0.020044
0.000000
0.000000
0.000000
0.020044
0.000000
0.000000
0.000000
0.010921
0.00000
0.00000
0.00000
Smith, K.J.
Petit, C.M.
Aubart, K.
Smyth, M.
McManus, E.
Jones, J.
Fosberry, A.
Lewis, C.
Lonetto, M.
Christensen, S.B.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
49.889
49.889
91.565
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 S
149.211
y
METHIONINE
L-peptide linking
Ni 2
58.693
NICKEL (II) ION
non-polymer
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C10 H15 N O2
181.232
[HYDROXY(3-PHENYLPROPYL)AMINO]METHANOL
SB-485345
non-polymer
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
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
N
N
89
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
O
N
96
N
N
N
97
N
O
N
98
N
H
N
99
N
H
N
100
N
H
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
N
N
109
S
C
N
110
N
C
N
111
N
O
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
O
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
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
N
N
138
S
C
N
139
N
C
N
140
N
O
N
141
N
C
Y
142
N
C
Y
143
N
N
Y
144
N
C
Y
145
N
C
Y
146
N
N
N
147
N
O
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
O
N
159
N
H
N
160
N
H
N
161
N
N
N
162
S
C
N
163
N
C
N
164
N
O
N
165
S
C
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
N
N
184
S
C
N
185
N
C
N
186
N
O
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
O
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
N
N
214
N
O
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
S
N
237
N
C
N
238
N
O
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
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
NI
N
251
N
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
Y
261
N
C
N
262
N
O
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
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
N
N
275
S
C
N
276
N
C
N
277
N
O
N
278
N
C
N
279
N
C
N
280
N
C
N
281
N
O
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
Y
291
N
C
Y
292
N
C
Y
293
N
C
Y
294
N
C
Y
295
N
C
Y
296
N
C
N
297
N
C
N
298
N
C
N
299
N
C
N
300
N
N
N
301
N
O
N
302
N
C
N
303
N
O
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
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
N
N
320
S
C
N
321
N
C
N
322
N
O
N
323
N
C
N
324
N
O
N
325
N
O
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
S
N
334
N
O
N
335
N
O
N
336
N
O
N
337
N
O
N
338
N
N
N
339
S
C
N
340
N
C
N
341
N
O
N
342
R
C
N
343
N
O
N
344
N
C
N
345
N
O
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
H
N
353
N
H
N
354
N
H
N
355
N
N
N
356
S
C
N
357
N
C
N
358
N
O
N
359
N
C
Y
360
N
C
Y
361
N
C
Y
362
N
C
Y
363
N
C
Y
364
N
C
Y
365
N
C
N
366
N
O
N
367
N
O
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
N
N
380
S
C
N
381
N
C
N
382
N
O
N
383
N
C
N
384
N
C
N
385
N
C
N
386
N
O
N
387
N
H
N
388
N
H
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
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
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
doub
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
doub
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
doub
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
doub
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
doub
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
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
Y
140
N
sing
Y
141
N
doub
Y
142
N
doub
N
143
N
sing
Y
144
N
sing
N
145
N
sing
Y
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
doub
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
sing
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
doub
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
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
doub
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
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
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
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
sing
N
242
N
sing
N
243
N
doub
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
Y
248
N
doub
Y
249
N
sing
Y
250
N
sing
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
254
N
doub
N
255
N
sing
Y
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
doub
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
Y
277
N
doub
Y
278
N
sing
N
279
N
sing
Y
280
N
sing
N
281
N
sing
Y
282
N
doub
N
283
N
sing
Y
284
N
sing
N
285
N
sing
Y
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
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
doub
N
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
doub
N
319
N
doub
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
doub
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
Y
349
N
doub
Y
350
N
sing
Y
351
N
sing
N
352
N
sing
Y
353
N
doub
N
354
N
sing
Y
355
N
doub
N
356
N
sing
Y
357
N
sing
N
358
N
sing
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
doub
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
US
Protein Sci.
PRCIEI
0795
0961-8368
12
349
360
10.1110/ps.0229303
12538898
Structural Variation and inhibitor binding in polypeptide deformylase from four different bacterial species
2003
10.2210/pdb2ai7/pdb
pdb_00002ai7
1
MAD
M
x-ray
1
1.0
22682.037
Peptide deformylase
3.5.1.88
1
man
polymer
58.693
NICKEL (II) ION
1
syn
non-polymer
96.063
SULFATE ION
1
syn
non-polymer
181.232
[HYDROXY(3-PHENYLPROPYL)AMINO]METHANOL
1
syn
non-polymer
18.015
water
137
nat
water
PDF, Polypeptide deformylase
no
no
MSAIERISKAAHLIDMCDIIREGNPSLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQDPVMAEKMGLRGGVGLAAPQLDI
SKRIIAVLVPNIVEEGETPQEAYDLEAIMYNPKIVSHSVQDAALGEGEGCLSVDRNVPGYVVRHARVTVDYFDKDGEKHR
IKLKGYNSIVVQHEIDHINGIMFYDRINEKDPFAVKDGLLILE
MSAIERISKAAHLIDMCDIIREGNPSLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQDPVMAEKMGLRGGVGLAAPQLDI
SKRIIAVLVPNIVEEGETPQEAYDLEAIMYNPKIVSHSVQDAALGEGEGCLSVDRNVPGYVVRHARVTVDYFDKDGEKHR
IKLKGYNSIVVQHEIDHINGIMFYDRINEKDPFAVKDGLLILE
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
Streptococcus
ATCC BAA-255 R6
Escherichia
sample
def
1313
Streptococcus pneumoniae
562
Escherichia coli
1
3.1
60.6
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2005-09-06
1
1
2008-04-30
1
2
2011-07-13
1
3
2024-02-14
_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.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_conn.ptnr2_label_seq_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
2005-07-29
REL
REL
NI
NICKEL (II) ION
SO4
SULFATE ION
SB7
[HYDROXY(3-PHENYLPROPYL)AMINO]METHANOL
HOH
water
NI
301
2
NI
NI
301
A
SO4
3001
3
SO4
SO4
3001
A
SB7
300
4
SB7
SB7
300
A
TIP
1
5
HOH
HOH
3002
A
TIP
2
5
HOH
HOH
3003
A
TIP
3
5
HOH
HOH
3004
A
TIP
4
5
HOH
HOH
3005
A
TIP
5
5
HOH
HOH
3006
A
TIP
6
5
HOH
HOH
3007
A
TIP
7
5
HOH
HOH
3008
A
TIP
8
5
HOH
HOH
3009
A
TIP
9
5
HOH
HOH
3010
A
TIP
10
5
HOH
HOH
3011
A
TIP
11
5
HOH
HOH
3012
A
TIP
12
5
HOH
HOH
3013
A
TIP
13
5
HOH
HOH
3014
A
TIP
14
5
HOH
HOH
3015
A
TIP
15
5
HOH
HOH
3016
A
TIP
16
5
HOH
HOH
3017
A
TIP
17
5
HOH
HOH
3018
A
TIP
18
5
HOH
HOH
3019
A
TIP
19
5
HOH
HOH
3020
A
TIP
20
5
HOH
HOH
3021
A
TIP
21
5
HOH
HOH
3022
A
TIP
22
5
HOH
HOH
3023
A
TIP
23
5
HOH
HOH
3024
A
TIP
24
5
HOH
HOH
3025
A
TIP
25
5
HOH
HOH
3026
A
TIP
26
5
HOH
HOH
3027
A
TIP
27
5
HOH
HOH
3028
A
TIP
28
5
HOH
HOH
3029
A
TIP
29
5
HOH
HOH
3030
A
TIP
30
5
HOH
HOH
3031
A
TIP
31
5
HOH
HOH
3032
A
TIP
32
5
HOH
HOH
3033
A
TIP
33
5
HOH
HOH
3034
A
TIP
34
5
HOH
HOH
3035
A
TIP
35
5
HOH
HOH
3036
A
TIP
36
5
HOH
HOH
3037
A
TIP
37
5
HOH
HOH
3038
A
TIP
38
5
HOH
HOH
3039
A
TIP
39
5
HOH
HOH
3040
A
TIP
40
5
HOH
HOH
3041
A
TIP
41
5
HOH
HOH
3042
A
TIP
42
5
HOH
HOH
3043
A
TIP
43
5
HOH
HOH
3044
A
TIP
44
5
HOH
HOH
3045
A
TIP
45
5
HOH
HOH
3046
A
TIP
46
5
HOH
HOH
3047
A
TIP
47
5
HOH
HOH
3048
A
TIP
48
5
HOH
HOH
3049
A
TIP
49
5
HOH
HOH
3050
A
TIP
50
5
HOH
HOH
3051
A
TIP
51
5
HOH
HOH
3052
A
TIP
52
5
HOH
HOH
3053
A
TIP
53
5
HOH
HOH
3054
A
TIP
54
5
HOH
HOH
3055
A
TIP
55
5
HOH
HOH
3056
A
TIP
56
5
HOH
HOH
3057
A
TIP
57
5
HOH
HOH
3058
A
TIP
58
5
HOH
HOH
3059
A
TIP
59
5
HOH
HOH
3060
A
TIP
60
5
HOH
HOH
3061
A
TIP
61
5
HOH
HOH
3062
A
TIP
62
5
HOH
HOH
3063
A
TIP
63
5
HOH
HOH
3064
A
TIP
64
5
HOH
HOH
3065
A
TIP
65
5
HOH
HOH
3066
A
TIP
66
5
HOH
HOH
3067
A
TIP
67
5
HOH
HOH
3068
A
TIP
68
5
HOH
HOH
3069
A
TIP
69
5
HOH
HOH
3070
A
TIP
70
5
HOH
HOH
3071
A
TIP
71
5
HOH
HOH
3072
A
TIP
72
5
HOH
HOH
3073
A
TIP
73
5
HOH
HOH
3074
A
TIP
74
5
HOH
HOH
3075
A
TIP
75
5
HOH
HOH
3076
A
TIP
76
5
HOH
HOH
3077
A
TIP
77
5
HOH
HOH
3078
A
TIP
78
5
HOH
HOH
3079
A
TIP
79
5
HOH
HOH
3080
A
TIP
80
5
HOH
HOH
3081
A
TIP
81
5
HOH
HOH
3082
A
TIP
82
5
HOH
HOH
3083
A
TIP
83
5
HOH
HOH
3084
A
TIP
84
5
HOH
HOH
3085
A
TIP
85
5
HOH
HOH
3086
A
TIP
86
5
HOH
HOH
3087
A
TIP
87
5
HOH
HOH
3088
A
TIP
88
5
HOH
HOH
3089
A
TIP
89
5
HOH
HOH
3090
A
TIP
90
5
HOH
HOH
3091
A
TIP
91
5
HOH
HOH
3092
A
TIP
92
5
HOH
HOH
3093
A
TIP
93
5
HOH
HOH
3094
A
TIP
94
5
HOH
HOH
3095
A
TIP
95
5
HOH
HOH
3096
A
TIP
96
5
HOH
HOH
3097
A
TIP
97
5
HOH
HOH
3098
A
TIP
98
5
HOH
HOH
3099
A
TIP
99
5
HOH
HOH
3100
A
TIP
100
5
HOH
HOH
3101
A
TIP
101
5
HOH
HOH
3102
A
TIP
102
5
HOH
HOH
3103
A
TIP
103
5
HOH
HOH
3104
A
TIP
104
5
HOH
HOH
3105
A
TIP
105
5
HOH
HOH
3106
A
TIP
106
5
HOH
HOH
3107
A
TIP
107
5
HOH
HOH
3108
A
TIP
108
5
HOH
HOH
3109
A
TIP
109
5
HOH
HOH
3110
A
TIP
110
5
HOH
HOH
3111
A
TIP
111
5
HOH
HOH
3112
A
TIP
112
5
HOH
HOH
3113
A
TIP
113
5
HOH
HOH
3114
A
TIP
114
5
HOH
HOH
3115
A
TIP
115
5
HOH
HOH
3116
A
TIP
116
5
HOH
HOH
3117
A
TIP
117
5
HOH
HOH
3118
A
TIP
118
5
HOH
HOH
3119
A
TIP
119
5
HOH
HOH
3120
A
TIP
120
5
HOH
HOH
3121
A
TIP
121
5
HOH
HOH
3122
A
TIP
122
5
HOH
HOH
3123
A
TIP
123
5
HOH
HOH
3124
A
TIP
124
5
HOH
HOH
3125
A
TIP
125
5
HOH
HOH
3126
A
TIP
126
5
HOH
HOH
3127
A
TIP
127
5
HOH
HOH
3128
A
TIP
128
5
HOH
HOH
3129
A
TIP
129
5
HOH
HOH
3130
A
TIP
130
5
HOH
HOH
3131
A
TIP
131
5
HOH
HOH
3132
A
TIP
132
5
HOH
HOH
3133
A
TIP
133
5
HOH
HOH
3134
A
TIP
134
5
HOH
HOH
3135
A
TIP
135
5
HOH
HOH
3136
A
TIP
136
5
HOH
HOH
3137
A
TIP
137
5
HOH
HOH
3138
A
n
1
0
A
SER
1
n
2
SER
1
A
ALA
2
n
3
ALA
2
A
ILE
3
n
4
ILE
3
A
GLU
4
n
5
GLU
4
A
ARG
5
n
6
ARG
5
A
ILE
6
n
7
ILE
6
A
SER
7
n
8
SER
7
A
LYS
8
n
9
LYS
8
A
ALA
9
n
10
ALA
9
A
ALA
10
n
11
ALA
10
A
HIS
11
n
12
HIS
11
A
LEU
12
n
13
LEU
12
A
ILE
13
n
14
ILE
13
A
ASP
14
n
15
ASP
14
A
MET
15
n
16
MET
15
A
CYS
16
n
17
CYS
16
A
ASP
17
n
18
ASP
17
A
ILE
18
n
19
ILE
18
A
ILE
19
n
20
ILE
19
A
ARG
20
n
21
ARG
20
A
GLU
21
n
22
GLU
21
A
GLY
22
n
23
GLY
22
A
ASN
23
n
24
ASN
23
A
PRO
24
n
25
PRO
24
A
SER
25
n
26
SER
25
A
LEU
26
n
27
LEU
26
A
ARG
27
n
28
ARG
27
A
THR
28
n
29
THR
28
A
VAL
29
n
30
VAL
29
A
ALA
30
n
31
ALA
30
A
GLU
31
n
32
GLU
31
A
GLU
32
n
33
GLU
32
A
VAL
33
n
34
VAL
33
A
THR
34
n
35
THR
34
A
PHE
35
n
36
PHE
35
A
PRO
36
n
37
PRO
36
A
LEU
37
n
38
LEU
37
A
SER
38
n
39
SER
38
A
ASP
39
n
40
ASP
39
A
GLN
40
n
41
GLN
40
A
GLU
41
n
42
GLU
41
A
ILE
42
n
43
ILE
42
A
ILE
43
n
44
ILE
43
A
LEU
44
n
45
LEU
44
A
GLY
45
n
46
GLY
45
A
GLU
46
n
47
GLU
46
A
LYS
47
n
48
LYS
47
A
MET
48
n
49
MET
48
A
MET
49
n
50
MET
49
A
GLN
50
n
51
GLN
50
A
PHE
51
n
52
PHE
51
A
LEU
52
n
53
LEU
52
A
LYS
53
n
54
LYS
53
A
HIS
54
n
55
HIS
54
A
SER
55
n
56
SER
55
A
GLN
56
n
57
GLN
56
A
ASP
57
n
58
ASP
57
A
PRO
58
n
59
PRO
58
A
VAL
59
n
60
VAL
59
A
MET
60
n
61
MET
60
A
ALA
61
n
62
ALA
61
A
GLU
62
n
63
GLU
62
A
LYS
63
n
64
LYS
63
A
MET
64
n
65
MET
64
A
GLY
65
n
66
GLY
65
A
LEU
66
n
67
LEU
66
A
ARG
67
n
68
ARG
67
A
GLY
68
n
69
GLY
68
A
GLY
69
n
70
GLY
69
A
VAL
70
n
71
VAL
70
A
GLY
71
n
72
GLY
71
A
LEU
72
n
73
LEU
72
A
ALA
73
n
74
ALA
73
A
ALA
74
n
75
ALA
74
A
PRO
75
n
76
PRO
75
A
GLN
76
n
77
GLN
76
A
LEU
77
n
78
LEU
77
A
ASP
78
n
79
ASP
78
A
ILE
79
n
80
ILE
79
A
SER
80
n
81
SER
80
A
LYS
81
n
82
LYS
81
A
ARG
82
n
83
ARG
82
A
ILE
83
n
84
ILE
83
A
ILE
84
n
85
ILE
84
A
ALA
85
n
86
ALA
85
A
VAL
86
n
87
VAL
86
A
LEU
87
n
88
LEU
87
A
VAL
88
n
89
VAL
88
A
PRO
89
n
90
PRO
89
A
ASN
90
n
91
ASN
90
A
ILE
91
n
92
ILE
91
A
n
93
92
A
n
94
93
A
n
95
94
A
n
96
95
A
n
97
96
A
n
98
97
A
n
99
98
A
n
100
99
A
GLU
100
n
101
GLU
100
A
ALA
101
n
102
ALA
101
A
TYR
102
n
103
TYR
102
A
ASP
103
n
104
ASP
103
A
LEU
104
n
105
LEU
104
A
GLU
105
n
106
GLU
105
A
ALA
106
n
107
ALA
106
A
ILE
107
n
108
ILE
107
A
MET
108
n
109
MET
108
A
TYR
109
n
110
TYR
109
A
ASN
110
n
111
ASN
110
A
PRO
111
n
112
PRO
111
A
LYS
112
n
113
LYS
112
A
ILE
113
n
114
ILE
113
A
VAL
114
n
115
VAL
114
A
SER
115
n
116
SER
115
A
HIS
116
n
117
HIS
116
A
SER
117
n
118
SER
117
A
VAL
118
n
119
VAL
118
A
GLN
119
n
120
GLN
119
A
ASP
120
n
121
ASP
120
A
ALA
121
n
122
ALA
121
A
ALA
122
n
123
ALA
122
A
LEU
123
n
124
LEU
123
A
GLY
124
n
125
GLY
124
A
GLU
125
n
126
GLU
125
A
GLY
126
n
127
GLY
126
A
GLU
128
n
128
GLU
128
A
GLY
129
n
129
GLY
129
A
CYS
130
n
130
CYS
130
A
LEU
131
n
131
LEU
131
A
SER
132
n
132
SER
132
A
VAL
133
n
133
VAL
133
A
ASP
134
n
134
ASP
134
A
ARG
135
n
135
ARG
135
A
ASN
136
n
136
ASN
136
A
VAL
137
n
137
VAL
137
A
PRO
138
n
138
PRO
138
A
GLY
139
n
139
GLY
139
A
TYR
140
n
140
TYR
140
A
VAL
141
n
141
VAL
141
A
VAL
142
n
142
VAL
142
A
ARG
143
n
143
ARG
143
A
HIS
144
n
144
HIS
144
A
ALA
145
n
145
ALA
145
A
ARG
146
n
146
ARG
146
A
VAL
147
n
147
VAL
147
A
THR
148
n
148
THR
148
A
VAL
149
n
149
VAL
149
A
ASP
150
n
150
ASP
150
A
TYR
151
n
151
TYR
151
A
PHE
152
n
152
PHE
152
A
ASP
153
n
153
ASP
153
A
LYS
154
n
154
LYS
154
A
ASP
155
n
155
ASP
155
A
GLY
156
n
156
GLY
156
A
GLU
157
n
157
GLU
157
A
LYS
158
n
158
LYS
158
A
HIS
159
n
159
HIS
159
A
ARG
160
n
160
ARG
160
A
ILE
161
n
161
ILE
161
A
LYS
162
n
162
LYS
162
A
LEU
163
n
163
LEU
163
A
LYS
164
n
164
LYS
164
A
GLY
165
n
165
GLY
165
A
TYR
166
n
166
TYR
166
A
ASN
167
n
167
ASN
167
A
SER
168
n
168
SER
168
A
ILE
169
n
169
ILE
169
A
VAL
170
n
170
VAL
170
A
VAL
171
n
171
VAL
171
A
GLN
172
n
172
GLN
172
A
HIS
173
n
173
HIS
173
A
GLU
174
n
174
GLU
174
A
ILE
175
n
175
ILE
175
A
ASP
176
n
176
ASP
176
A
HIS
177
n
177
HIS
177
A
ILE
178
n
178
ILE
178
A
ASN
179
n
179
ASN
179
A
GLY
180
n
180
GLY
180
A
ILE
181
n
181
ILE
181
A
MET
182
n
182
MET
182
A
PHE
183
n
183
PHE
183
A
TYR
184
n
184
TYR
184
A
ASP
185
n
185
ASP
185
A
ARG
186
n
186
ARG
186
A
ILE
187
n
187
ILE
187
A
ASN
188
n
188
ASN
188
A
GLU
189
n
189
GLU
189
A
LYS
190
n
190
LYS
190
A
ASP
191
n
191
ASP
191
A
PRO
192
n
192
PRO
192
A
PHE
193
n
193
PHE
193
A
ALA
194
n
194
ALA
194
A
VAL
195
n
195
VAL
195
A
LYS
196
n
196
LYS
196
A
ASP
197
n
197
ASP
197
A
GLY
198
n
198
GLY
198
A
LEU
199
n
199
LEU
199
A
LEU
200
n
200
LEU
200
A
ILE
201
n
201
ILE
201
A
LEU
202
n
202
LEU
202
A
GLU
203
n
203
GLU
203
A
author_defined_assembly
1
monomeric
A
CYS
130
A
SG
CYS
130
1_555
A
NI
301
B
NI
NI
1_555
A
HIS
173
A
NE2
HIS
173
1_555
118.6
A
CYS
130
A
SG
CYS
130
1_555
A
NI
301
B
NI
NI
1_555
A
HIS
177
A
NE2
HIS
177
1_555
96.6
A
HIS
173
A
NE2
HIS
173
1_555
A
NI
301
B
NI
NI
1_555
A
HIS
177
A
NE2
HIS
177
1_555
102.4
A
CYS
130
A
SG
CYS
130
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O22
SB7
1_555
85.4
A
HIS
173
A
NE2
HIS
173
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O22
SB7
1_555
113.2
A
HIS
177
A
NE2
HIS
177
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O22
SB7
1_555
138.2
A
CYS
130
A
SG
CYS
130
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O25
SB7
1_555
140.9
A
HIS
173
A
NE2
HIS
173
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O25
SB7
1_555
100.0
A
HIS
177
A
NE2
HIS
177
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O25
SB7
1_555
80.1
A
SB7
300
D
O22
SB7
1_555
A
NI
301
B
NI
NI
1_555
A
SB7
300
D
O25
SB7
1_555
73.0
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
LEU
72
A
N
LEU
73
A
O
ALA
85
A
O
ALA
86
A
N
VAL
88
A
N
VAL
89
A
O
ASP
103
A
O
ASP
104
A
N
LYS
112
A
N
LYS
113
A
O
ASP
150
A
O
ASP
150
A
N
TYR
151
A
N
TYR
151
A
O
HIS
159
A
O
HIS
159
A
O
ARG
143
A
O
ARG
143
A
N
ALA
121
A
N
ALA
122
A
N
ALA
122
A
N
ALA
123
A
O
LEU
202
A
O
LEU
202
1
A
MET
0
A
MET
1
1
Y
1
A
VAL
92
A
VAL
93
1
Y
1
A
GLU
93
A
GLU
94
1
Y
1
A
GLU
94
A
GLU
95
1
Y
1
A
GLY
95
A
GLY
96
1
Y
1
A
GLU
96
A
GLU
97
1
Y
1
A
THR
97
A
THR
98
1
Y
1
A
PRO
98
A
PRO
99
1
Y
1
A
GLN
99
A
GLN
100
1
Y
1
A
ARG
135
174.79
158.58
CNS_TOPPAR:protein_rep.param
ion.param
CNS_TOPPAR:water.param
PEG_mod.param
sb4.par
29.697
-4.741
0.000
0.000
-4.741
0.000
9.483
0.263
0.22
2.000
20.000
1521
15032
15032
10.100
99.400
15032
1
0.00
MAD
66.726
2.000
20.000
137
1675
19
0
1519
2.0
20.0
2AI7
17182
17182
0.056
1
20.9
3.5
98.6
2.0
2.05
2.5
0.228
98.3
refinement
Axel T. Brunger
axel.brunger@yale.edu
Fortran_77
http://cns.csb.yale.edu/v1.1/
CNS
package
data extraction
PDB
sw-help@rcsb.rutgers.edu
May. 30, 2005
C++
http://pdb.rutgers.edu/software/
PDB_EXTRACT
package
1.700
S.pneumoniae Polypeptide Deformylase complexed with SB-485345
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
A
SER
1
A
SER
2
HELX_P
A
SER
7
A
SER
8
1
1
7
A
ASP
14
A
ASP
15
HELX_P
A
ILE
18
A
ILE
19
5
2
5
A
ASN
23
A
ASN
24
HELX_P
A
THR
28
A
THR
29
5
3
6
A
SER
38
A
SER
39
HELX_P
A
ASP
57
A
ASP
58
1
4
20
A
ASP
57
A
ASP
58
HELX_P
A
MET
64
A
MET
65
1
5
8
A
PRO
75
A
PRO
76
HELX_P
A
ASP
78
A
ASP
79
5
6
4
A
LYS
164
A
LYS
164
HELX_P
A
ILE
178
A
ILE
178
1
7
15
A
MET
182
A
MET
182
HELX_P
A
ILE
187
A
ILE
187
5
8
6
metalc
2.460
A
CYS
130
A
SG
CYS
130
1_555
A
NI
301
B
NI
NI
1_555
metalc
2.192
A
HIS
173
A
NE2
HIS
173
1_555
A
NI
301
B
NI
NI
1_555
metalc
2.181
A
HIS
177
A
NE2
HIS
177
1_555
A
NI
301
B
NI
NI
1_555
metalc
2.463
A
SB7
300
D
O22
SB7
1_555
A
NI
301
B
NI
NI
1_555
metalc
2.402
A
SB7
300
D
O25
SB7
1_555
A
NI
301
B
NI
NI
1_555
HYDROLASE
Hydrolase
A
PHE
35
A
PHE
36
1
A
PRO
36
A
PRO
37
0.20
DEF_STRR6
UNP
1
0
Q8DP79
MSAIERITKAAHLIDMNDIIREGNPTLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQDPVMAEKMGLRGGVGLAAPQLDI
SKRIIAVLVPNIVEEGETPQEAYDLEAIMYNPKIVSHSVQDAALGEGEGCLSVDRNVPGYVVRHARVTVDYFDKDGEKHR
IKLKGYNSIVVQHEIDHINGIMFYDRINEKDPFAVKDGLLILE
0
202
2AI7
0
202
Q8DP79
A
1
1
202
1
THR
conflict
SER
7
2AI7
A
Q8DP79
UNP
7
8
1
ASN
conflict
CYS
16
2AI7
A
Q8DP79
UNP
16
17
1
THR
conflict
SER
25
2AI7
A
Q8DP79
UNP
25
26
5
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
A
GLY
71
A
GLY
72
A
ALA
73
A
ALA
74
A
ILE
83
A
ILE
84
A
PRO
89
A
PRO
90
A
TYR
102
A
TYR
103
A
HIS
116
A
HIS
117
A
VAL
147
A
VAL
147
A
PHE
152
A
PHE
152
A
LYS
158
A
LYS
158
A
LEU
163
A
LEU
163
A
ARG
143
A
ARG
143
A
HIS
144
A
HIS
144
A
ASP
120
A
ASP
121
A
LEU
123
A
LEU
124
A
LEU
199
A
LEU
199
A
LEU
202
A
LEU
202
BINDING SITE FOR RESIDUE NI A 301
A
NI
301
Software
5
BINDING SITE FOR RESIDUE SO4 A 3001
A
SO4
3001
Software
6
BINDING SITE FOR RESIDUE SB7 A 300
A
SB7
300
Software
11
A
GLN
76
A
GLN
77
5
1_555
A
CYS
130
A
CYS
130
5
1_555
A
HIS
173
A
HIS
173
5
1_555
A
HIS
177
A
HIS
177
5
1_555
A
SB7
300
D
SB7
5
1_555
A
THR
34
A
THR
35
6
4_565
A
SER
117
A
SER
118
6
1_555
A
ARG
146
A
ARG
146
6
1_555
A
HOH
3031
E
HOH
6
1_555
A
HOH
3087
E
HOH
6
1_555
A
HOH
3088
E
HOH
6
1_555
A
GLY
71
A
GLY
72
11
1_555
A
GLN
76
A
GLN
77
11
1_555
A
LEU
123
A
LEU
124
11
1_555
A
GLU
128
A
GLU
128
11
1_555
A
GLY
129
A
GLY
129
11
1_555
A
CYS
130
A
CYS
130
11
1_555
A
LEU
131
A
LEU
131
11
1_555
A
HIS
173
A
HIS
173
11
1_555
A
GLU
174
A
GLU
174
11
1_555
A
HIS
177
A
HIS
177
11
1_555
A
NI
301
B
NI
11
1_555
78
P 43