY
61
n
67
GLY
61
B
ALA
62
n
68
ALA
62
B
ALA
63
n
69
ALA
63
B
ALA
64
n
70
ALA
64
B
ALA
65
n
71
ALA
65
B
ARG
66
n
72
ARG
66
B
ASN
67
n
73
ASN
67
B
VAL
68
n
74
VAL
68
B
GLY
69
n
75
GLY
69
B
GLU
70
n
76
GLU
70
B
VAL
71
n
77
VAL
71
B
LYS
72
n
78
LYS
72
B
ALA
73
n
79
ALA
73
B
VAL
74
n
80
VAL
74
B
HIS
75
n
81
HIS
75
B
VAL
76
n
82
VAL
76
B
ILE
77
n
83
ILE
77
B
PRO
78
n
84
PRO
78
B
ARG
79
n
85
ARG
79
B
PRO
80
n
86
PRO
80
B
n
87
81
B
n
88
82
B
n
89
83
B
n
90
84
B
GLU
85
n
91
GLU
85
B
LYS
86
n
92
LYS
86
B
ILE
87
n
93
ILE
87
B
LEU
88
n
94
LEU
88
B
PRO
89
n
95
PRO
89
B
n
96
90
B
n
97
91
B
n
98
92
B
n
99
93
B
n
100
94
B
n
1
-5
C
n
2
-4
C
n
3
-3
C
n
4
-2
C
n
5
-1
C
n
6
0
C
n
7
1
C
n
8
2
C
n
9
3
C
GLU
4
n
10
GLU
4
C
ALA
5
n
11
ALA
5
C
LEU
6
n
12
LEU
6
C
GLY
7
n
13
GLY
7
C
MET
8
n
14
MET
8
C
VAL
9
n
15
VAL
9
C
GLU
10
n
16
GLU
10
C
THR
11
n
17
THR
11
C
LYS
12
n
18
LYS
12
C
GLY
13
n
19
GLY
13
C
LEU
14
n
20
LEU
14
C
THR
15
n
21
THR
15
C
ALA
16
n
22
ALA
16
C
ALA
17
n
23
ALA
17
C
ILE
18
n
24
ILE
18
C
GLU
19
n
25
GLU
19
C
ALA
20
n
26
ALA
20
C
ALA
21
n
27
ALA
21
C
ASP
22
n
28
ASP
22
C
ALA
23
n
29
ALA
23
C
MET
24
n
30
MET
24
C
VAL
25
n
31
VAL
25
C
ALA
26
n
32
ALA
26
C
SER
27
n
33
SER
27
C
ALA
28
n
34
ALA
28
C
ASN
29
n
35
ASN
29
C
VAL
30
n
36
VAL
30
C
MET
31
n
37
MET
31
C
LEU
32
n
38
LEU
32
C
VAL
33
n
39
VAL
33
C
GLY
34
n
40
GLY
34
C
TYR
35
n
41
TYR
35
C
GLU
36
n
42
GLU
36
C
LYS
37
n
43
LYS
37
C
ILE
38
n
44
ILE
38
C
GLY
39
n
45
GLY
39
C
LEU
40
n
46
LEU
40
C
GLY
41
n
47
GLY
41
C
LEU
42
n
48
LEU
42
C
VAL
43
n
49
VAL
43
C
THR
44
n
50
THR
44
C
VAL
45
n
51
VAL
45
C
ILE
46
n
52
ILE
46
C
VAL
47
n
53
VAL
47
C
ARG
48
n
54
ARG
48
C
GLY
49
n
55
GLY
49
C
ASP
50
n
56
ASP
50
C
VAL
51
n
57
VAL
51
C
GLY
52
n
58
GLY
52
C
ALA
53
n
59
ALA
53
C
VAL
54
n
60
VAL
54
C
LYS
55
n
61
LYS
55
C
ALA
56
n
62
ALA
56
C
ALA
57
n
63
ALA
57
C
THR
58
n
64
THR
58
C
ASP
59
n
65
ASP
59
C
ALA
60
n
66
ALA
60
C
GLY
61
n
67
GLY
61
C
ALA
62
n
68
ALA
62
C
ALA
63
n
69
ALA
63
C
ALA
64
n
70
ALA
64
C
ALA
65
n
71
ALA
65
C
ARG
66
n
72
ARG
66
C
ASN
67
n
73
ASN
67
C
VAL
68
n
74
VAL
68
C
GLY
69
n
75
GLY
69
C
GLU
70
n
76
GLU
70
C
VAL
71
n
77
VAL
71
C
LYS
72
n
78
LYS
72
C
ALA
73
n
79
ALA
73
C
VAL
74
n
80
VAL
74
C
HIS
75
n
81
HIS
75
C
VAL
76
n
82
VAL
76
C
ILE
77
n
83
ILE
77
C
PRO
78
n
84
PRO
78
C
ARG
79
n
85
ARG
79
C
n
86
80
C
n
87
81
C
n
88
82
C
n
89
83
C
VAL
84
n
90
VAL
84
C
GLU
85
n
91
GLU
85
C
LYS
86
n
92
LYS
86
C
ILE
87
n
93
ILE
87
C
LEU
88
n
94
LEU
88
C
PRO
89
n
95
PRO
89
C
n
96
90
C
n
97
91
C
n
98
92
C
n
99
93
C
n
100
94
C
7.3289
-1.5698
1.0515
5.8640
-1.3952
0.9291
0.0034
0.0225
-0.9287
0.0488
0.1838
0.2953
0.0930
-0.0032
-0.1873
-0.5643
0.0185
0.0262
-0.5702
-0.0043
0.6079
refined
47.2937
14.6418
17.0829
X-RAY DIFFRACTION
6.9110
0.7559
0.0394
7.9966
-1.1276
0.1294
0.0968
0.0898
-0.0372
0.1734
0.0400
0.4591
-0.0166
0.0144
-0.1367
-0.5310
0.0058
0.0726
-0.5689
0.0028
0.6079
refined
36.9044
32.8559
17.2230
X-RAY DIFFRACTION
6.1721
0.9497
-0.0697
6.1183
0.3920
0.0000
0.0739
0.1862
0.2893
0.1280
-0.0854
-0.3395
0.0813
-0.0628
0.0116
-0.3734
0.0378
0.0410
-0.3809
0.0202
0.5822
refined
19.1558
9.6230
15.1227
X-RAY DIFFRACTION
A
2
A
90
X-RAY DIFFRACTION
1
{ A|* }
B
4
B
89
X-RAY DIFFRACTION
2
{ B|* }
C
4
C
89
X-RAY DIFFRACTION
3
{ C|* }
author_and_software_defined_assembly
PISA
6
hexameric
author_and_software_defined_assembly
PISA
6
hexameric
9250
-112
19500
8980
-79
18800
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_655
-y+1,x-y,z
crystal symmetry operation
116.8200000000
0.0000000000
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
-0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_665
-x+y+1,-x+1,z
crystal symmetry operation
58.4100000000
101.1690876701
0.0000000000
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_555
-y,x-y,z
crystal symmetry 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
3_555
-x+y,-x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
4_555
-x,-y,z
crystal symmetry 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
5_555
y,-x+y,z
crystal symmetry 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
6_555
x-y,x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
A
N
MET
31
A
N
MET
37
A
O
ARG
48
A
O
ARG
54
A
O
VAL
43
A
O
VAL
49
A
N
THR
11
A
N
THR
17
A
N
GLU
4
A
N
GLU
10
A
O
ARG
79
A
O
ARG
85
B
N
MET
31
B
N
MET
37
B
O
ARG
48
B
O
ARG
54
B
O
VAL
43
B
O
VAL
49
B
N
THR
11
B
N
THR
17
B
N
LEU
6
B
N
LEU
12
B
O
ILE
77
B
O
ILE
83
C
N
MET
31
C
N
MET
37
C
O
ARG
48
C
O
ARG
54
C
O
VAL
43
C
O
VAL
49
C
N
THR
11
C
N
THR
17
C
N
LEU
6
C
N
LEU
12
C
O
ILE
77
C
O
ILE
83
1
A
CG
GLN
2
A
CG
GLN
8
1
Y
1
A
CD
GLN
2
A
CD
GLN
8
1
Y
1
A
OE1
GLN
2
A
OE1
GLN
8
1
Y
1
A
NE2
GLN
2
A
NE2
GLN
8
1
Y
1
A
CG
HIS
81
A
CG
HIS
87
1
Y
1
A
ND1
HIS
81
A
ND1
HIS
87
1
Y
1
A
CD2
HIS
81
A
CD2
HIS
87
1
Y
1
A
CE1
HIS
81
A
CE1
HIS
87
1
Y
1
A
NE2
HIS
81
A
NE2
HIS
87
1
Y
1
A
CG
LYS
86
A
CG
LYS
92
1
Y
1
A
CD
LYS
86
A
CD
LYS
92
1
Y
1
A
CE
LYS
86
A
CE
LYS
92
1
Y
1
A
NZ
LYS
86
A
NZ
LYS
92
1
Y
1
A
CG
LYS
90
A
CG
LYS
96
1
Y
1
A
CD
LYS
90
A
CD
LYS
96
1
Y
1
A
CE
LYS
90
A
CE
LYS
96
1
Y
1
A
NZ
LYS
90
A
NZ
LYS
96
1
Y
1
B
CG
GLU
4
B
CG
GLU
10
1
Y
1
B
CD
GLU
4
B
CD
GLU
10
1
Y
1
B
OE1
GLU
4
B
OE1
GLU
10
1
Y
1
B
OE2
GLU
4
B
OE2
GLU
10
1
Y
1
B
CG
GLU
85
B
CG
GLU
91
1
Y
1
B
CD
GLU
85
B
CD
GLU
91
1
Y
1
B
OE1
GLU
85
B
OE1
GLU
91
1
Y
1
B
OE2
GLU
85
B
OE2
GLU
91
1
Y
1
B
CG
LYS
86
B
CG
LYS
92
1
Y
1
B
CD
LYS
86
B
CD
LYS
92
1
Y
1
B
CE
LYS
86
B
CE
LYS
92
1
Y
1
B
NZ
LYS
86
B
NZ
LYS
92
1
Y
1
C
CG
ASN
29
C
CG
ASN
35
1
Y
1
C
OD1
ASN
29
C
OD1
ASN
35
1
Y
1
C
ND2
ASN
29
C
ND2
ASN
35
1
Y
1
C
CG
GLU
85
C
CG
GLU
91
1
Y
1
C
CD
GLU
85
C
CD
GLU
91
1
Y
1
C
OE1
GLU
85
C
OE1
GLU
91
1
Y
1
C
OE2
GLU
85
C
OE2
GLU
91
1
Y
1
C
CG
LYS
86
C
CG
LYS
92
1
Y
1
C
CD
LYS
86
C
CD
LYS
92
1
Y
1
C
CE
LYS
86
C
CE
LYS
92
1
Y
1
C
NZ
LYS
86
C
NZ
LYS
92
1
Y
1
A
MET
-5
A
MET
1
1
Y
1
A
HIS
-4
A
HIS
2
1
Y
1
A
HIS
-3
A
HIS
3
1
Y
1
A
HIS
-2
A
HIS
4
1
Y
1
A
HIS
-1
A
HIS
5
1
Y
1
A
HIS
0
A
HIS
6
1
Y
1
A
HIS
1
A
HIS
7
1
Y
1
A
GLY
91
A
GLY
97
1
Y
1
A
ILE
92
A
ILE
98
1
Y
1
A
SER
93
A
SER
99
1
Y
1
A
GLN
94
A
GLN
100
1
Y
1
B
MET
-5
B
MET
1
1
Y
1
B
HIS
-4
B
HIS
2
1
Y
1
B
HIS
-3
B
HIS
3
1
Y
1
B
HIS
-2
B
HIS
4
1
Y
1
B
HIS
-1
B
HIS
5
1
Y
1
B
HIS
0
B
HIS
6
1
Y
1
B
HIS
1
B
HIS
7
1
Y
1
B
GLN
2
B
GLN
8
1
Y
1
B
GLN
3
B
GLN
9
1
Y
1
B
HIS
81
B
HIS
87
1
Y
1
B
THR
82
B
THR
88
1
Y
1
B
ASP
83
B
ASP
89
1
Y
1
B
VAL
84
B
VAL
90
1
Y
1
B
LYS
90
B
LYS
96
1
Y
1
B
GLY
91
B
GLY
97
1
Y
1
B
ILE
92
B
ILE
98
1
Y
1
B
SER
93
B
SER
99
1
Y
1
B
GLN
94
B
GLN
100
1
Y
1
C
MET
-5
C
MET
1
1
Y
1
C
HIS
-4
C
HIS
2
1
Y
1
C
HIS
-3
C
HIS
3
1
Y
1
C
HIS
-2
C
HIS
4
1
Y
1
C
HIS
-1
C
HIS
5
1
Y
1
C
HIS
0
C
HIS
6
1
Y
1
C
HIS
1
C
HIS
7
1
Y
1
C
GLN
2
C
GLN
8
1
Y
1
C
GLN
3
C
GLN
9
1
Y
1
C
PRO
80
C
PRO
86
1
Y
1
C
HIS
81
C
HIS
87
1
Y
1
C
THR
82
C
THR
88
1
Y
1
C
ASP
83
C
ASP
89
1
Y
1
C
LYS
90
C
LYS
96
1
Y
1
C
GLY
91
C
GLY
97
1
Y
1
C
ILE
92
C
ILE
98
1
Y
1
C
SER
93
C
SER
99
1
Y
1
C
GLN
94
C
GLN
100
1
Y
1
A
GLN
3
-136.41
-57.67
1
A
HIS
81
91.33
-12.50
164.730
80.2600
39.420
6.2816
0.0000
0.0000
6.2816
0.0000
-12.5631
0.9444
0.9288
0.2679
0.2289
0.2328
0.2328
2.3000
54.134
1178
11771
11771
10.0100
98.5800
0.3190
RANDOM
1
THROUGHOUT
0.000
MOLECULAR REPLACEMENT
3NGK
Engh & Huber
0.624
2.3000
54.134
4
1747
5
0
1738
608
SINUSOIDAL
2.000
31
HARMONIC
2.000
263
HARMONIC
5.000
1751
HARMONIC
20.000
254
SEMIHARMONIC
5.000
1945
SEMIHARMONIC
4.000
0.010
1751
HARMONIC
2.000
1.280
2380
HARMONIC
2.000
2.740
20.480
0.3006
0.2356
0.2420
2.5200
270
2425
2695
6
10.0200
98.5800
50.920
2.300
54.134
4RBT
11772
11772
-3.000
0.102
0.983
1
15.560
98.600
0.014
2.300
2.360
1.080
4542
801
1
94.200
0.014
2.360
2.420
1.540
5977
831
1
98.700
0.014
2.420
2.500
2.320
7033
814
1
99.600
0.014
2.500
2.570
3.050
8310
789
1
99.700
0.014
2.570
2.660
3.950
10601
775
1
99.900
0.014
2.660
2.750
5.700
12065
736
1
99.500
0.014
2.750
2.850
7.050
11934
723
1
99.400
0.014
2.850
2.970
8.040
11145
690
1
99.300
0.014
2.970
3.100
10.600
10055
666
1
99.100
0.014
3.100
3.250
13.380
10594
640
1
99.400
0.014
3.250
3.430
17.810
10008
611
1
99.300
0.014
3.430
3.640
22.990
9140
571
1
99.000
0.014
3.640
3.890
26.680
8240
552
1
99.100
0.014
3.890
4.200
32.210
8504
512
1
99.000
0.014
4.200
4.600
39.720
7676
475
1
97.500
0.014
4.600
5.140
42.540
6503
430
1
98.900
0.014
5.140
5.940
39.820
6317
389
1
97.700
0.014
5.940
7.270
40.660
4962
332
1
97.400
0.014
7.270
10.290
52.210
3989
269
1
97.100
data scaling
Wolfgang Kabsch
http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html
XSCALE
package
phasing
Randy J. Read
cimr-phaser@lists.cam.ac.uk
Mon Feb 10 17:06:44 2014
http://www-structmed.cimr.cam.ac.uk/phaser/
PHASER
program
2.5.6
refinement
Gerard Bricogne
buster-develop@GlobalPhasing.com
http://www.globalphasing.com/buster/
BUSTER-TNT
program
data extraction
PDB
deposit@deposit.rcsb.org
July. 29, 2014
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.15
refinement
BUSTER
2.10.0
PduA K26A S40L mutant, from Salmonella enterica serovar Typhimurium LT2
1
N
N
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
A
GLY
13
A
GLY
19
HELX_P
A
ALA
28
A
ALA
34
1
1
16
A
VAL
51
A
VAL
57
HELX_P
A
ARG
66
A
ARG
72
1
2
16
B
GLY
13
B
GLY
19
HELX_P
B
ALA
28
B
ALA
34
1
3
16
B
ASP
50
B
ASP
56
HELX_P
B
ARG
66
B
ARG
72
1
4
17
C
GLY
13
C
GLY
19
HELX_P
C
ALA
26
C
ALA
32
1
5
14
C
ASP
50
C
ASP
56
HELX_P
C
ARG
66
C
ARG
72
1
6
17
STRUCTURAL PROTEIN
Bacterial Microcompartment shell protein, STRUCTURAL PROTEIN
PDUA_SALTY
UNP
1
2
P0A1C7
QQEALGMVETKGLTAAIEAADAMVKSANVMLVGYEKIGSGLVTVIVRGDVGAVKAATDAGAAAARNVGEVKAVHVIPRPH
TDVEKILPKGISQ
2
94
4RBT
2
94
P0A1C7
A
1
8
100
2
94
4RBT
2
94
P0A1C7
B
1
8
100
2
94
4RBT
2
94
P0A1C7
C
1
8
100
1
expression tag
MET
-5
4RBT
A
P0A1C7
UNP
1
1
expression tag
HIS
-4
4RBT
A
P0A1C7
UNP
2
1
expression tag
HIS
-3
4RBT
A
P0A1C7
UNP
3
1
expression tag
HIS
-2
4RBT
A
P0A1C7
UNP
4
1
expression tag
HIS
-1
4RBT
A
P0A1C7
UNP
5
1
expression tag
HIS
0
4RBT
A
P0A1C7
UNP
6
1
expression tag
HIS
1
4RBT
A
P0A1C7
UNP
7
1
LYS
engineered mutation
ALA
26
4RBT
A
P0A1C7
UNP
26
32
1
SER
engineered mutation
LEU
40
4RBT
A
P0A1C7
UNP
40
46
2
expression tag
MET
-5
4RBT
B
P0A1C7
UNP
1
2
expression tag
HIS
-4
4RBT
B
P0A1C7
UNP
2
2
expression tag
HIS
-3
4RBT
B
P0A1C7
UNP
3
2
expression tag
HIS
-2
4RBT
B
P0A1C7
UNP
4
2
expression tag
HIS
-1
4RBT
B
P0A1C7
UNP
5
2
expression tag
HIS
0
4RBT
B
P0A1C7
UNP
6
2
expression tag
HIS
1
4RBT
B
P0A1C7
UNP
7
2
LYS
engineered mutation
ALA
26
4RBT
B
P0A1C7
UNP
26
32
2
SER
engineered mutation
LEU
40
4RBT
B
P0A1C7
UNP
40
46
3
expression tag
MET
-5
4RBT
C
P0A1C7
UNP
1
3
expression tag
HIS
-4
4RBT
C
P0A1C7
UNP
2
3
expression tag
HIS
-3
4RBT
C
P0A1C7
UNP
3
3
expression tag
HIS
-2
4RBT
C
P0A1C7
UNP
4
3
expression tag
HIS
-1
4RBT
C
P0A1C7
UNP
5
3
expression tag
HIS
0
4RBT
C
P0A1C7
UNP
6
3
expression tag
HIS
1
4RBT
C
P0A1C7
UNP
7
3
LYS
engineered mutation
ALA
26
4RBT
C
P0A1C7
UNP
26
32
3
SER
engineered mutation
LEU
40
4RBT
C
P0A1C7
UNP
40
46
4
4
4
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
MET
31
A
MET
37
A
GLY
39
A
GLY
45
A
LEU
42
A
LEU
48
A
ASP
50
A
ASP
56
A
GLU
4
A
GLU
10
A
LYS
12
A
LYS
18
A
GLU
70
A
GLU
76
A
ARG
79
A
ARG
85
B
MET
31
B
MET
37
B
GLY
39
B
GLY
45
B
LEU
42
B
LEU
48
B
GLY
49
B
GLY
55
B
ALA
5
B
ALA
11
B
LYS
12
B
LYS
18
B
GLU
70
B
GLU
76
B
ILE
77
B
ILE
83
C
VAL
30
C
VAL
36
C
GLY
39
C
GLY
45
C
LEU
42
C
LEU
48
C
GLY
49
C
GLY
55
C
ALA
5
C
ALA
11
C
LYS
12
C
LYS
18
C
GLU
70
C
GLU
76
C
PRO
78
C
PRO
84
BINDING SITE FOR RESIDUE SO4 A 101
A
SO4
101
Software
5
A
ARG
48
A
ARG
54
5
1_555
A
THR
82
A
THR
88
5
1_555
A
ASP
83
A
ASP
89
5
1_555
A
VAL
84
A
VAL
90
5
1_555
A
GLU
85
A
GLU
91
5
1_555
177
P 6 2 2