0.009887
0.005708
0.000000
0.000000
0.011417
0.000000
0.000000
0.000000
0.011111
0.00000
0.00000
0.00000
Hofmann, A.
Grella, M.
Botos, I.
Filipowicz, W.
Wlodawer, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
18
90.00
90.00
120.00
101.140
101.140
90.000
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
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
O4 S -2
96.063
SULFATE ION
non-polymer
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C9 H12 N2 O9 V
343.141
URIDINE-2',3'-VANADATE
non-polymer
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
N
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
N
N
192
N
O
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
H
N
206
N
H
N
207
N
H
N
208
N
N
N
209
S
C
N
210
N
C
N
211
N
O
N
212
N
C
N
213
N
C
N
214
N
S
N
215
N
C
N
216
N
O
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
N
N
229
S
C
N
230
N
C
N
231
N
O
N
232
N
C
Y
233
N
C
Y
234
N
C
Y
235
N
C
Y
236
N
C
Y
237
N
C
Y
238
N
C
N
239
N
O
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
H
N
251
N
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
N
256
N
C
N
257
N
C
N
258
N
O
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
H
N
268
N
N
N
269
S
C
N
270
N
C
N
271
N
O
N
272
N
C
N
273
N
O
N
274
N
O
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
S
N
283
N
O
N
284
N
O
N
285
N
O
N
286
N
O
N
287
N
N
N
288
S
C
N
289
N
C
N
290
N
O
N
291
R
C
N
292
N
O
N
293
N
C
N
294
N
O
N
295
N
H
N
296
N
H
N
297
N
H
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
N
N
305
S
C
N
306
N
C
N
307
N
O
N
308
N
C
Y
309
N
C
Y
310
N
C
Y
311
N
C
Y
312
N
N
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
H
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
Y
336
N
C
Y
337
N
C
Y
338
N
C
Y
339
N
C
Y
340
N
C
Y
341
N
C
N
342
N
O
N
343
N
O
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
H
N
353
N
H
N
354
N
H
N
355
N
N
N
356
N
C
N
357
N
N
N
358
N
C
N
359
N
C
N
360
N
C
N
361
N
O
N
362
N
O
N
363
R
C
N
364
R
C
N
365
N
O
N
366
R
C
N
367
R
C
N
368
N
O
N
369
N
O
N
370
N
C
N
371
N
O
N
372
N
V
N
373
N
O
N
374
N
O
N
375
N
O
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
H
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
N
N
389
S
C
N
390
N
C
N
391
N
O
N
392
N
C
N
393
N
C
N
394
N
C
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
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
sing
N
201
N
sing
N
202
N
sing
N
203
N
doub
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
doub
N
223
N
sing
N
224
N
sing
N
225
N
sing
N
226
N
sing
Y
227
N
doub
Y
228
N
sing
Y
229
N
sing
N
230
N
sing
Y
231
N
doub
N
232
N
sing
Y
233
N
doub
N
234
N
sing
Y
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
doub
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
doub
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
doub
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
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
doub
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
Y
300
N
doub
Y
301
N
sing
Y
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
sing
Y
309
N
doub
N
310
N
sing
Y
311
N
doub
N
312
N
sing
Y
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
Y
328
N
doub
Y
329
N
sing
Y
330
N
sing
N
331
N
sing
Y
332
N
doub
N
333
N
sing
Y
334
N
doub
N
335
N
sing
Y
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
doub
N
350
N
doub
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
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
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
doub
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
N
380
N
sing
N
381
N
sing
N
382
N
doub
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
N
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
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
277
1419
1425
10.1074/jbc.M107889200
11694509
Crystal structures of the semireduced and inhibitor-bound forms of cyclic nucleotide phosphodiesterase from Arabidopsis thaliana.
2002
10.2210/pdb1jh7/pdb
pdb_00001jh7
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
2001-03-11
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
1.070
1.0
X9B
NSLS
1.070
SYNCHROTRON
NSLS BEAMLINE X9B
21510.268
cyclic phosphodiesterase
3.1.4.-
1
man
polymer
96.063
SULFATE ION
4
syn
non-polymer
343.141
URIDINE-2',3'-VANADATE
2
syn
non-polymer
18.015
water
94
nat
water
no
no
MEEVKKDVYSVWALPDEESEPRFKKLMEALRSEFTGPRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVSTG
TFFFQCVFLLLQTTPEVMEAGEHCKNHFNCSTTTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRLNRLALCK
TDTEDKTLETWETVAVCNLNPGSHHHHHH
MEEVKKDVYSVWALPDEESEPRFKKLMEALRSEFTGPRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVSTG
TFFFQCVFLLLQTTPEVMEAGEHCKNHFNCSTTTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRLNRLALCK
TDTEDKTLETWETVAVCNLNPGSHHHHHH
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
thale cress
Arabidopsis
Escherichia
Escherichia coli
sample
3702
Arabidopsis thaliana
469008
Escherichia coli BL21(DE3)
BL21(DE3)
plasmid
pET11d+
1
2.1
41.7
VAPOR DIFFUSION, HANGING DROP
5.0
(NH4)2SO4, NaOAc, DTT, 2',3'-cyclic uridine vanadate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 285K
285
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_special_symmetry
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2002-02-06
1
1
2008-04-27
1
2
2011-07-13
1
3
2024-04-03
_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
oxidised cyclic nucleotide phosphodiesterase from Arabidopsis thaliana
semi-reduced cyclic nucleotide phosphodiesterase from Arabidopsis thaliana
RCSB
Y
RCSB
2001-06-27
REL
REL
SO4
SULFATE ION
UVC
URIDINE-2',3'-VANADATE
HOH
water
semi-reduced CPDase (A. thaliana) [delta 90-115]
Other
experimental model
SO4
212
2
SO4
SO4
212
A
SO4
213
2
SO4
SO4
213
A
SO4
214
2
SO4
SO4
214
A
SO4
215
2
SO4
SO4
215
A
UVD
201
3
UVC
UVC
201
A
UVD
202
3
UVC
UVC
202
A
TIP
301
4
HOH
HOH
301
A
TIP
302
4
HOH
HOH
302
A
TIP
303
4
HOH
HOH
303
A
TIP
304
4
HOH
HOH
304
A
TIP
305
4
HOH
HOH
305
A
TIP
306
4
HOH
HOH
306
A
TIP
307
4
HOH
HOH
307
A
TIP
308
4
HOH
HOH
308
A
TIP
309
4
HOH
HOH
309
A
TIP
310
4
HOH
HOH
310
A
TIP
311
4
HOH
HOH
311
A
TIP
312
4
HOH
HOH
312
A
TIP
313
4
HOH
HOH
313
A
TIP
314
4
HOH
HOH
314
A
TIP
315
4
HOH
HOH
315
A
TIP
316
4
HOH
HOH
316
A
TIP
317
4
HOH
HOH
317
A
TIP
318
4
HOH
HOH
318
A
TIP
319
4
HOH
HOH
319
A
TIP
320
4
HOH
HOH
320
A
TIP
321
4
HOH
HOH
321
A
TIP
322
4
HOH
HOH
322
A
TIP
323
4
HOH
HOH
323
A
TIP
324
4
HOH
HOH
324
A
TIP
325
4
HOH
HOH
325
A
TIP
326
4
HOH
HOH
326
A
TIP
327
4
HOH
HOH
327
A
TIP
328
4
HOH
HOH
328
A
TIP
329
4
HOH
HOH
329
A
TIP
330
4
HOH
HOH
330
A
TIP
331
4
HOH
HOH
331
A
TIP
332
4
HOH
HOH
332
A
TIP
333
4
HOH
HOH
333
A
TIP
334
4
HOH
HOH
334
A
TIP
335
4
HOH
HOH
335
A
TIP
336
4
HOH
HOH
336
A
TIP
337
4
HOH
HOH
337
A
TIP
338
4
HOH
HOH
338
A
TIP
339
4
HOH
HOH
339
A
TIP
340
4
HOH
HOH
340
A
TIP
341
4
HOH
HOH
341
A
TIP
342
4
HOH
HOH
342
A
TIP
343
4
HOH
HOH
343
A
TIP
344
4
HOH
HOH
344
A
TIP
345
4
HOH
HOH
345
A
TIP
346
4
HOH
HOH
346
A
TIP
347
4
HOH
HOH
347
A
TIP
348
4
HOH
HOH
348
A
TIP
349
4
HOH
HOH
349
A
TIP
350
4
HOH
HOH
350
A
TIP
351
4
HOH
HOH
351
A
TIP
352
4
HOH
HOH
352
A
TIP
353
4
HOH
HOH
353
A
TIP
354
4
HOH
HOH
354
A
TIP
355
4
HOH
HOH
355
A
TIP
356
4
HOH
HOH
356
A
TIP
357
4
HOH
HOH
357
A
TIP
358
4
HOH
HOH
358
A
TIP
359
4
HOH
HOH
359
A
TIP
360
4
HOH
HOH
360
A
TIP
361
4
HOH
HOH
361
A
TIP
362
4
HOH
HOH
362
A
TIP
363
4
HOH
HOH
363
A
TIP
364
4
HOH
HOH
364
A
TIP
365
4
HOH
HOH
365
A
TIP
366
4
HOH
HOH
366
A
TIP
367
4
HOH
HOH
367
A
TIP
368
4
HOH
HOH
368
A
TIP
369
4
HOH
HOH
369
A
TIP
370
4
HOH
HOH
370
A
TIP
371
4
HOH
HOH
371
A
TIP
372
4
HOH
HOH
372
A
TIP
373
4
HOH
HOH
373
A
TIP
374
4
HOH
HOH
374
A
TIP
375
4
HOH
HOH
375
A
TIP
376
4
HOH
HOH
376
A
TIP
377
4
HOH
HOH
377
A
TIP
378
4
HOH
HOH
378
A
TIP
379
4
HOH
HOH
379
A
TIP
380
4
HOH
HOH
380
A
TIP
381
4
HOH
HOH
381
A
TIP
382
4
HOH
HOH
382
A
TIP
383
4
HOH
HOH
383
A
TIP
384
4
HOH
HOH
384
A
TIP
385
4
HOH
HOH
385
A
TIP
386
4
HOH
HOH
386
A
TIP
387
4
HOH
HOH
387
A
TIP
388
4
HOH
HOH
388
A
TIP
389
4
HOH
HOH
389
A
TIP
390
4
HOH
HOH
390
A
TIP
391
4
HOH
HOH
391
A
TIP
392
4
HOH
HOH
392
A
TIP
393
4
HOH
HOH
393
A
TIP
394
4
HOH
HOH
394
A
MET
1
n
1
MET
1
A
GLU
2
n
2
GLU
2
A
GLU
3
n
3
GLU
3
A
VAL
4
n
4
VAL
4
A
LYS
5
n
5
LYS
5
A
LYS
6
n
6
LYS
6
A
ASP
7
n
7
ASP
7
A
VAL
8
n
8
VAL
8
A
TYR
9
n
9
TYR
9
A
SER
10
n
10
SER
10
A
VAL
11
n
11
VAL
11
A
TRP
12
n
12
TRP
12
A
ALA
13
n
13
ALA
13
A
LEU
14
n
14
LEU
14
A
PRO
15
n
15
PRO
15
A
ASP
16
n
16
ASP
16
A
GLU
17
n
17
GLU
17
A
GLU
18
n
18
GLU
18
A
SER
19
n
19
SER
19
A
GLU
20
n
20
GLU
20
A
PRO
21
n
21
PRO
21
A
ARG
22
n
22
ARG
22
A
PHE
23
n
23
PHE
23
A
LYS
24
n
24
LYS
24
A
LYS
25
n
25
LYS
25
A
LEU
26
n
26
LEU
26
A
MET
27
n
27
MET
27
A
GLU
28
n
28
GLU
28
A
ALA
29
n
29
ALA
29
A
LEU
30
n
30
LEU
30
A
ARG
31
n
31
ARG
31
A
SER
32
n
32
SER
32
A
GLU
33
n
33
GLU
33
A
PHE
34
n
34
PHE
34
A
THR
35
n
35
THR
35
A
GLY
36
n
36
GLY
36
A
PRO
37
n
37
PRO
37
A
ARG
38
n
38
ARG
38
A
PHE
39
n
39
PHE
39
A
VAL
40
n
40
VAL
40
A
PRO
41
n
41
PRO
41
A
HIS
42
n
42
HIS
42
A
VAL
43
n
43
VAL
43
A
THR
44
n
44
THR
44
A
VAL
45
n
45
VAL
45
A
ALA
46
n
46
ALA
46
A
VAL
47
n
47
VAL
47
A
SER
48
n
48
SER
48
A
ALA
49
n
49
ALA
49
A
TYR
50
n
50
TYR
50
A
LEU
51
n
51
LEU
51
A
THR
52
n
52
THR
52
A
ALA
53
n
53
ALA
53
A
ASP
54
n
54
ASP
54
A
GLU
55
n
55
GLU
55
A
ALA
56
n
56
ALA
56
A
LYS
57
n
57
LYS
57
A
LYS
58
n
58
LYS
58
A
MET
59
n
59
MET
59
A
PHE
60
n
60
PHE
60
A
GLU
61
n
61
GLU
61
A
SER
62
n
62
SER
62
A
ALA
63
n
63
ALA
63
A
CYS
64
n
64
CYS
64
A
ASP
65
n
65
ASP
65
A
GLY
66
n
66
GLY
66
A
LEU
67
n
67
LEU
67
A
LYS
68
n
68
LYS
68
A
ALA
69
n
69
ALA
69
A
TYR
70
n
70
TYR
70
A
THR
71
n
71
THR
71
A
ALA
72
n
72
ALA
72
A
THR
73
n
73
THR
73
A
VAL
74
n
74
VAL
74
A
ASP
75
n
75
ASP
75
A
ARG
76
n
76
ARG
76
A
VAL
77
n
77
VAL
77
A
SER
78
n
78
SER
78
A
THR
79
n
79
THR
79
A
GLY
80
n
80
GLY
80
A
THR
81
n
81
THR
81
A
PHE
82
n
82
PHE
82
A
PHE
83
n
83
PHE
83
A
PHE
84
n
84
PHE
84
A
GLN
85
n
85
GLN
85
A
CYS
86
n
86
CYS
86
A
VAL
87
n
87
VAL
87
A
PHE
88
n
88
PHE
88
A
LEU
89
n
89
LEU
89
A
LEU
90
n
90
LEU
90
A
LEU
91
n
91
LEU
91
A
GLN
92
n
92
GLN
92
A
THR
93
n
93
THR
93
A
THR
94
n
94
THR
94
A
PRO
95
n
95
PRO
95
A
GLU
96
n
96
GLU
96
A
VAL
97
n
97
VAL
97
A
MET
98
n
98
MET
98
A
GLU
99
n
99
GLU
99
A
ALA
100
n
100
ALA
100
A
GLY
101
n
101
GLY
101
A
GLU
102
n
102
GLU
102
A
HIS
103
n
103
HIS
103
A
CYS
104
n
104
CYS
104
A
LYS
105
n
105
LYS
105
A
ALA
106
n
106
ASN
106
A
HIS
107
n
107
HIS
107
A
ALA
108
n
108
PHE
108
A
ASN
109
n
109
ASN
109
A
CYS
110
n
110
CYS
110
A
SER
111
n
111
SER
111
A
THR
112
n
112
THR
112
A
THR
113
n
113
THR
113
A
THR
114
n
114
THR
114
A
PRO
115
n
115
PRO
115
A
TYR
116
n
116
TYR
116
A
MET
117
n
117
MET
117
A
PRO
118
n
118
PRO
118
A
HIS
119
n
119
HIS
119
A
LEU
120
n
120
LEU
120
A
SER
121
n
121
SER
121
A
LEU
122
n
122
LEU
122
A
LEU
123
n
123
LEU
123
A
TYR
124
n
124
TYR
124
A
ALA
125
n
125
ALA
125
A
GLU
126
n
126
GLU
126
A
LEU
127
n
127
LEU
127
A
THR
128
n
128
THR
128
A
GLU
129
n
129
GLU
129
A
GLU
130
n
130
GLU
130
A
GLU
131
n
131
GLU
131
A
LYS
132
n
132
LYS
132
A
LYS
133
n
133
LYS
133
A
ASN
134
n
134
ASN
134
A
ALA
135
n
135
ALA
135
A
GLN
136
n
136
GLN
136
A
GLU
137
n
137
GLU
137
A
LYS
138
n
138
LYS
138
A
ALA
139
n
139
ALA
139
A
TYR
140
n
140
TYR
140
A
THR
141
n
141
THR
141
A
LEU
142
n
142
LEU
142
A
ASP
143
n
143
ASP
143
A
SER
144
n
144
SER
144
A
SER
145
n
145
SER
145
A
LEU
146
n
146
LEU
146
A
ASP
147
n
147
ASP
147
A
GLY
148
n
148
GLY
148
A
LEU
149
n
149
LEU
149
A
SER
150
n
150
SER
150
A
PHE
151
n
151
PHE
151
A
ARG
152
n
152
ARG
152
A
LEU
153
n
153
LEU
153
A
ASN
154
n
154
ASN
154
A
ARG
155
n
155
ARG
155
A
LEU
156
n
156
LEU
156
A
ALA
157
n
157
ALA
157
A
LEU
158
n
158
LEU
158
A
CYS
159
n
159
CYS
159
A
LYS
160
n
160
LYS
160
A
THR
161
n
161
THR
161
A
ASP
162
n
162
ASP
162
A
THR
163
n
163
THR
163
A
GLU
164
n
164
GLU
164
A
ASP
165
n
165
ASP
165
A
LYS
166
n
166
LYS
166
A
THR
167
n
167
THR
167
A
LEU
168
n
168
LEU
168
A
GLU
169
n
169
GLU
169
A
THR
170
n
170
THR
170
A
TRP
171
n
171
TRP
171
A
GLU
172
n
172
GLU
172
A
THR
173
n
173
THR
173
A
VAL
174
n
174
VAL
174
A
ALA
175
n
175
ALA
175
A
VAL
176
n
176
VAL
176
A
CYS
177
n
177
CYS
177
A
ASN
178
n
178
ASN
178
A
LEU
179
n
179
LEU
179
A
ASN
180
n
180
ASN
180
A
PRO
181
n
181
PRO
181
A
GLY
182
n
182
GLY
182
A
SER
183
n
183
SER
183
A
HIS
184
n
184
HIS
184
A
HIS
185
n
185
HIS
185
A
n
186
186
A
n
187
187
A
n
188
188
A
n
189
189
A
author_defined_assembly
1
monomeric
software_defined_assembly
PISA
6
hexameric
software_defined_assembly
PQS
2
dimeric
24670
-385
46230
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
101.1400000000
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
50.5700000000
87.5898093388
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
0.8660254038
0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
16_545
y+1/3,x-1/3,-z+2/3
crystal symmetry operation
50.5700000000
-29.1966031129
60.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
17_555
x-y+1/3,-y+2/3,-z+2/3
crystal symmetry operation
0.0000000000
58.3932062258
60.0000000000
-0.5000000000
-0.8660254038
0.0000000000
-0.8660254038
0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
18_655
-x+4/3,-x+y+2/3,-z+2/3
crystal symmetry operation
101.1400000000
58.3932062258
60.0000000000
A
N
LEU
51
A
N
LEU
51
A
O
ASP
7
A
O
ASP
7
A
N
LEU
14
A
N
LEU
14
A
O
ARG
155
A
O
ARG
155
A
N
LYS
160
A
N
LYS
160
A
O
GLU
172
A
O
GLU
172
A
O
ALA
72
A
O
ALA
72
A
N
PHE
151
A
N
PHE
151
A
O
PHE
82
A
O
PHE
82
A
N
GLN
85
A
N
GLN
85
A
N
LEU
89
A
N
LEU
89
A
O
LEU
120
A
O
LEU
120
1
A
SO4
213
C
SO4
1
A
SO4
214
D
SO4
1
A
SO4
214
D
SO4
1
A
SO4
215
E
SO4
1
A
SO4
215
E
SO4
1
A
HOH
377
H
HOH
1
A
HOH
392
H
HOH
1
A
HOH
393
H
HOH
1
A
HOH
394
H
HOH
1
A
CG
ASN
106
A
CG
ASN
106
1
Y
1
A
OD1
ASN
106
A
OD1
ASN
106
1
Y
1
A
ND2
ASN
106
A
ND2
ASN
106
1
Y
1
A
CG
PHE
108
A
CG
PHE
108
1
Y
1
A
CD1
PHE
108
A
CD1
PHE
108
1
Y
1
A
CD2
PHE
108
A
CD2
PHE
108
1
Y
1
A
CE1
PHE
108
A
CE1
PHE
108
1
Y
1
A
CE2
PHE
108
A
CE2
PHE
108
1
Y
1
A
CZ
PHE
108
A
CZ
PHE
108
1
Y
1
A
HIS
186
A
HIS
186
1
Y
1
A
HIS
187
A
HIS
187
1
Y
1
A
HIS
188
A
HIS
188
1
Y
1
A
HIS
189
A
HIS
189
1
Y
1
A
A
C
N
CYS
SER
110
111
1.19
1
16.82
2.20
117.20
134.02
A
A
A
CA
C
N
PHE
PHE
ASN
108
108
109
Y
1
-19.79
1.60
122.70
102.91
A
A
A
O
C
N
PHE
PHE
ASN
108
108
109
Y
1
12.02
1.90
110.10
122.12
A
A
A
CB
CA
C
SER
SER
SER
111
111
111
N
1
-15.55
2.20
117.20
101.65
A
A
A
CA
C
N
SER
SER
THR
111
111
112
Y
1
18.33
1.60
122.70
141.03
A
A
A
O
C
N
SER
SER
THR
111
111
112
Y
1
A
A
C
N
CYS
SER
110
111
-0.147
0.023
1.336
1.189
Y
1
A
A
CZ
OG1
ARG
THR
76
112
2.09
1_555
14_654
1
A
PRO
15
-86.33
-155.14
1
A
GLU
17
-70.70
25.02
1
A
GLU
18
-141.20
-16.63
1
A
SER
19
-94.73
-61.71
1
A
GLU
20
-28.60
-53.79
1
A
LYS
24
-36.95
-36.26
1
A
GLU
33
-59.11
-70.61
1
A
THR
35
-141.88
-152.42
1
A
PHE
39
-111.54
-163.87
1
A
ALA
49
-117.78
-163.96
1
A
THR
52
-62.72
-170.62
1
A
GLU
55
-42.48
-13.24
1
A
LEU
67
18.49
65.05
1
A
LYS
68
-42.97
151.33
1
A
ARG
76
179.31
167.25
1
A
PHE
83
-29.23
-31.33
1
A
GLN
85
-107.50
64.82
1
A
CYS
86
-89.09
-91.99
1
A
THR
93
-62.51
42.13
1
A
PRO
95
-48.97
-89.02
1
A
GLU
96
-26.70
-34.36
1
A
GLU
102
-54.05
-0.23
1
A
ASN
106
-49.46
106.75
1
A
HIS
107
68.05
-144.56
1
A
CYS
110
-115.01
-159.83
1
A
SER
111
-151.97
57.00
1
A
THR
112
0.93
-71.81
1
A
ALA
125
-177.41
114.95
1
A
GLU
126
-66.04
91.03
1
A
GLU
129
-27.22
-46.68
1
A
THR
163
-33.02
-12.93
1
A
LEU
168
46.69
11.55
1
A
ASN
180
-115.83
62.87
1
A
SER
183
59.43
-159.33
1
A
HIS
184
-19.10
138.36
PROTEIN_REP.PARAM
PROTEIN.TOP
DNA-RNA_REP.PARAM
DNA-RNA.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
UVD_NEU2.PARAM
UVD_NEU2.TOP
59.9
0.85
6.95
0.00
0.85
0.00
-1.71
0.399
0.016
0.214
2.40
25.29
650
5960
10.9
84.2
RANDOM
185038.81
0.00
1
RESTRAINED
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
semi-reduced CPDase (A. thaliana) [delta 90-115]
Engh & Huber
FLAT MODEL
236.9
0.357
0.59
0.42
5.00
0.85
0.64
2.40
25.29
94
1614
62
0
1458
0.013
2.1
25.2
1.02
2.65
3.00
4.24
3.50
4.09
3.50
6.01
4.00
0.477
0.048
0.431
2.55
97
829
6
10.5
79.8
38.4
2.40
50
1JH7
7212
7212
0.0
0.048
1
15
3
90.3
0.466
2.40
2.49
1
3
95.4
data reduction
DENZO
data scaling
SCALEPACK
phasing
AMoRE
refinement
CNS
1.0
Semi-reduced Inhibitor-bound Cyclic Nucleotide Phosphodiesterase from Arabidopsis thaliana
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
4
N
N
A
SER
19
A
SER
19
HELX_P
A
PHE
34
A
PHE
34
1
1
16
A
ALA
53
A
ALA
53
HELX_P
A
ASP
65
A
ASP
65
1
2
13
A
THR
94
A
THR
94
HELX_P
A
GLU
99
A
GLU
99
1
3
6
A
THR
128
A
THR
128
HELX_P
A
TYR
140
A
TYR
140
1
4
13
disulf
2.028
A
CYS
64
A
SG
CYS
64
1_555
A
CYS
177
A
SG
CYS
177
1_555
HYDROLASE
ADP-ribose 1'', 2''-cyclic phosphate, RNA processing, 2', 3'-cyclic nucleotide phosphodiesterase, 3'-cyclic uridine vanadate, HYDROLASE
CPD_ARATH
UNP
1
1
O04147
MEEVKKDVYSVWALPDEESEPRFKKLMEALRSEFTGPRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVSTG
TFFFQCVFLLLQTTPEVMEAGEHCKNHFNCSTTTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRLNRLALCK
TDTEDKTLETWETVAVCNLNP
1
181
1JH7
1
181
O04147
A
1
1
181
1
expression tag
GLY
182
1JH7
A
O04147
UNP
182
1
expression tag
SER
183
1JH7
A
O04147
UNP
183
1
expression tag
HIS
184
1JH7
A
O04147
UNP
184
1
expression tag
HIS
185
1JH7
A
O04147
UNP
185
1
expression tag
HIS
186
1JH7
A
O04147
UNP
186
1
expression tag
HIS
187
1JH7
A
O04147
UNP
187
1
expression tag
HIS
188
1JH7
A
O04147
UNP
188
1
expression tag
HIS
189
1JH7
A
O04147
UNP
189
4
2
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
VAL
43
A
VAL
43
A
LEU
51
A
LEU
51
A
ASP
7
A
ASP
7
A
LEU
14
A
LEU
14
A
ARG
155
A
ARG
155
A
LYS
160
A
LYS
160
A
GLU
172
A
GLU
172
A
ASN
178
A
ASN
178
A
THR
71
A
THR
71
A
THR
73
A
THR
73
A
SER
150
A
SER
150
A
ARG
152
A
ARG
152
A
ARG
76
A
ARG
76
A
PHE
82
A
PHE
82
A
GLN
85
A
GLN
85
A
LEU
90
A
LEU
90
A
HIS
119
A
HIS
119
A
LEU
123
A
LEU
123
BINDING SITE FOR RESIDUE SO4 A 212
A
SO4
212
Software
4
BINDING SITE FOR RESIDUE SO4 A 213
A
SO4
213
Software
3
BINDING SITE FOR RESIDUE SO4 A 214
A
SO4
214
Software
3
BINDING SITE FOR RESIDUE SO4 A 215
A
SO4
215
Software
6
BINDING SITE FOR RESIDUE UVC A 201
A
UVC
201
Software
14
BINDING SITE FOR RESIDUE UVC A 202
A
UVC
202
Software
8
A
SER
78
A
SER
78
4
1_555
A
HOH
350
H
HOH
4
1_555
A
HOH
368
H
HOH
4
1_555
A
HOH
369
H
HOH
4
1_555
A
HOH
317
H
HOH
3
12_555
A
HOH
392
H
HOH
3
12_555
A
HOH
392
H
HOH
3
1_555
A
SO4
215
E
SO4
3
2_655
A
SO4
215
E
SO4
3
1_555
A
SO4
215
E
SO4
3
3_665
A
GLU
28
A
GLU
28
6
1_555
A
GLU
28
A
GLU
28
6
2_655
A
GLU
28
A
GLU
28
6
3_665
A
SO4
214
D
SO4
6
1_555
A
SO4
214
D
SO4
6
3_665
A
SO4
214
D
SO4
6
2_655
A
SER
10
A
SER
10
14
1_555
A
TRP
12
A
TRP
12
14
1_555
A
HIS
42
A
HIS
42
14
1_555
A
THR
44
A
THR
44
14
1_555
A
TYR
50
A
TYR
50
14
18_655
A
PHE
84
A
PHE
84
14
1_555
A
HIS
119
A
HIS
119
14
1_555
A
SER
121
A
SER
121
14
1_555
A
TYR
124
A
TYR
124
14
1_555
A
THR
161
A
THR
161
14
1_555
A
THR
163
A
THR
163
14
1_555
A
TRP
171
A
TRP
171
14
1_555
A
HOH
372
H
HOH
14
1_555
A
HOH
373
H
HOH
14
1_555
A
ARG
31
A
ARG
31
8
1_555
A
ARG
31
A
ARG
31
8
2_655
A
ARG
31
A
ARG
31
8
3_665
A
GLY
36
A
GLY
36
8
1_555
A
PRO
37
A
PRO
37
8
1_555
A
ARG
38
A
ARG
38
8
1_555
A
PHE
39
A
PHE
39
8
1_555
A
LEU
168
A
LEU
168
8
1_555
155
H 3 2