0.017677
0.000000
0.000000
0.000000
0.017677
0.000000
0.000000
0.000000
0.006844
0.00000
0.00000
0.00000
Fieulaine, S.
Meinnel, T.
Giglione, C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
56.570
56.570
146.110
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
C19 H35 N3 O5
385.498
ACTINONIN
2-[(FORMYL-HYDROXY-AMINO)-METHYL]-HEPTANOIC ACID [1-(2-HYDROXYMETHYL-PYRROLIDINE-1-CARBONYL)-2-METHYL-PROPYL]-AMIDE
non-polymer
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 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
Zn 2
65.409
ZINC ION
non-polymer
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
C
N
75
N
C
N
76
N
O
N
77
N
N
N
78
N
O
N
79
R
C
N
80
N
C
N
81
N
O
N
82
N
C
N
83
N
C
N
84
N
C
N
85
N
C
N
86
N
C
N
87
N
N
N
88
S
C
N
89
N
C
N
90
N
C
N
91
N
C
N
92
N
C
N
93
N
O
N
94
N
N
N
95
S
C
N
96
N
C
N
97
N
C
N
98
N
C
N
99
N
C
N
100
N
O
N
101
N
H
N
102
N
H
N
103
N
H
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
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
N
N
137
R
C
N
138
N
C
N
139
N
O
N
140
N
C
N
141
N
S
N
142
N
O
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
N
N
151
S
C
N
152
N
C
N
153
N
O
N
154
N
C
N
155
N
C
N
156
N
C
N
157
N
O
N
158
N
N
N
159
N
O
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
H
N
170
N
N
N
171
S
C
N
172
N
C
N
173
N
O
N
174
N
C
N
175
N
C
N
176
N
C
N
177
N
O
N
178
N
O
N
179
N
O
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
N
N
190
N
C
N
191
N
C
N
192
N
O
N
193
N
O
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
N
N
200
S
C
N
201
N
C
N
202
N
O
N
203
N
C
Y
204
N
C
Y
205
N
N
Y
206
N
C
Y
207
N
C
Y
208
N
N
N
209
N
O
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
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
O
N
221
N
H
N
222
N
H
N
223
N
N
N
224
S
C
N
225
N
C
N
226
N
O
N
227
S
C
N
228
N
C
N
229
N
C
N
230
N
C
N
231
N
O
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
N
N
246
S
C
N
247
N
C
N
248
N
O
N
249
N
C
N
250
N
C
N
251
N
C
N
252
N
C
N
253
N
O
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
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
N
N
268
S
C
N
269
N
C
N
270
N
O
N
271
N
C
N
272
N
C
N
273
N
C
N
274
N
C
N
275
N
N
N
276
N
O
N
277
N
H
N
278
N
H
N
279
N
H
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
H
N
290
N
H
N
291
N
H
N
292
N
N
N
293
S
C
N
294
N
C
N
295
N
O
N
296
N
C
N
297
N
C
N
298
N
S
N
299
N
C
N
300
N
O
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
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
N
N
313
S
C
N
314
N
C
N
315
N
O
N
316
N
C
Y
317
N
C
Y
318
N
C
Y
319
N
C
Y
320
N
C
Y
321
N
C
Y
322
N
C
N
323
N
O
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
332
N
H
N
333
N
H
N
334
N
H
N
335
N
N
N
336
S
C
N
337
N
C
N
338
N
O
N
339
N
C
N
340
N
C
N
341
N
C
N
342
N
O
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
350
N
H
N
351
N
H
N
352
N
N
N
353
S
C
N
354
N
C
N
355
N
O
N
356
N
C
N
357
N
O
N
358
N
O
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
N
N
367
S
C
N
368
N
C
N
369
N
O
N
370
R
C
N
371
N
O
N
372
N
C
N
373
N
O
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
N
N
384
S
C
N
385
N
C
N
386
N
O
N
387
N
C
Y
388
N
C
Y
389
N
C
Y
390
N
C
Y
391
N
C
Y
392
N
C
Y
393
N
C
N
394
N
O
N
395
N
O
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
H
N
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
N
N
408
S
C
N
409
N
C
N
410
N
O
N
411
N
C
N
412
N
C
N
413
N
C
N
414
N
O
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
ZN
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
doub
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
doub
N
83
N
sing
N
84
N
sing
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
sing
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
sing
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
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
doub
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
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
doub
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
doub
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
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
doub
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
doub
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
sing
N
188
N
doub
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
doub
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
Y
202
N
sing
Y
203
N
doub
Y
204
N
doub
N
205
N
sing
Y
206
N
sing
N
207
N
sing
Y
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
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
doub
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
sing
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
doub
N
242
N
sing
N
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
sing
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
doub
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
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
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
doub
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
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
doub
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
Y
310
N
doub
Y
311
N
sing
Y
312
N
sing
N
313
N
sing
Y
314
N
doub
N
315
N
sing
Y
316
N
doub
N
317
N
sing
Y
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
doub
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
doub
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
doub
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
doub
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
Y
379
N
doub
Y
380
N
sing
Y
381
N
sing
N
382
N
sing
Y
383
N
doub
N
384
N
sing
Y
385
N
doub
N
386
N
sing
Y
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
doub
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
US
Plos Biol.
1544-9173
9
e1001066
e1001066
10.1371/journal.pbio.1001066
21629676
Trapping conformational States along ligand-binding dynamics of Peptide deformylase: the impact of induced fit on enzyme catalysis.
2011
10.2210/pdb3pn4/pdb
pdb_00003pn4
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
2009-07-10
ADSC QUANTUM 315r
SINGLE WAVELENGTH
M
x-ray
1
0.939
1.0
ID14-4
ESRF
0.939
SYNCHROTRON
ESRF BEAMLINE ID14-4
21976.232
Peptide deformylase 1B, chloroplastic
3.5.1.88
UNP residues 83-273
1
man
polymer
385.498
ACTINONIN
1
syn
non-polymer
65.409
ZINC ION
5
syn
non-polymer
18.015
water
251
nat
water
AtDEF2, AtPDF1B, PDF 1B, Polypeptide deformylase
no
no
MEIVEYPDPILRAKNKRIDIFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKY
SDKLVPFDEGCLSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQVLDSIREELE
ALEKKYEEKTGLPSPERVEARQKRKAGVGFGKR
MEIVEYPDPILRAKNKRIDIFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKY
SDKLVPFDEGCLSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQVLDSIREELE
ALEKKYEEKTGLPSPERVEARQKRKAGVGFGKR
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
mouse-ear cress,thale-cress
sample
DEF2, PDF1B
3702
Arabidopsis thaliana
562
Escherichia coli
Jm101Tr
pQE60
1
2.66
53.75
VAPOR DIFFUSION, HANGING DROP
20% PEG-550-MME, Zinc sulfate 25mM, 70mM MES pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2011-06-08
1
1
2011-07-13
1
2
2023-09-06
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2010-11-18
REL
REL
BB2
ACTINONIN
ZN
ZINC ION
HOH
water
3PN2
PDB ENTRY 3PN2
PDB
experimental model
BB2
501
2
BB2
BB2
501
A
ZN
1001
3
ZN
ZN
1001
A
ZN
1002
3
ZN
ZN
1002
A
ZN
1003
3
ZN
ZN
1003
A
ZN
1004
3
ZN
ZN
1004
A
ZN
1005
3
ZN
ZN
1005
A
HOH
1006
4
HOH
HOH
1006
A
HOH
1007
4
HOH
HOH
1007
A
HOH
1008
4
HOH
HOH
1008
A
HOH
1009
4
HOH
HOH
1009
A
HOH
1010
4
HOH
HOH
1010
A
HOH
1011
4
HOH
HOH
1011
A
HOH
1012
4
HOH
HOH
1012
A
HOH
1013
4
HOH
HOH
1013
A
HOH
1014
4
HOH
HOH
1014
A
HOH
1015
4
HOH
HOH
1015
A
HOH
1016
4
HOH
HOH
1016
A
HOH
1017
4
HOH
HOH
1017
A
HOH
1018
4
HOH
HOH
1018
A
HOH
1019
4
HOH
HOH
1019
A
HOH
1020
4
HOH
HOH
1020
A
HOH
1021
4
HOH
HOH
1021
A
HOH
1022
4
HOH
HOH
1022
A
HOH
1023
4
HOH
HOH
1023
A
HOH
1024
4
HOH
HOH
1024
A
HOH
1025
4
HOH
HOH
1025
A
HOH
1026
4
HOH
HOH
1026
A
HOH
1027
4
HOH
HOH
1027
A
HOH
1028
4
HOH
HOH
1028
A
HOH
1029
4
HOH
HOH
1029
A
HOH
1030
4
HOH
HOH
1030
A
HOH
1031
4
HOH
HOH
1031
A
HOH
1032
4
HOH
HOH
1032
A
HOH
1033
4
HOH
HOH
1033
A
HOH
1034
4
HOH
HOH
1034
A
HOH
1035
4
HOH
HOH
1035
A
HOH
1036
4
HOH
HOH
1036
A
HOH
1037
4
HOH
HOH
1037
A
HOH
1038
4
HOH
HOH
1038
A
HOH
1039
4
HOH
HOH
1039
A
HOH
1040
4
HOH
HOH
1040
A
HOH
1041
4
HOH
HOH
1041
A
HOH
1042
4
HOH
HOH
1042
A
HOH
1043
4
HOH
HOH
1043
A
HOH
1044
4
HOH
HOH
1044
A
HOH
1045
4
HOH
HOH
1045
A
HOH
1046
4
HOH
HOH
1046
A
HOH
1047
4
HOH
HOH
1047
A
HOH
1048
4
HOH
HOH
1048
A
HOH
1049
4
HOH
HOH
1049
A
HOH
1050
4
HOH
HOH
1050
A
HOH
1051
4
HOH
HOH
1051
A
HOH
1052
4
HOH
HOH
1052
A
HOH
1053
4
HOH
HOH
1053
A
HOH
1054
4
HOH
HOH
1054
A
HOH
1055
4
HOH
HOH
1055
A
HOH
1056
4
HOH
HOH
1056
A
HOH
1057
4
HOH
HOH
1057
A
HOH
1058
4
HOH
HOH
1058
A
HOH
1059
4
HOH
HOH
1059
A
HOH
1060
4
HOH
HOH
1060
A
HOH
1061
4
HOH
HOH
1061
A
HOH
1062
4
HOH
HOH
1062
A
HOH
1063
4
HOH
HOH
1063
A
HOH
1064
4
HOH
HOH
1064
A
HOH
1065
4
HOH
HOH
1065
A
HOH
1066
4
HOH
HOH
1066
A
HOH
1067
4
HOH
HOH
1067
A
HOH
1068
4
HOH
HOH
1068
A
HOH
1069
4
HOH
HOH
1069
A
HOH
1070
4
HOH
HOH
1070
A
HOH
1071
4
HOH
HOH
1071
A
HOH
1072
4
HOH
HOH
1072
A
HOH
1073
4
HOH
HOH
1073
A
HOH
1074
4
HOH
HOH
1074
A
HOH
1075
4
HOH
HOH
1075
A
HOH
1076
4
HOH
HOH
1076
A
HOH
1077
4
HOH
HOH
1077
A
HOH
1078
4
HOH
HOH
1078
A
HOH
1079
4
HOH
HOH
1079
A
HOH
1080
4
HOH
HOH
1080
A
HOH
1081
4
HOH
HOH
1081
A
HOH
1082
4
HOH
HOH
1082
A
HOH
1083
4
HOH
HOH
1083
A
HOH
1084
4
HOH
HOH
1084
A
HOH
1085
4
HOH
HOH
1085
A
HOH
1086
4
HOH
HOH
1086
A
HOH
1087
4
HOH
HOH
1087
A
HOH
1088
4
HOH
HOH
1088
A
HOH
1089
4
HOH
HOH
1089
A
HOH
1090
4
HOH
HOH
1090
A
HOH
1091
4
HOH
HOH
1091
A
HOH
1092
4
HOH
HOH
1092
A
HOH
1093
4
HOH
HOH
1093
A
HOH
1094
4
HOH
HOH
1094
A
HOH
1095
4
HOH
HOH
1095
A
HOH
1096
4
HOH
HOH
1096
A
HOH
1097
4
HOH
HOH
1097
A
HOH
1098
4
HOH
HOH
1098
A
HOH
1099
4
HOH
HOH
1099
A
HOH
1100
4
HOH
HOH
1100
A
HOH
1101
4
HOH
HOH
1101
A
HOH
1102
4
HOH
HOH
1102
A
HOH
1103
4
HOH
HOH
1103
A
HOH
1104
4
HOH
HOH
1104
A
HOH
1105
4
HOH
HOH
1105
A
HOH
1106
4
HOH
HOH
1106
A
HOH
1107
4
HOH
HOH
1107
A
HOH
1108
4
HOH
HOH
1108
A
HOH
1109
4
HOH
HOH
1109
A
HOH
1110
4
HOH
HOH
1110
A
HOH
1111
4
HOH
HOH
1111
A
HOH
1112
4
HOH
HOH
1112
A
HOH
1113
4
HOH
HOH
1113
A
HOH
1114
4
HOH
HOH
1114
A
HOH
1115
4
HOH
HOH
1115
A
HOH
1116
4
HOH
HOH
1116
A
HOH
1117
4
HOH
HOH
1117
A
HOH
1118
4
HOH
HOH
1118
A
HOH
1119
4
HOH
HOH
1119
A
HOH
1120
4
HOH
HOH
1120
A
HOH
1121
4
HOH
HOH
1121
A
HOH
1122
4
HOH
HOH
1122
A
HOH
1123
4
HOH
HOH
1123
A
HOH
1124
4
HOH
HOH
1124
A
HOH
1125
4
HOH
HOH
1125
A
HOH
1126
4
HOH
HOH
1126
A
HOH
1127
4
HOH
HOH
1127
A
HOH
1128
4
HOH
HOH
1128
A
HOH
1129
4
HOH
HOH
1129
A
HOH
1130
4
HOH
HOH
1130
A
HOH
1131
4
HOH
HOH
1131
A
HOH
1132
4
HOH
HOH
1132
A
HOH
1133
4
HOH
HOH
1133
A
HOH
1134
4
HOH
HOH
1134
A
HOH
1135
4
HOH
HOH
1135
A
HOH
1136
4
HOH
HOH
1136
A
HOH
1137
4
HOH
HOH
1137
A
HOH
1138
4
HOH
HOH
1138
A
HOH
1139
4
HOH
HOH
1139
A
HOH
1140
4
HOH
HOH
1140
A
HOH
1141
4
HOH
HOH
1141
A
HOH
1142
4
HOH
HOH
1142
A
HOH
1143
4
HOH
HOH
1143
A
HOH
1144
4
HOH
HOH
1144
A
HOH
1145
4
HOH
HOH
1145
A
HOH
1146
4
HOH
HOH
1146
A
HOH
1147
4
HOH
HOH
1147
A
HOH
1148
4
HOH
HOH
1148
A
HOH
1149
4
HOH
HOH
1149
A
HOH
1150
4
HOH
HOH
1150
A
HOH
1151
4
HOH
HOH
1151
A
HOH
1152
4
HOH
HOH
1152
A
HOH
1153
4
HOH
HOH
1153
A
HOH
1154
4
HOH
HOH
1154
A
HOH
1155
4
HOH
HOH
1155
A
HOH
1156
4
HOH
HOH
1156
A
HOH
1157
4
HOH
HOH
1157
A
HOH
1158
4
HOH
HOH
1158
A
HOH
1159
4
HOH
HOH
1159
A
HOH
1160
4
HOH
HOH
1160
A
HOH
1161
4
HOH
HOH
1161
A
HOH
1162
4
HOH
HOH
1162
A
HOH
1163
4
HOH
HOH
1163
A
HOH
1164
4
HOH
HOH
1164
A
HOH
1165
4
HOH
HOH
1165
A
HOH
1166
4
HOH
HOH
1166
A
HOH
1167
4
HOH
HOH
1167
A
HOH
1168
4
HOH
HOH
1168
A
HOH
1169
4
HOH
HOH
1169
A
HOH
1170
4
HOH
HOH
1170
A
HOH
1171
4
HOH
HOH
1171
A
HOH
1172
4
HOH
HOH
1172
A
HOH
1173
4
HOH
HOH
1173
A
HOH
1174
4
HOH
HOH
1174
A
HOH
1175
4
HOH
HOH
1175
A
HOH
1176
4
HOH
HOH
1176
A
HOH
1177
4
HOH
HOH
1177
A
HOH
1178
4
HOH
HOH
1178
A
HOH
1179
4
HOH
HOH
1179
A
HOH
1180
4
HOH
HOH
1180
A
HOH
1181
4
HOH
HOH
1181
A
HOH
1182
4
HOH
HOH
1182
A
HOH
1183
4
HOH
HOH
1183
A
HOH
1184
4
HOH
HOH
1184
A
HOH
1185
4
HOH
HOH
1185
A
HOH
1186
4
HOH
HOH
1186
A
HOH
1187
4
HOH
HOH
1187
A
HOH
1188
4
HOH
HOH
1188
A
HOH
1189
4
HOH
HOH
1189
A
HOH
1190
4
HOH
HOH
1190
A
HOH
1191
4
HOH
HOH
1191
A
HOH
1192
4
HOH
HOH
1192
A
HOH
1193
4
HOH
HOH
1193
A
HOH
1194
4
HOH
HOH
1194
A
HOH
1195
4
HOH
HOH
1195
A
HOH
1196
4
HOH
HOH
1196
A
HOH
1197
4
HOH
HOH
1197
A
HOH
1198
4
HOH
HOH
1198
A
HOH
1199
4
HOH
HOH
1199
A
HOH
1200
4
HOH
HOH
1200
A
HOH
1201
4
HOH
HOH
1201
A
HOH
1202
4
HOH
HOH
1202
A
HOH
1203
4
HOH
HOH
1203
A
HOH
1204
4
HOH
HOH
1204
A
HOH
1205
4
HOH
HOH
1205
A
HOH
1206
4
HOH
HOH
1206
A
HOH
1207
4
HOH
HOH
1207
A
HOH
1208
4
HOH
HOH
1208
A
HOH
1209
4
HOH
HOH
1209
A
HOH
1210
4
HOH
HOH
1210
A
HOH
1211
4
HOH
HOH
1211
A
HOH
1212
4
HOH
HOH
1212
A
HOH
1213
4
HOH
HOH
1213
A
HOH
1214
4
HOH
HOH
1214
A
HOH
1215
4
HOH
HOH
1215
A
HOH
1216
4
HOH
HOH
1216
A
HOH
1217
4
HOH
HOH
1217
A
HOH
1218
4
HOH
HOH
1218
A
HOH
1219
4
HOH
HOH
1219
A
HOH
1220
4
HOH
HOH
1220
A
HOH
1221
4
HOH
HOH
1221
A
HOH
1222
4
HOH
HOH
1222
A
HOH
1223
4
HOH
HOH
1223
A
HOH
1224
4
HOH
HOH
1224
A
HOH
1225
4
HOH
HOH
1225
A
HOH
1226
4
HOH
HOH
1226
A
HOH
1227
4
HOH
HOH
1227
A
HOH
1228
4
HOH
HOH
1228
A
HOH
1229
4
HOH
HOH
1229
A
HOH
1230
4
HOH
HOH
1230
A
HOH
1231
4
HOH
HOH
1231
A
HOH
1232
4
HOH
HOH
1232
A
HOH
1233
4
HOH
HOH
1233
A
HOH
1234
4
HOH
HOH
1234
A
HOH
1235
4
HOH
HOH
1235
A
HOH
1236
4
HOH
HOH
1236
A
HOH
1237
4
HOH
HOH
1237
A
HOH
1238
4
HOH
HOH
1238
A
HOH
1239
4
HOH
HOH
1239
A
HOH
1240
4
HOH
HOH
1240
A
HOH
1241
4
HOH
HOH
1241
A
HOH
1242
4
HOH
HOH
1242
A
HOH
1243
4
HOH
HOH
1243
A
HOH
1244
4
HOH
HOH
1244
A
HOH
1245
4
HOH
HOH
1245
A
HOH
1246
4
HOH
HOH
1246
A
HOH
1247
4
HOH
HOH
1247
A
HOH
1248
4
HOH
HOH
1248
A
HOH
1249
4
HOH
HOH
1249
A
HOH
1250
4
HOH
HOH
1250
A
HOH
1251
4
HOH
HOH
1251
A
HOH
1252
4
HOH
HOH
1252
A
HOH
1253
4
HOH
HOH
1253
A
HOH
1254
4
HOH
HOH
1254
A
HOH
1255
4
HOH
HOH
1255
A
HOH
1256
4
HOH
HOH
1256
A
MET
1
n
1
MET
1
A
GLU
2
n
2
GLU
2
A
ILE
3
n
3
ILE
3
A
VAL
4
n
4
VAL
4
A
GLU
5
n
5
GLU
5
A
TYR
6
n
6
TYR
6
A
PRO
7
n
7
PRO
7
A
ASP
8
n
8
ASP
8
A
PRO
9
n
9
PRO
9
A
ILE
10
n
10
ILE
10
A
LEU
11
n
11
LEU
11
A
ARG
12
n
12
ARG
12
A
ALA
13
n
13
ALA
13
A
LYS
14
n
14
LYS
14
A
ASN
15
n
15
ASN
15
A
LYS
16
n
16
LYS
16
A
ARG
17
n
17
ARG
17
A
ILE
18
n
18
ILE
18
A
ASP
19
n
19
ASP
19
A
ILE
20
n
20
ILE
20
A
PHE
21
n
21
PHE
21
A
ASP
22
n
22
ASP
22
A
GLU
23
n
23
GLU
23
A
ASN
24
n
24
ASN
24
A
LEU
25
n
25
LEU
25
A
LYS
26
n
26
LYS
26
A
ASN
27
n
27
ASN
27
A
LEU
28
n
28
LEU
28
A
VAL
29
n
29
VAL
29
A
ASP
30
n
30
ASP
30
A
ALA
31
n
31
ALA
31
A
MET
32
n
32
MET
32
A
PHE
33
n
33
PHE
33
A
ASP
34
n
34
ASP
34
A
VAL
35
n
35
VAL
35
A
MET
36
n
36
MET
36
A
TYR
37
n
37
TYR
37
A
LYS
38
n
38
LYS
38
A
THR
39
n
39
THR
39
A
ASP
40
n
40
ASP
40
A
GLY
41
n
41
GLY
41
A
ILE
42
n
42
ILE
42
A
GLY
43
n
43
GLY
43
A
LEU
44
n
44
LEU
44
A
SER
45
n
45
SER
45
A
ALA
46
n
46
ALA
46
A
PRO
47
n
47
PRO
47
A
GLN
48
n
48
GLN
48
A
VAL
49
n
49
VAL
49
A
GLY
50
n
50
GLY
50
A
LEU
51
n
51
LEU
51
A
ASN
52
n
52
ASN
52
A
VAL
53
n
53
VAL
53
A
GLN
54
n
54
GLN
54
A
LEU
55
n
55
LEU
55
A
MET
56
n
56
MET
56
A
VAL
57
n
57
VAL
57
A
PHE
58
n
58
PHE
58
A
ASN
59
n
59
ASN
59
A
PRO
60
n
60
PRO
60
A
ALA
61
n
61
ALA
61
A
GLY
62
n
62
GLY
62
A
GLU
63
n
63
GLU
63
A
PRO
64
n
64
PRO
64
A
GLY
65
n
65
GLY
65
A
GLU
66
n
66
GLU
66
A
GLY
67
n
67
GLY
67
A
LYS
68
n
68
LYS
68
A
GLU
69
n
69
GLU
69
A
ILE
70
n
70
ILE
70
A
VAL
71
n
71
VAL
71
A
LEU
72
n
72
LEU
72
A
VAL
73
n
73
VAL
73
A
ASN
74
n
74
ASN
74
A
PRO
75
n
75
PRO
75
A
LYS
76
n
76
LYS
76
A
ILE
77
n
77
ILE
77
A
LYS
78
n
78
LYS
78
A
LYS
79
n
79
LYS
79
A
TYR
80
n
80
TYR
80
A
SER
81
n
81
SER
81
A
ASP
82
n
82
ASP
82
A
LYS
83
n
83
LYS
83
A
LEU
84
n
84
LEU
84
A
VAL
85
n
85
VAL
85
A
PRO
86
n
86
PRO
86
A
PHE
87
n
87
PHE
87
A
ASP
88
n
88
ASP
88
A
GLU
89
n
89
GLU
89
A
GLY
90
n
90
GLY
90
A
CYS
91
n
91
CYS
91
A
LEU
92
n
92
LEU
92
A
SER
93
n
93
SER
93
A
PHE
94
n
94
PHE
94
A
PRO
95
n
95
PRO
95
A
GLY
96
n
96
GLY
96
A
ILE
97
n
97
ILE
97
A
TYR
98
n
98
TYR
98
A
ALA
99
n
99
ALA
99
A
GLU
100
n
100
GLU
100
A
VAL
101
n
101
VAL
101
A
VAL
102
n
102
VAL
102
A
ARG
103
n
103
ARG
103
A
PRO
104
n
104
PRO
104
A
GLN
105
n
105
GLN
105
A
SER
106
n
106
SER
106
A
VAL
107
n
107
VAL
107
A
LYS
108
n
108
LYS
108
A
ILE
109
n
109
ILE
109
A
ASP
110
n
110
ASP
110
A
ALA
111
n
111
ALA
111
A
ARG
112
n
112
ARG
112
A
ASP
113
n
113
ASP
113
A
ILE
114
n
114
ILE
114
A
THR
115
n
115
THR
115
A
GLY
116
n
116
GLY
116
A
GLU
117
n
117
GLU
117
A
ARG
118
n
118
ARG
118
A
PHE
119
n
119
PHE
119
A
SER
120
n
120
SER
120
A
ILE
121
n
121
ILE
121
A
SER
122
n
122
SER
122
A
LEU
123
n
123
LEU
123
A
SER
124
n
124
SER
124
A
ARG
125
n
125
ARG
125
A
LEU
126
n
126
LEU
126
A
PRO
127
n
127
PRO
127
A
ALA
128
n
128
ALA
128
A
ARG
129
n
129
ARG
129
A
ILE
130
n
130
ILE
130
A
PHE
131
n
131
PHE
131
A
GLN
132
n
132
GLN
132
A
HIS
133
n
133
HIS
133
A
GLU
134
n
134
GLU
134
A
TYR
135
n
135
TYR
135
A
ASP
136
n
136
ASP
136
A
HIS
137
n
137
HIS
137
A
LEU
138
n
138
LEU
138
A
GLU
139
n
139
GLU
139
A
GLY
140
n
140
GLY
140
A
VAL
141
n
141
VAL
141
A
LEU
142
n
142
LEU
142
A
PHE
143
n
143
PHE
143
A
PHE
144
n
144
PHE
144
A
ASP
145
n
145
ASP
145
A
ARG
146
n
146
ARG
146
A
MET
147
n
147
MET
147
A
THR
148
n
148
THR
148
A
ASP
149
n
149
ASP
149
A
GLN
150
n
150
GLN
150
A
VAL
151
n
151
VAL
151
A
LEU
152
n
152
LEU
152
A
ASP
153
n
153
ASP
153
A
SER
154
n
154
SER
154
A
ILE
155
n
155
ILE
155
A
ARG
156
n
156
ARG
156
A
GLU
157
n
157
GLU
157
A
GLU
158
n
158
GLU
158
A
LEU
159
n
159
LEU
159
A
GLU
160
n
160
GLU
160
A
ALA
161
n
161
ALA
161
A
LEU
162
n
162
LEU
162
A
GLU
163
n
163
GLU
163
A
LYS
164
n
164
LYS
164
A
LYS
165
n
165
LYS
165
A
TYR
166
n
166
TYR
166
A
GLU
167
n
167
GLU
167
A
GLU
168
n
168
GLU
168
A
LYS
169
n
169
LYS
169
A
THR
170
n
170
THR
170
A
GLY
171
n
171
GLY
171
A
LEU
172
n
172
LEU
172
A
PRO
173
n
173
PRO
173
A
SER
174
n
174
SER
174
A
PRO
175
n
175
PRO
175
A
GLU
176
n
176
GLU
176
A
ARG
177
n
177
ARG
177
A
VAL
178
n
178
VAL
178
A
GLU
179
n
179
GLU
179
A
ALA
180
n
180
ALA
180
A
ARG
181
n
181
ARG
181
A
n
182
182
A
n
183
183
A
n
184
184
A
n
185
185
A
n
186
186
A
n
187
187
A
n
188
188
A
n
189
189
A
n
190
190
A
n
191
191
A
n
192
192
A
n
193
193
A
1.4717
0.0958
0.0408
2.1587
-1.1005
3.5764
-0.0530
-0.0154
0.0670
-0.0535
0.0742
0.0844
-0.0568
-0.3950
-0.0211
-0.1514
0.0160
-0.0250
-0.0718
-0.0139
-0.1037
refined
-0.6212
16.2822
59.9533
X-RAY DIFFRACTION
A
1
A
181
X-RAY DIFFRACTION
1
author_defined_assembly
1
monomeric
software_defined_assembly
PISA
2
dimeric
3860
-310
16910
A
MET
1
A
N
MET
1
1_555
A
ZN
1004
F
ZN
ZN
1_555
A
MET
1
A
O
MET
1
1_555
76.4
A
ASP
30
A
OD2
ASP
30
1_555
A
ZN
1005
G
ZN
ZN
1_555
A
ASP
30
A
OD1
ASP
30
1_555
54.7
A
ASP
30
A
OD2
ASP
30
1_555
A
ZN
1005
G
ZN
ZN
1_555
A
ASP
34
A
OD2
ASP
34
1_555
108.4
A
ASP
30
A
OD1
ASP
30
1_555
A
ZN
1005
G
ZN
ZN
1_555
A
ASP
34
A
OD2
ASP
34
1_555
89.8
A
ASP
40
A
OD2
ASP
40
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1075
H
O
HOH
1_555
162.4
A
ASP
40
A
OD2
ASP
40
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1172
H
O
HOH
1_555
89.3
A
HOH
1075
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1172
H
O
HOH
1_555
83.5
A
ASP
40
A
OD2
ASP
40
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1212
H
O
HOH
1_555
96.6
A
HOH
1075
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1212
H
O
HOH
1_555
69.2
A
HOH
1172
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1212
H
O
HOH
1_555
100.2
A
ASP
40
A
OD2
ASP
40
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1213
H
O
HOH
1_555
86.0
A
HOH
1075
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1213
H
O
HOH
1_555
101.7
A
HOH
1172
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1213
H
O
HOH
1_555
174.8
A
HOH
1212
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1213
H
O
HOH
1_555
82.4
A
ASP
40
A
OD2
ASP
40
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1226
H
O
HOH
1_555
89.1
A
HOH
1075
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1226
H
O
HOH
1_555
107.0
A
HOH
1172
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1226
H
O
HOH
1_555
90.9
A
HOH
1212
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1226
H
O
HOH
1_555
167.6
A
HOH
1213
H
O
HOH
1_555
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1226
H
O
HOH
1_555
87.0
A
CYS
91
A
SG
CYS
91
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
HIS
133
A
NE2
HIS
133
1_555
114.1
A
CYS
91
A
SG
CYS
91
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
HIS
137
A
NE2
HIS
137
1_555
99.2
A
HIS
133
A
NE2
HIS
133
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
HIS
137
A
NE2
HIS
137
1_555
106.0
A
CYS
91
A
SG
CYS
91
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O4
BB2
1_555
94.3
A
HIS
133
A
NE2
HIS
133
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O4
BB2
1_555
105.5
A
HIS
137
A
NE2
HIS
137
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O4
BB2
1_555
136.7
A
CYS
91
A
SG
CYS
91
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O2
BB2
1_555
151.2
A
HIS
133
A
NE2
HIS
133
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O2
BB2
1_555
93.5
A
HIS
137
A
NE2
HIS
137
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O2
BB2
1_555
79.6
A
BB2
501
B
O4
BB2
1_555
A
ZN
1001
C
ZN
ZN
1_555
A
BB2
501
B
O2
BB2
1_555
69.5
A
GLU
160
A
OE2
GLU
160
1_555
A
ZN
1003
E
ZN
ZN
1_555
A
HOH
1244
H
O
HOH
1_555
107.6
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
0.0000000000
1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
7_556
y,x,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
146.1100000000
A
N
LEU
44
A
N
LEU
44
A
O
VAL
57
A
O
VAL
57
A
N
PHE
58
A
N
PHE
58
A
O
ILE
70
A
O
ILE
70
A
N
LYS
76
A
N
LYS
76
A
O
ASP
110
A
O
ASP
110
A
N
VAL
107
A
N
VAL
107
A
O
LEU
123
A
O
LEU
123
A
N
GLU
89
A
N
GLU
89
A
O
ALA
99
A
O
ALA
99
1
A
CG
LYS
14
A
CG
LYS
14
1
Y
1
A
CD
LYS
14
A
CD
LYS
14
1
Y
1
A
CE
LYS
14
A
CE
LYS
14
1
Y
1
A
NZ
LYS
14
A
NZ
LYS
14
1
Y
1
A
CG
LYS
26
A
CG
LYS
26
1
Y
1
A
CD
LYS
26
A
CD
LYS
26
1
Y
1
A
CE
LYS
26
A
CE
LYS
26
1
Y
1
A
NZ
LYS
26
A
NZ
LYS
26
1
Y
1
A
CG
LYS
76
A
CG
LYS
76
1
Y
1
A
CD
LYS
76
A
CD
LYS
76
1
Y
1
A
CE
LYS
76
A
CE
LYS
76
1
Y
1
A
NZ
LYS
76
A
NZ
LYS
76
1
Y
1
A
CG
LYS
79
A
CG
LYS
79
1
Y
1
A
CD
LYS
79
A
CD
LYS
79
1
Y
1
A
CE
LYS
79
A
CE
LYS
79
1
Y
1
A
NZ
LYS
79
A
NZ
LYS
79
1
Y
1
A
CG
LYS
108
A
CG
LYS
108
1
Y
1
A
CD
LYS
108
A
CD
LYS
108
1
Y
1
A
CE
LYS
108
A
CE
LYS
108
1
Y
1
A
NZ
LYS
108
A
NZ
LYS
108
1
Y
1
A
CG
GLU
117
A
CG
GLU
117
1
Y
1
A
CD
GLU
117
A
CD
GLU
117
1
Y
1
A
OE1
GLU
117
A
OE1
GLU
117
1
Y
1
A
OE2
GLU
117
A
OE2
GLU
117
1
Y
1
A
CG
ARG
118
A
CG
ARG
118
1
Y
1
A
CD
ARG
118
A
CD
ARG
118
1
Y
1
A
NE
ARG
118
A
NE
ARG
118
1
Y
1
A
CZ
ARG
118
A
CZ
ARG
118
1
Y
1
A
NH1
ARG
118
A
NH1
ARG
118
1
Y
1
A
NH2
ARG
118
A
NH2
ARG
118
1
Y
1
A
CG
ARG
125
A
CG
ARG
125
1
Y
1
A
CD
ARG
125
A
CD
ARG
125
1
Y
1
A
NE
ARG
125
A
NE
ARG
125
1
Y
1
A
CZ
ARG
125
A
CZ
ARG
125
1
Y
1
A
NH1
ARG
125
A
NH1
ARG
125
1
Y
1
A
NH2
ARG
125
A
NH2
ARG
125
1
Y
1
A
CG
GLN
150
A
CG
GLN
150
1
Y
1
A
CD
GLN
150
A
CD
GLN
150
1
Y
1
A
OE1
GLN
150
A
OE1
GLN
150
1
Y
1
A
NE2
GLN
150
A
NE2
GLN
150
1
Y
1
A
CG
LYS
169
A
CG
LYS
169
1
Y
1
A
CD
LYS
169
A
CD
LYS
169
1
Y
1
A
CE
LYS
169
A
CE
LYS
169
1
Y
1
A
NZ
LYS
169
A
NZ
LYS
169
1
Y
1
A
CG
ARG
181
A
CG
ARG
181
1
Y
1
A
CD
ARG
181
A
CD
ARG
181
1
Y
1
A
NE
ARG
181
A
NE
ARG
181
1
Y
1
A
CZ
ARG
181
A
CZ
ARG
181
1
Y
1
A
NH1
ARG
181
A
NH1
ARG
181
1
Y
1
A
NH2
ARG
181
A
NH2
ARG
181
1
Y
1
A
GLN
182
A
GLN
182
1
Y
1
A
LYS
183
A
LYS
183
1
Y
1
A
ARG
184
A
ARG
184
1
Y
1
A
LYS
185
A
LYS
185
1
Y
1
A
ALA
186
A
ALA
186
1
Y
1
A
GLY
187
A
GLY
187
1
Y
1
A
VAL
188
A
VAL
188
1
Y
1
A
GLY
189
A
GLY
189
1
Y
1
A
PHE
190
A
PHE
190
1
Y
1
A
GLY
191
A
GLY
191
1
Y
1
A
LYS
192
A
LYS
192
1
Y
1
A
ARG
193
A
ARG
193
1
Y
1
A
A
OE1
ZN
GLU
ZN
179
1003
1.65
1
A
A
O
O
HOH
HOH
1077
1246
2.00
1
A
A
O
O
HOH
HOH
1171
1212
2.02
1
A
A
O
O
HOH
HOH
1127
1128
2.06
1
A
A
O
O
HOH
HOH
1089
1177
2.08
1
A
A
O
O
HOH
HOH
1120
1171
2.18
1
A
A
O
O
HOH
HOH
1065
1189
2.19
1
A
A
O
O
HOH
HOH
1250
1251
2.19
1
-6.65
0.90
118.30
111.65
A
A
A
CB
CG
OD1
ASP
ASP
ASP
34
34
34
N
1
5.42
0.90
118.30
123.72
A
A
A
CB
CG
OD2
ASP
ASP
ASP
34
34
34
N
1
A
A
CB
OG
SER
SER
81
81
0.104
0.013
1.418
1.522
N
1
A
A
O
O
HOH
HOH
1074
1077
2.12
1_555
7_556
1
A
ARG
125
47.47
-136.27
18.274
0.57
0.00
0.00
0.57
0.00
-1.14
0.950
0.940
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.20988
0.18184
0.18322
1.90
40.00
974
18505
5.0
100.00
6.135
0.083
RANDOM
1
THROUGHOUT
0.122
0.80
0.80
1.20
PDB ENTRY 3PN2
MAXIMUM LIKELIHOOD
MASK
1.90
40.00
251
1684
32
0
1401
0.015
0.022
1456
1.387
2.001
1976
5.582
5.000
180
38.048
25.075
67
13.380
15.000
237
18.649
15.000
8
0.096
0.200
223
0.006
0.020
1115
0.217
0.200
737
0.306
0.200
1018
0.224
0.200
171
0.196
0.200
5
0.186
0.200
43
0.227
0.200
11
0.221
0.200
1
0.785
1.500
942
1.157
2.000
1460
2.130
3.000
583
3.224
4.500
516
0.232
0.209
1.950
70
1336
20
100.00
1.9
50.0
3PN4
18505
2.0
2.0
0.059
1
18.95
4.4
99.7
1.90
2.02
4.14
0.335
1
4.4
99.8
data collection
ADSC
Quantum
refinement
REFMAC
5.2.0019
data reduction
XDS
data scaling
XDS
phasing
REFMAC
5.2.0019
Crystal structure of Arabidopsis thaliana petide deformylase 1B (AtPDF1B) in complex with actinonin (crystallized in PEG-550-MME)
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
4
N
N
A
ASP
8
A
ASP
8
HELX_P
A
ARG
12
A
ARG
12
5
1
5
A
ASP
22
A
ASP
22
HELX_P
A
THR
39
A
THR
39
1
2
18
A
PRO
47
A
PRO
47
HELX_P
A
GLY
50
A
GLY
50
5
3
4
A
SER
124
A
SER
124
HELX_P
A
GLU
139
A
GLU
139
1
4
16
A
LEU
142
A
LEU
142
HELX_P
A
MET
147
A
MET
147
5
5
6
A
THR
148
A
THR
148
HELX_P
A
GLY
171
A
GLY
171
1
6
24
A
ARG
177
A
ARG
177
HELX_P
A
ARG
181
A
ARG
181
5
7
5
metalc
1.920
A
MET
1
A
N
MET
1
1_555
A
ZN
1004
F
ZN
ZN
1_555
metalc
2.202
A
MET
1
A
O
MET
1
1_555
A
ZN
1004
F
ZN
ZN
1_555
metalc
2.153
A
ASP
30
A
OD2
ASP
30
1_555
A
ZN
1005
G
ZN
ZN
1_555
metalc
2.540
A
ASP
30
A
OD1
ASP
30
1_555
A
ZN
1005
G
ZN
ZN
1_555
metalc
1.954
A
ASP
34
A
OD2
ASP
34
1_555
A
ZN
1005
G
ZN
ZN
1_555
metalc
2.092
A
ASP
40
A
OD2
ASP
40
1_555
A
ZN
1002
D
ZN
ZN
1_555
metalc
2.313
A
CYS
91
A
SG
CYS
91
1_555
A
ZN
1001
C
ZN
ZN
1_555
metalc
2.103
A
HIS
133
A
NE2
HIS
133
1_555
A
ZN
1001
C
ZN
ZN
1_555
metalc
2.162
A
HIS
137
A
NE2
HIS
137
1_555
A
ZN
1001
C
ZN
ZN
1_555
metalc
1.907
A
GLU
160
A
OE2
GLU
160
1_555
A
ZN
1003
E
ZN
ZN
1_555
metalc
2.164
A
BB2
501
B
O4
BB2
1_555
A
ZN
1001
C
ZN
ZN
1_555
metalc
2.362
A
BB2
501
B
O2
BB2
1_555
A
ZN
1001
C
ZN
ZN
1_555
metalc
2.033
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1075
H
O
HOH
1_555
metalc
2.285
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1172
H
O
HOH
1_555
metalc
1.895
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1212
H
O
HOH
1_555
metalc
2.113
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1213
H
O
HOH
1_555
metalc
2.571
A
ZN
1002
D
ZN
ZN
1_555
A
HOH
1226
H
O
HOH
1_555
metalc
2.035
A
ZN
1003
E
ZN
ZN
1_555
A
HOH
1244
H
O
HOH
1_555
HYDROLASE/ANTIBIOTIC
peptide deformylase, 1B, PDF, N-terminal excision pathway, NME, induced-fit, HYDROLASE-ANTIBIOTIC complex
A
TYR
6
A
TYR
6
1
A
PRO
7
A
PRO
7
1.82
DEF1B_ARATH
UNP
1
83
Q9FUZ2
IVEYPDPILRAKNKRIDIFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSD
KLVPFDEGCLSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQVLDSIREELEAL
EKKYEEKTGLPSPERVEARQKRKAGVGFGKR
83
273
3PN4
3
193
Q9FUZ2
A
1
3
193
1
expression tag
MET
1
3PN4
A
Q9FUZ2
UNP
1
1
expression tag
GLU
2
3PN4
A
Q9FUZ2
UNP
2
5
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
GLY
43
A
GLY
43
A
SER
45
A
SER
45
A
LEU
55
A
LEU
55
A
PHE
58
A
PHE
58
A
ILE
70
A
ILE
70
A
TYR
80
A
TYR
80
A
VAL
107
A
VAL
107
A
ARG
112
A
ARG
112
A
ARG
118
A
ARG
118
A
LEU
123
A
LEU
123
A
LEU
84
A
LEU
84
A
CYS
91
A
CYS
91
A
PHE
94
A
PHE
94
A
PRO
104
A
PRO
104
BINDING SITE FOR RESIDUE BB2 A 501
A
BB2
501
Software
16
BINDING SITE FOR RESIDUE ZN A 1001
A
ZN
1001
Software
5
BINDING SITE FOR RESIDUE ZN A 1002
A
ZN
1002
Software
8
BINDING SITE FOR RESIDUE ZN A 1003
A
ZN
1003
Software
5
BINDING SITE FOR RESIDUE ZN A 1004
A
ZN
1004
Software
6
BINDING SITE FOR RESIDUE ZN A 1005
A
ZN
1005
Software
3
A
GLY
41
A
GLY
41
16
1_555
A
ILE
42
A
ILE
42
16
1_555
A
GLY
43
A
GLY
43
16
1_555
A
GLN
48
A
GLN
48
16
1_555
A
PHE
87
A
PHE
87
16
1_555
A
ASP
88
A
ASP
88
16
1_555
A
GLY
90
A
GLY
90
16
1_555
A
CYS
91
A
CYS
91
16
1_555
A
LEU
92
A
LEU
92
16
1_555
A
TYR
98
A
TYR
98
16
1_555
A
ARG
129
A
ARG
129
16
1_555
A
HIS
133
A
HIS
133
16
1_555
A
GLU
134
A
GLU
134
16
1_555
A
HIS
137
A
HIS
137
16
1_555
A
ZN
1001
C
ZN
16
1_555
A
HOH
1135
H
HOH
16
1_555
A
GLN
48
A
GLN
48
5
1_555
A
CYS
91
A
CYS
91
5
1_555
A
HIS
133
A
HIS
133
5
1_555
A
HIS
137
A
HIS
137
5
1_555
A
BB2
501
B
BB2
5
1_555
A
ASP
40
A
ASP
40
8
1_555
A
GLU
63
A
GLU
63
8
1_555
A
HOH
1075
H
HOH
8
1_555
A
HOH
1171
H
HOH
8
1_555
A
HOH
1172
H
HOH
8
1_555
A
HOH
1212
H
HOH
8
1_555
A
HOH
1213
H
HOH
8
1_555
A
HOH
1226
H
HOH
8
1_555
A
GLU
66
A
GLU
66
5
3_554
A
GLU
160
A
GLU
160
5
1_555
A
GLU
179
A
GLU
179
5
1_555
A
ZN
1004
F
ZN
5
5_555
A
HOH
1244
H
HOH
5
1_555
A
MET
1
A
MET
1
6
1_555
A
GLU
66
A
GLU
66
6
7_556
A
GLU
157
A
GLU
157
6
5_545
A
GLU
160
A
GLU
160
6
5_545
A
ZN
1003
E
ZN
6
5_545
A
HOH
1244
H
HOH
6
5_545
A
ASP
30
A
ASP
30
3
1_555
A
ASP
34
A
ASP
34
3
1_555
A
GLU
69
A
GLU
69
3
7_556
96
P 43 21 2