0.024213
0.000000
0.000021
0.000000
0.008874
0.000000
0.000000
0.000000
0.017892
0.00000
0.00000
0.00000
Gertz, M.
Steegborn, C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.05
90.00
41.300
112.690
55.890
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
C18 H23 N3 O4
345.393
n
N~6~-acetyl-N-(4-methyl-2-oxo-2H-chromen-7-yl)-L-lysinamide
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
C14 H12 O3
228.243
RESVERATROL
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
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
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
C
N
89
N
C
N
90
N
C
N
91
N
C
N
92
N
O
N
93
N
O
Y
94
N
C
Y
95
N
C
Y
96
N
C
Y
97
N
C
Y
98
N
C
Y
99
N
C
N
100
N
N
N
101
N
C
N
102
N
O
N
103
S
C
N
104
N
N
N
105
N
C
N
106
N
C
N
107
N
C
N
108
N
C
N
109
N
N
N
110
N
C
N
111
N
O
N
112
N
C
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
S
C
N
138
N
C
N
139
N
O
N
140
N
C
N
141
N
C
N
142
N
C
N
143
N
O
N
144
N
N
N
145
N
O
N
146
N
H
N
147
N
H
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
N
N
157
S
C
N
158
N
C
N
159
N
O
N
160
N
C
N
161
N
C
N
162
N
C
N
163
N
O
N
164
N
O
N
165
N
O
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
N
N
176
N
C
N
177
N
C
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
N
N
186
S
C
N
187
N
C
N
188
N
O
N
189
N
C
Y
190
N
C
Y
191
N
N
Y
192
N
C
Y
193
N
C
Y
194
N
N
N
195
N
O
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
O
N
207
N
H
N
208
N
H
N
209
N
N
N
210
S
C
N
211
N
C
N
212
N
O
N
213
S
C
N
214
N
C
N
215
N
C
N
216
N
C
N
217
N
O
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
H
N
231
N
N
N
232
S
C
N
233
N
C
N
234
N
O
N
235
N
C
N
236
N
C
N
237
N
C
N
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
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
C
N
259
N
C
N
260
N
C
N
261
N
N
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
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
N
N
279
S
C
N
280
N
C
N
281
N
O
N
282
N
C
N
283
N
C
N
284
N
S
N
285
N
C
N
286
N
O
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
N
N
299
S
C
N
300
N
C
N
301
N
O
N
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
Y
306
N
C
Y
307
N
C
Y
308
N
C
N
309
N
O
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
H
N
320
N
H
N
321
N
N
N
322
S
C
N
323
N
C
N
324
N
O
N
325
N
C
N
326
N
C
N
327
N
C
N
328
N
O
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
H
N
336
N
H
N
337
N
H
N
338
N
N
N
339
S
C
N
340
N
C
N
341
N
O
N
342
N
C
N
343
N
O
N
344
N
O
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
Y
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
C
N
358
N
C
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
O
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
H
N
380
N
H
N
381
N
N
N
382
S
C
N
383
N
C
N
384
N
O
N
385
R
C
N
386
N
O
N
387
N
C
N
388
N
O
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
398
N
N
N
399
S
C
N
400
N
C
N
401
N
O
N
402
N
C
Y
403
N
C
Y
404
N
C
Y
405
N
C
Y
406
N
N
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
N
412
N
O
N
413
N
H
N
414
N
H
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
N
N
426
S
C
N
427
N
C
N
428
N
O
N
429
N
C
Y
430
N
C
Y
431
N
C
Y
432
N
C
Y
433
N
C
Y
434
N
C
Y
435
N
C
N
436
N
O
N
437
N
O
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
H
N
448
N
H
N
449
N
N
N
450
S
C
N
451
N
C
N
452
N
O
N
453
N
C
N
454
N
C
N
455
N
C
N
456
N
O
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
N
H
N
468
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
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
Y
94
N
doub
Y
95
N
sing
N
96
N
sing
N
97
N
doub
Y
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
doub
Y
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
doub
N
108
N
sing
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
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
doub
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
doub
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
doub
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
doub
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
doub
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
Y
189
N
sing
Y
190
N
doub
Y
191
N
doub
N
192
N
sing
Y
193
N
sing
N
194
N
sing
Y
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
doub
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
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
doub
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
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
doub
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
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
doub
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
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
doub
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
Y
297
N
doub
Y
298
N
sing
Y
299
N
sing
N
300
N
sing
Y
301
N
doub
N
302
N
sing
Y
303
N
doub
N
304
N
sing
Y
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
doub
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
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
doub
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
Y
339
N
doub
Y
340
N
sing
N
341
N
sing
Y
342
N
sing
N
343
N
sing
Y
344
N
doub
N
345
N
sing
Y
346
N
sing
N
347
N
sing
Y
348
N
doub
N
349
N
sing
N
350
N
sing
N
351
E
doub
N
352
N
sing
N
353
N
sing
N
354
N
sing
Y
355
N
doub
Y
356
N
sing
Y
357
N
sing
N
358
N
sing
Y
359
N
doub
N
360
N
sing
Y
361
N
sing
N
362
N
sing
Y
363
N
doub
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
sing
N
375
N
doub
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
sing
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
doub
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
Y
396
N
doub
Y
397
N
sing
Y
398
N
sing
N
399
N
sing
Y
400
N
doub
Y
401
N
sing
Y
402
N
sing
N
403
N
sing
Y
404
N
sing
Y
405
N
doub
N
406
N
sing
Y
407
N
doub
N
408
N
sing
Y
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
doub
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
Y
424
N
doub
Y
425
N
sing
Y
426
N
sing
N
427
N
sing
Y
428
N
doub
N
429
N
sing
Y
430
N
doub
N
431
N
sing
Y
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
doub
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
451
N
sing
N
452
N
sing
N
453
N
sing
N
454
N
sing
US
Plos One
1932-6203
7
e49761
e49761
10.1371/journal.pone.0049761
23185430
A molecular mechanism for direct sirtuin activation by resveratrol.
2012
10.2210/pdb4hda/pdb
pdb_00004hda
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
IMAGE PLATE
2008-03-17
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
OTHER
29913.078
NAD-dependent protein deacylase sirtuin-5, mitochondrial
3.5.1.-
UNP residues 34-302
2
man
polymer
769.913
Fluor-de-Lys peptide
1
syn
polymer
65.409
ZINC ION
2
syn
non-polymer
228.243
RESVERATROL
1
syn
non-polymer
18.015
water
15
nat
water
Regulatory protein SIR2 homolog 5, SIR2-like protein 5
no
no
GIDPFTARPSSSMADFRKFFAKAKHIVIISGAGVSAESGVPTFRGAGGYWRKWQAQDLATPLAFAHNPSRVWEFYHYRRE
VMGSKEPNAGHRAIAECETRLGKQGRRVVVITQNIDELHRKAGTKNLLEIHGSLFKTRCTSCGVVAENYKSPICPALSGK
GAPEPGTQDASIPVEKLPRCEEAGCGGLLRPHVVWFGENLDPAILEEVDRELAHCDLCLVVGTSSVVYPAAMFAPQVAAR
GVPVAEFNTETTPATNRFRFHFQGPCGTTLPEALA
GIDPFTARPSSSMADFRKFFAKAKHIVIISGAGVSAESGVPTFRGAGGYWRKWQAQDLATPLAFAHNPSRVWEFYHYRRE
VMGSKEPNAGHRAIAECETRLGKQGRRVVVITQNIDELHRKAGTKNLLEIHGSLFKTRCTSCGVVAENYKSPICPALSGK
GAPEPGTQDASIPVEKLPRCEEAGCGGLLRPHVVWFGENLDPAILEEVDRELAHCDLCLVVGTSSVVYPAAMFAPQVAAR
GVPVAEFNTETTPATNRFRFHFQGPCGTTLPEALA
A,B
polypeptide(L)
no
yes
RHK(FDL)
RHKX
F
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
human
sample
SIR2L5, SIRT5
9606
Homo sapiens
469008
Escherichia coli
BL21 (DE3) Rosetta2
plasmid
pET151/D-TOPO
1
2.15
42.69
VAPOR DIFFUSION, HANGING DROP
150 mM NH4Cl, 15% (w/v) PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
1
0
2012-12-05
1
1
2013-02-20
1
2
2024-02-28
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_label_asym_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
2012-10-02
REL
REL
ZN
ZINC ION
STL
RESVERATROL
HOH
water
coumarin-modified tetra peptide
sample
ZN
1
3
ZN
ZN
401
A
ZN
2
3
ZN
ZN
401
B
REV
3
4
STL
STL
402
B
HOH
3
5
HOH
HOH
501
A
HOH
4
5
HOH
HOH
502
A
HOH
6
5
HOH
HOH
503
A
HOH
7
5
HOH
HOH
504
A
HOH
9
5
HOH
HOH
505
A
HOH
11
5
HOH
HOH
506
A
HOH
12
5
HOH
HOH
507
A
HOH
13
5
HOH
HOH
508
A
HOH
14
5
HOH
HOH
509
A
HOH
15
5
HOH
HOH
510
A
HOH
1
5
HOH
HOH
501
B
HOH
2
5
HOH
HOH
502
B
HOH
5
5
HOH
HOH
503
B
HOH
8
5
HOH
HOH
504
B
HOH
10
5
HOH
HOH
505
B
n
1
28
A
n
2
29
A
n
3
30
A
n
4
31
A
n
5
32
A
n
6
33
A
n
7
34
A
ARG
35
n
8
ARG
35
A
PRO
36
n
9
PRO
36
A
SER
37
n
10
SER
37
A
SER
38
n
11
SER
38
A
SER
39
n
12
SER
39
A
MET
40
n
13
MET
40
A
ALA
41
n
14
ALA
41
A
ASP
42
n
15
ASP
42
A
PHE
43
n
16
PHE
43
A
ARG
44
n
17
ARG
44
A
LYS
45
n
18
LYS
45
A
PHE
46
n
19
PHE
46
A
PHE
47
n
20
PHE
47
A
ALA
48
n
21
ALA
48
A
LYS
49
n
22
LYS
49
A
ALA
50
n
23
ALA
50
A
LYS
51
n
24
LYS
51
A
HIS
52
n
25
HIS
52
A
ILE
53
n
26
ILE
53
A
VAL
54
n
27
VAL
54
A
ILE
55
n
28
ILE
55
A
ILE
56
n
29
ILE
56
A
SER
57
n
30
SER
57
A
GLY
58
n
31
GLY
58
A
ALA
59
n
32
ALA
59
A
GLY
60
n
33
GLY
60
A
VAL
61
n
34
VAL
61
A
SER
62
n
35
SER
62
A
ALA
63
n
36
ALA
63
A
GLU
64
n
37
GLU
64
A
SER
65
n
38
SER
65
A
GLY
66
n
39
GLY
66
A
VAL
67
n
40
VAL
67
A
PRO
68
n
41
PRO
68
A
THR
69
n
42
THR
69
A
PHE
70
n
43
PHE
70
A
ARG
71
n
44
ARG
71
A
GLY
72
n
45
GLY
72
A
ALA
73
n
46
ALA
73
A
GLY
74
n
47
GLY
74
A
GLY
75
n
48
GLY
75
A
TYR
76
n
49
TYR
76
A
TRP
77
n
50
TRP
77
A
ARG
78
n
51
ARG
78
A
LYS
79
n
52
LYS
79
A
TRP
80
n
53
TRP
80
A
GLN
81
n
54
GLN
81
A
ALA
82
n
55
ALA
82
A
GLN
83
n
56
GLN
83
A
ASP
84
n
57
ASP
84
A
LEU
85
n
58
LEU
85
A
ALA
86
n
59
ALA
86
A
THR
87
n
60
THR
87
A
PRO
88
n
61
PRO
88
A
LEU
89
n
62
LEU
89
A
ALA
90
n
63
ALA
90
A
PHE
91
n
64
PHE
91
A
ALA
92
n
65
ALA
92
A
HIS
93
n
66
HIS
93
A
ASN
94
n
67
ASN
94
A
PRO
95
n
68
PRO
95
A
SER
96
n
69
SER
96
A
ARG
97
n
70
ARG
97
A
VAL
98
n
71
VAL
98
A
TRP
99
n
72
TRP
99
A
GLU
100
n
73
GLU
100
A
PHE
101
n
74
PHE
101
A
TYR
102
n
75
TYR
102
A
HIS
103
n
76
HIS
103
A
TYR
104
n
77
TYR
104
A
ARG
105
n
78
ARG
105
A
ARG
106
n
79
ARG
106
A
GLU
107
n
80
GLU
107
A
VAL
108
n
81
VAL
108
A
MET
109
n
82
MET
109
A
GLY
110
n
83
GLY
110
A
SER
111
n
84
SER
111
A
LYS
112
n
85
LYS
112
A
GLU
113
n
86
GLU
113
A
PRO
114
n
87
PRO
114
A
ASN
115
n
88
ASN
115
A
ALA
116
n
89
ALA
116
A
GLY
117
n
90
GLY
117
A
HIS
118
n
91
HIS
118
A
ARG
119
n
92
ARG
119
A
ALA
120
n
93
ALA
120
A
ILE
121
n
94
ILE
121
A
ALA
122
n
95
ALA
122
A
GLU
123
n
96
GLU
123
A
CYS
124
n
97
CYS
124
A
GLU
125
n
98
GLU
125
A
THR
126
n
99
THR
126
A
ARG
127
n
100
ARG
127
A
LEU
128
n
101
LEU
128
A
GLY
129
n
102
GLY
129
A
LYS
130
n
103
LYS
130
A
GLN
131
n
104
GLN
131
A
GLY
132
n
105
GLY
132
A
ARG
133
n
106
ARG
133
A
ARG
134
n
107
ARG
134
A
VAL
135
n
108
VAL
135
A
VAL
136
n
109
VAL
136
A
VAL
137
n
110
VAL
137
A
ILE
138
n
111
ILE
138
A
THR
139
n
112
THR
139
A
GLN
140
n
113
GLN
140
A
ASN
141
n
114
ASN
141
A
ILE
142
n
115
ILE
142
A
ASP
143
n
116
ASP
143
A
GLU
144
n
117
GLU
144
A
LEU
145
n
118
LEU
145
A
HIS
146
n
119
HIS
146
A
ARG
147
n
120
ARG
147
A
LYS
148
n
121
LYS
148
A
ALA
149
n
122
ALA
149
A
GLY
150
n
123
GLY
150
A
THR
151
n
124
THR
151
A
LYS
152
n
125
LYS
152
A
ASN
153
n
126
ASN
153
A
LEU
154
n
127
LEU
154
A
LEU
155
n
128
LEU
155
A
GLU
156
n
129
GLU
156
A
ILE
157
n
130
ILE
157
A
HIS
158
n
131
HIS
158
A
GLY
159
n
132
GLY
159
A
SER
160
n
133
SER
160
A
LEU
161
n
134
LEU
161
A
PHE
162
n
135
PHE
162
A
LYS
163
n
136
LYS
163
A
THR
164
n
137
THR
164
A
ARG
165
n
138
ARG
165
A
CYS
166
n
139
CYS
166
A
THR
167
n
140
THR
167
A
SER
168
n
141
SER
168
A
CYS
169
n
142
CYS
169
A
GLY
170
n
143
GLY
170
A
VAL
171
n
144
VAL
171
A
VAL
172
n
145
VAL
172
A
ALA
173
n
146
ALA
173
A
GLU
174
n
147
GLU
174
A
ASN
175
n
148
ASN
175
A
TYR
176
n
149
TYR
176
A
LYS
177
n
150
LYS
177
A
SER
178
n
151
SER
178
A
PRO
179
n
152
PRO
179
A
ILE
180
n
153
ILE
180
A
CYS
181
n
154
CYS
181
A
PRO
182
n
155
PRO
182
A
ALA
183
n
156
ALA
183
A
LEU
184
n
157
LEU
184
A
SER
185
n
158
SER
185
A
GLY
186
n
159
GLY
186
A
LYS
187
n
160
LYS
187
A
GLY
188
n
161
GLY
188
A
ALA
189
n
162
ALA
189
A
PRO
190
n
163
PRO
190
A
GLU
191
n
164
GLU
191
A
PRO
192
n
165
PRO
192
A
GLY
193
n
166
GLY
193
A
THR
194
n
167
THR
194
A
GLN
195
n
168
GLN
195
A
ASP
196
n
169
ASP
196
A
ALA
197
n
170
ALA
197
A
SER
198
n
171
SER
198
A
ILE
199
n
172
ILE
199
A
PRO
200
n
173
PRO
200
A
VAL
201
n
174
VAL
201
A
GLU
202
n
175
GLU
202
A
LYS
203
n
176
LYS
203
A
LEU
204
n
177
LEU
204
A
PRO
205
n
178
PRO
205
A
ARG
206
n
179
ARG
206
A
CYS
207
n
180
CYS
207
A
GLU
208
n
181
GLU
208
A
GLU
209
n
182
GLU
209
A
ALA
210
n
183
ALA
210
A
GLY
211
n
184
GLY
211
A
CYS
212
n
185
CYS
212
A
GLY
213
n
186
GLY
213
A
GLY
214
n
187
GLY
214
A
LEU
215
n
188
LEU
215
A
LEU
216
n
189
LEU
216
A
ARG
217
n
190
ARG
217
A
PRO
218
n
191
PRO
218
A
HIS
219
n
192
HIS
219
A
VAL
220
n
193
VAL
220
A
VAL
221
n
194
VAL
221
A
TRP
222
n
195
TRP
222
A
PHE
223
n
196
PHE
223
A
GLY
224
n
197
GLY
224
A
GLU
225
n
198
GLU
225
A
ASN
226
n
199
ASN
226
A
LEU
227
n
200
LEU
227
A
ASP
228
n
201
ASP
228
A
PRO
229
n
202
PRO
229
A
ALA
230
n
203
ALA
230
A
ILE
231
n
204
ILE
231
A
LEU
232
n
205
LEU
232
A
GLU
233
n
206
GLU
233
A
GLU
234
n
207
GLU
234
A
VAL
235
n
208
VAL
235
A
ASP
236
n
209
ASP
236
A
ARG
237
n
210
ARG
237
A
GLU
238
n
211
GLU
238
A
LEU
239
n
212
LEU
239
A
ALA
240
n
213
ALA
240
A
HIS
241
n
214
HIS
241
A
CYS
242
n
215
CYS
242
A
ASP
243
n
216
ASP
243
A
LEU
244
n
217
LEU
244
A
CYS
245
n
218
CYS
245
A
LEU
246
n
219
LEU
246
A
VAL
247
n
220
VAL
247
A
VAL
248
n
221
VAL
248
A
GLY
249
n
222
GLY
249
A
THR
250
n
223
THR
250
A
SER
251
n
224
SER
251
A
SER
252
n
225
SER
252
A
VAL
253
n
226
VAL
253
A
VAL
254
n
227
VAL
254
A
TYR
255
n
228
TYR
255
A
PRO
256
n
229
PRO
256
A
ALA
257
n
230
ALA
257
A
ALA
258
n
231
ALA
258
A
MET
259
n
232
MET
259
A
PHE
260
n
233
PHE
260
A
ALA
261
n
234
ALA
261
A
PRO
262
n
235
PRO
262
A
GLN
263
n
236
GLN
263
A
VAL
264
n
237
VAL
264
A
ALA
265
n
238
ALA
265
A
ALA
266
n
239
ALA
266
A
ARG
267
n
240
ARG
267
A
GLY
268
n
241
GLY
268
A
VAL
269
n
242
VAL
269
A
PRO
270
n
243
PRO
270
A
VAL
271
n
244
VAL
271
A
ALA
272
n
245
ALA
272
A
GLU
273
n
246
GLU
273
A
PHE
274
n
247
PHE
274
A
ASN
275
n
248
ASN
275
A
THR
276
n
249
THR
276
A
GLU
277
n
250
GLU
277
A
THR
278
n
251
THR
278
A
THR
279
n
252
THR
279
A
PRO
280
n
253
PRO
280
A
ALA
281
n
254
ALA
281
A
THR
282
n
255
THR
282
A
ASN
283
n
256
ASN
283
A
ARG
284
n
257
ARG
284
A
PHE
285
n
258
PHE
285
A
ARG
286
n
259
ARG
286
A
PHE
287
n
260
PHE
287
A
HIS
288
n
261
HIS
288
A
PHE
289
n
262
PHE
289
A
GLN
290
n
263
GLN
290
A
GLY
291
n
264
GLY
291
A
PRO
292
n
265
PRO
292
A
CYS
293
n
266
CYS
293
A
GLY
294
n
267
GLY
294
A
THR
295
n
268
THR
295
A
THR
296
n
269
THR
296
A
LEU
297
n
270
LEU
297
A
PRO
298
n
271
PRO
298
A
GLU
299
n
272
GLU
299
A
ALA
300
n
273
ALA
300
A
LEU
301
n
274
LEU
301
A
n
275
302
A
n
1
28
B
n
2
29
B
n
3
30
B
n
4
31
B
n
5
32
B
THR
33
n
6
THR
33
B
ALA
34
n
7
ALA
34
B
ARG
35
n
8
ARG
35
B
PRO
36
n
9
PRO
36
B
SER
37
n
10
SER
37
B
SER
38
n
11
SER
38
B
SER
39
n
12
SER
39
B
MET
40
n
13
MET
40
B
ALA
41
n
14
ALA
41
B
ASP
42
n
15
ASP
42
B
PHE
43
n
16
PHE
43
B
ARG
44
n
17
ARG
44
B
LYS
45
n
18
LYS
45
B
PHE
46
n
19
PHE
46
B
PHE
47
n
20
PHE
47
B
ALA
48
n
21
ALA
48
B
LYS
49
n
22
LYS
49
B
ALA
50
n
23
ALA
50
B
LYS
51
n
24
LYS
51
B
HIS
52
n
25
HIS
52
B
ILE
53
n
26
ILE
53
B
VAL
54
n
27
VAL
54
B
ILE
55
n
28
ILE
55
B
ILE
56
n
29
ILE
56
B
SER
57
n
30
SER
57
B
GLY
58
n
31
GLY
58
B
ALA
59
n
32
ALA
59
B
GLY
60
n
33
GLY
60
B
VAL
61
n
34
VAL
61
B
SER
62
n
35
SER
62
B
ALA
63
n
36
ALA
63
B
GLU
64
n
37
GLU
64
B
SER
65
n
38
SER
65
B
GLY
66
n
39
GLY
66
B
VAL
67
n
40
VAL
67
B
PRO
68
n
41
PRO
68
B
THR
69
n
42
THR
69
B
PHE
70
n
43
PHE
70
B
ARG
71
n
44
ARG
71
B
GLY
72
n
45
GLY
72
B
ALA
73
n
46
ALA
73
B
GLY
74
n
47
GLY
74
B
GLY
75
n
48
GLY
75
B
TYR
76
n
49
TYR
76
B
TRP
77
n
50
TRP
77
B
ARG
78
n
51
ARG
78
B
LYS
79
n
52
LYS
79
B
TRP
80
n
53
TRP
80
B
GLN
81
n
54
GLN
81
B
ALA
82
n
55
ALA
82
B
GLN
83
n
56
GLN
83
B
ASP
84
n
57
ASP
84
B
LEU
85
n
58
LEU
85
B
ALA
86
n
59
ALA
86
B
THR
87
n
60
THR
87
B
PRO
88
n
61
PRO
88
B
LEU
89
n
62
LEU
89
B
ALA
90
n
63
ALA
90
B
PHE
91
n
64
PHE
91
B
ALA
92
n
65
ALA
92
B
HIS
93
n
66
HIS
93
B
ASN
94
n
67
ASN
94
B
PRO
95
n
68
PRO
95
B
SER
96
n
69
SER
96
B
ARG
97
n
70
ARG
97
B
VAL
98
n
71
VAL
98
B
TRP
99
n
72
TRP
99
B
GLU
100
n
73
GLU
100
B
PHE
101
n
74
PHE
101
B
TYR
102
n
75
TYR
102
B
HIS
103
n
76
HIS
103
B
TYR
104
n
77
TYR
104
B
ARG
105
n
78
ARG
105
B
ARG
106
n
79
ARG
106
B
GLU
107
n
80
GLU
107
B
VAL
108
n
81
VAL
108
B
MET
109
n
82
MET
109
B
GLY
110
n
83
GLY
110
B
SER
111
n
84
SER
111
B
LYS
112
n
85
LYS
112
B
GLU
113
n
86
GLU
113
B
PRO
114
n
87
PRO
114
B
ASN
115
n
88
ASN
115
B
ALA
116
n
89
ALA
116
B
GLY
117
n
90
GLY
117
B
HIS
118
n
91
HIS
118
B
ARG
119
n
92
ARG
119
B
ALA
120
n
93
ALA
120
B
ILE
121
n
94
ILE
121
B
ALA
122
n
95
ALA
122
B
GLU
123
n
96
GLU
123
B
CYS
124
n
97
CYS
124
B
GLU
125
n
98
GLU
125
B
THR
126
n
99
THR
126
B
ARG
127
n
100
ARG
127
B
LEU
128
n
101
LEU
128
B
GLY
129
n
102
GLY
129
B
LYS
130
n
103
LYS
130
B
GLN
131
n
104
GLN
131
B
GLY
132
n
105
GLY
132
B
ARG
133
n
106
ARG
133
B
ARG
134
n
107
ARG
134
B
VAL
135
n
108
VAL
135
B
VAL
136
n
109
VAL
136
B
VAL
137
n
110
VAL
137
B
ILE
138
n
111
ILE
138
B
THR
139
n
112
THR
139
B
GLN
140
n
113
GLN
140
B
ASN
141
n
114
ASN
141
B
ILE
142
n
115
ILE
142
B
ASP
143
n
116
ASP
143
B
GLU
144
n
117
GLU
144
B
LEU
145
n
118
LEU
145
B
HIS
146
n
119
HIS
146
B
ARG
147
n
120
ARG
147
B
LYS
148
n
121
LYS
148
B
ALA
149
n
122
ALA
149
B
GLY
150
n
123
GLY
150
B
THR
151
n
124
THR
151
B
LYS
152
n
125
LYS
152
B
ASN
153
n
126
ASN
153
B
LEU
154
n
127
LEU
154
B
LEU
155
n
128
LEU
155
B
GLU
156
n
129
GLU
156
B
ILE
157
n
130
ILE
157
B
HIS
158
n
131
HIS
158
B
GLY
159
n
132
GLY
159
B
SER
160
n
133
SER
160
B
LEU
161
n
134
LEU
161
B
PHE
162
n
135
PHE
162
B
LYS
163
n
136
LYS
163
B
THR
164
n
137
THR
164
B
ARG
165
n
138
ARG
165
B
CYS
166
n
139
CYS
166
B
THR
167
n
140
THR
167
B
SER
168
n
141
SER
168
B
CYS
169
n
142
CYS
169
B
GLY
170
n
143
GLY
170
B
VAL
171
n
144
VAL
171
B
VAL
172
n
145
VAL
172
B
ALA
173
n
146
ALA
173
B
GLU
174
n
147
GLU
174
B
ASN
175
n
148
ASN
175
B
TYR
176
n
149
TYR
176
B
LYS
177
n
150
LYS
177
B
SER
178
n
151
SER
178
B
PRO
179
n
152
PRO
179
B
ILE
180
n
153
ILE
180
B
CYS
181
n
154
CYS
181
B
PRO
182
n
155
PRO
182
B
ALA
183
n
156
ALA
183
B
LEU
184
n
157
LEU
184
B
SER
185
n
158
SER
185
B
GLY
186
n
159
GLY
186
B
LYS
187
n
160
LYS
187
B
GLY
188
n
161
GLY
188
B
ALA
189
n
162
ALA
189
B
PRO
190
n
163
PRO
190
B
GLU
191
n
164
GLU
191
B
PRO
192
n
165
PRO
192
B
GLY
193
n
166
GLY
193
B
THR
194
n
167
THR
194
B
GLN
195
n
168
GLN
195
B
ASP
196
n
169
ASP
196
B
ALA
197
n
170
ALA
197
B
SER
198
n
171
SER
198
B
ILE
199
n
172
ILE
199
B
PRO
200
n
173
PRO
200
B
VAL
201
n
174
VAL
201
B
GLU
202
n
175
GLU
202
B
LYS
203
n
176
LYS
203
B
LEU
204
n
177
LEU
204
B
PRO
205
n
178
PRO
205
B
ARG
206
n
179
ARG
206
B
CYS
207
n
180
CYS
207
B
GLU
208
n
181
GLU
208
B
GLU
209
n
182
GLU
209
B
ALA
210
n
183
ALA
210
B
GLY
211
n
184
GLY
211
B
CYS
212
n
185
CYS
212
B
GLY
213
n
186
GLY
213
B
GLY
214
n
187
GLY
214
B
LEU
215
n
188
LEU
215
B
LEU
216
n
189
LEU
216
B
ARG
217
n
190
ARG
217
B
PRO
218
n
191
PRO
218
B
HIS
219
n
192
HIS
219
B
VAL
220
n
193
VAL
220
B
VAL
221
n
194
VAL
221
B
TRP
222
n
195
TRP
222
B
PHE
223
n
196
PHE
223
B
GLY
224
n
197
GLY
224
B
GLU
225
n
198
GLU
225
B
ASN
226
n
199
ASN
226
B
LEU
227
n
200
LEU
227
B
ASP
228
n
201
ASP
228
B
PRO
229
n
202
PRO
229
B
ALA
230
n
203
ALA
230
B
ILE
231
n
204
ILE
231
B
LEU
232
n
205
LEU
232
B
GLU
233
n
206
GLU
233
B
GLU
234
n
207
GLU
234
B
VAL
235
n
208
VAL
235
B
ASP
236
n
209
ASP
236
B
ARG
237
n
210
ARG
237
B
GLU
238
n
211
GLU
238
B
LEU
239
n
212
LEU
239
B
ALA
240
n
213
ALA
240
B
HIS
241
n
214
HIS
241
B
CYS
242
n
215
CYS
242
B
ASP
243
n
216
ASP
243
B
LEU
244
n
217
LEU
244
B
CYS
245
n
218
CYS
245
B
LEU
246
n
219
LEU
246
B
VAL
247
n
220
VAL
247
B
VAL
248
n
221
VAL
248
B
GLY
249
n
222
GLY
249
B
THR
250
n
223
THR
250
B
SER
251
n
224
SER
251
B
SER
252
n
225
SER
252
B
VAL
253
n
226
VAL
253
B
VAL
254
n
227
VAL
254
B
TYR
255
n
228
TYR
255
B
PRO
256
n
229
PRO
256
B
ALA
257
n
230
ALA
257
B
ALA
258
n
231
ALA
258
B
MET
259
n
232
MET
259
B
PHE
260
n
233
PHE
260
B
ALA
261
n
234
ALA
261
B
PRO
262
n
235
PRO
262
B
GLN
263
n
236
GLN
263
B
VAL
264
n
237
VAL
264
B
ALA
265
n
238
ALA
265
B
ALA
266
n
239
ALA
266
B
ARG
267
n
240
ARG
267
B
GLY
268
n
241
GLY
268
B
VAL
269
n
242
VAL
269
B
PRO
270
n
243
PRO
270
B
VAL
271
n
244
VAL
271
B
ALA
272
n
245
ALA
272
B
GLU
273
n
246
GLU
273
B
PHE
274
n
247
PHE
274
B
ASN
275
n
248
ASN
275
B
THR
276
n
249
THR
276
B
GLU
277
n
250
GLU
277
B
THR
278
n
251
THR
278
B
THR
279
n
252
THR
279
B
PRO
280
n
253
PRO
280
B
ALA
281
n
254
ALA
281
B
THR
282
n
255
THR
282
B
ASN
283
n
256
ASN
283
B
ARG
284
n
257
ARG
284
B
PHE
285
n
258
PHE
285
B
ARG
286
n
259
ARG
286
B
PHE
287
n
260
PHE
287
B
HIS
288
n
261
HIS
288
B
PHE
289
n
262
PHE
289
B
GLN
290
n
263
GLN
290
B
GLY
291
n
264
GLY
291
B
PRO
292
n
265
PRO
292
B
CYS
293
n
266
CYS
293
B
GLY
294
n
267
GLY
294
B
THR
295
n
268
THR
295
B
THR
296
n
269
THR
296
B
LEU
297
n
270
LEU
297
B
PRO
298
n
271
PRO
298
B
GLU
299
n
272
GLU
299
B
ALA
300
n
273
ALA
300
B
LEU
301
n
274
LEU
301
B
ALA
302
n
275
ALA
302
B
n
1
1
F
HIS
2
n
2
HIS
2
F
LYS
3
n
3
LYS
3
F
FDL
4
n
4
FDL
4
F
1
0.521
author_defined_assembly
1
monomeric
author_defined_assembly
2
dimeric
A
CYS
166
A
SG
CYS
139
1_555
A
ZN
401
D
ZN
ZN
1_555
A
CYS
169
A
SG
CYS
142
1_555
114.4
A
CYS
166
A
SG
CYS
139
1_555
A
ZN
401
D
ZN
ZN
1_555
A
CYS
207
A
SG
CYS
180
1_555
109.0
A
CYS
169
A
SG
CYS
142
1_555
A
ZN
401
D
ZN
ZN
1_555
A
CYS
207
A
SG
CYS
180
1_555
125.7
A
CYS
166
A
SG
CYS
139
1_555
A
ZN
401
D
ZN
ZN
1_555
A
CYS
212
A
SG
CYS
185
1_555
97.7
A
CYS
169
A
SG
CYS
142
1_555
A
ZN
401
D
ZN
ZN
1_555
A
CYS
212
A
SG
CYS
185
1_555
98.4
A
CYS
207
A
SG
CYS
180
1_555
A
ZN
401
D
ZN
ZN
1_555
A
CYS
212
A
SG
CYS
185
1_555
106.5
B
CYS
166
B
SG
CYS
139
1_555
B
ZN
401
E
ZN
ZN
1_555
B
CYS
169
B
SG
CYS
142
1_555
103.9
B
CYS
166
B
SG
CYS
139
1_555
B
ZN
401
E
ZN
ZN
1_555
B
CYS
207
B
SG
CYS
180
1_555
112.6
B
CYS
169
B
SG
CYS
142
1_555
B
ZN
401
E
ZN
ZN
1_555
B
CYS
207
B
SG
CYS
180
1_555
108.0
B
CYS
166
B
SG
CYS
139
1_555
B
ZN
401
E
ZN
ZN
1_555
B
CYS
212
B
SG
CYS
185
1_555
95.2
B
CYS
169
B
SG
CYS
142
1_555
B
ZN
401
E
ZN
ZN
1_555
B
CYS
212
B
SG
CYS
185
1_555
128.3
B
CYS
207
B
SG
CYS
180
1_555
B
ZN
401
E
ZN
ZN
1_555
B
CYS
212
B
SG
CYS
185
1_555
107.9
F
FDL
4
C
FDL
4
LYS
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
O
LEU
155
A
O
LEU
128
A
N
THR
139
A
N
THR
112
A
O
ILE
138
A
O
ILE
111
A
N
SER
57
A
N
SER
30
A
N
VAL
54
A
N
VAL
27
A
O
LEU
246
A
O
LEU
219
A
N
VAL
247
A
N
VAL
220
A
O
PHE
274
A
O
PHE
247
A
N
GLU
273
A
N
GLU
246
A
O
PHE
287
A
O
PHE
260
A
O
ALA
173
A
O
ALA
146
A
N
THR
164
A
N
THR
137
A
N
ARG
165
A
N
ARG
138
A
O
ARG
217
A
O
ARG
190
B
O
LEU
155
B
O
LEU
128
B
N
VAL
137
B
N
VAL
110
B
O
VAL
136
B
O
VAL
109
B
N
ILE
55
B
N
ILE
28
B
N
VAL
54
B
N
VAL
27
B
O
LEU
246
B
O
LEU
219
B
N
VAL
247
B
N
VAL
220
B
O
PHE
274
B
O
PHE
247
B
N
GLU
273
B
N
GLU
246
B
O
PHE
289
B
O
PHE
262
B
O
ALA
173
B
O
ALA
146
B
N
THR
164
B
N
THR
137
B
N
ARG
165
B
N
ARG
138
B
O
ARG
217
B
O
ARG
190
1
A
GLY
28
A
GLY
1
1
Y
1
A
ILE
29
A
ILE
2
1
Y
1
A
ASP
30
A
ASP
3
1
Y
1
A
PRO
31
A
PRO
4
1
Y
1
A
PHE
32
A
PHE
5
1
Y
1
A
THR
33
A
THR
6
1
Y
1
A
ALA
34
A
ALA
7
1
Y
1
A
ALA
302
A
ALA
275
1
Y
1
B
GLY
28
B
GLY
1
1
Y
1
B
ILE
29
B
ILE
2
1
Y
1
B
ASP
30
B
ASP
3
1
Y
1
B
PRO
31
B
PRO
4
1
Y
1
B
PHE
32
B
PHE
5
1
Y
1
F
ARG
1
C
ARG
1
1
Y
1
B
B
O
N
GLY
GLN
129
131
2.06
1
A
A
O
NH2
CYS
ARG
242
267
2.07
1
A
A
OG
OD2
SER
ASP
62
143
2.19
1
B
B
O
N
ALA
ASP
82
84
2.19
1
12.12
1.50
119.30
131.42
A
A
A
C
N
CA
VAL
PRO
PRO
67
68
68
Y
1
A
PRO
36
-18.05
94.34
1
A
SER
65
-61.84
-134.18
1
A
PHE
70
-131.47
-50.91
1
A
ARG
71
-60.69
73.13
1
A
TRP
77
66.30
112.73
1
A
ARG
78
34.35
-128.34
1
A
ALA
86
-94.00
38.08
1
A
ARG
105
-37.14
-78.73
1
A
GLU
107
-63.48
-78.77
1
A
VAL
108
-25.74
-28.45
1
A
ARG
127
-34.09
-77.85
1
A
LEU
161
-94.93
34.94
1
A
PHE
162
-142.96
29.94
1
A
SER
168
-109.25
-66.51
1
A
CYS
169
-102.11
48.21
1
A
ALA
189
-30.19
122.81
1
A
ASP
196
-65.90
-137.00
1
A
ALA
197
-165.38
-50.64
1
A
PRO
200
-35.77
127.62
1
A
CYS
212
-118.04
-84.58
1
A
ASN
226
-101.94
-166.23
1
A
SER
251
-92.99
-149.06
1
A
ALA
257
-169.53
109.47
1
A
ALA
258
-176.90
-59.84
1
A
MET
259
-44.33
-12.20
1
A
THR
278
-33.99
-96.12
1
A
PHE
285
-160.76
-162.49
1
A
THR
295
-50.20
-84.19
1
A
THR
296
-42.74
-75.91
1
B
ARG
35
-134.75
-57.61
1
B
HIS
52
-162.68
98.88
1
B
VAL
61
-49.88
-17.90
1
B
GLU
64
-49.01
0.69
1
B
PRO
68
-60.83
92.07
1
B
THR
69
-66.30
97.34
1
B
PHE
70
-73.20
32.25
1
B
ARG
78
71.15
-141.93
1
B
GLN
83
-36.74
-11.46
1
B
PRO
95
-45.32
-16.63
1
B
SER
111
173.71
-50.06
1
B
ASN
115
-48.03
156.27
1
B
LYS
130
-26.23
-16.36
1
B
ASN
141
-54.12
108.59
1
B
GLU
144
75.19
-4.50
1
B
LEU
145
-46.50
-19.23
1
B
LYS
148
-68.11
6.00
1
B
ASN
153
-64.62
83.68
1
B
LYS
177
-35.97
104.93
1
B
SER
198
73.79
47.14
1
B
CYS
212
-131.42
-60.91
1
B
LEU
227
-69.62
-177.69
1
B
VAL
253
-152.07
-36.90
1
B
ALA
258
-63.44
3.73
1
B
PHE
260
-130.67
-45.77
1
B
GLN
263
-69.65
15.14
1
B
ALA
266
-59.34
8.61
1
B
GLU
277
101.36
17.11
1
B
THR
278
-28.98
103.35
1
B
THR
279
3.01
-70.97
1
B
ALA
281
-172.65
124.87
1
B
ASN
283
106.49
-153.50
1
B
ARG
284
-139.64
-71.63
1
B
PHE
285
-151.70
-14.43
1
B
ARG
286
-134.99
-135.43
1
B
LEU
301
-92.77
55.72
1
F
LYS
3
139.94
-159.39
102.990
40.8352
12.310
5.0200
-0.0000
-4.0806
11.9911
-0.0000
-17.0111
0.2521
0.1986
0.2046
2.6010
38.7780
776
14570
15353
5.0500
97.6500
1.000
0.200
0.8104
using phenix and taking the twin operation into account
1
0.000
MOLECULAR REPLACEMENT
25.8100
0.9000
1.1100
TWIN_LSQ_F
FLAT BULK SOLVENT MODEL
25.6710
0.3340
2.6010
38.7780
15
4189
19
0
4155
0.007
4289
1.325
5821
19.959
1567
0.069
621
0.008
767
0.3782
0.3218
2.8069
151
2834
2834
91.00
0.3281
0.2505
3.0890
151
2882
2882
93.00
0.2544
0.2055
3.5352
154
2915
2915
93.00
0.2270
0.1771
4.4511
154
2948
2948
94.00
0.2152
0.1689
27.9466
150
2991
2991
94.00
2.6
38.8
4HDA
15731
15354
0.075
1
14.5
3.6
97.6
0.45
2.60
2.76
3.0
1
3.3
93.4
data scaling
XDS
phasing
MOLREP
refinement
PHENIX
(phenix.refine: 1.7.3_928)
data reduction
XDS
data scaling
XSCALE
Crystal structure of human Sirt5 in complex with Fluor-de-Lys peptide and resveratrol
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
5
N
N
5
N
N
A
SER
39
A
SER
12
HELX_P
A
ALA
50
A
ALA
23
1
1
12
A
GLY
58
A
GLY
31
HELX_P
A
SER
65
A
SER
38
1
2
8
A
GLN
81
A
GLN
54
HELX_P
A
ALA
86
A
ALA
59
1
3
6
A
LEU
89
A
LEU
62
HELX_P
A
ASN
94
A
ASN
67
1
4
6
A
PRO
95
A
PRO
68
HELX_P
A
MET
109
A
MET
82
1
5
15
A
ASN
115
A
ASN
88
HELX_P
A
GLY
132
A
GLY
105
1
6
18
A
GLU
144
A
GLU
117
HELX_P
A
GLY
150
A
GLY
123
1
7
7
A
CYS
181
A
CYS
154
HELX_P
A
SER
185
A
SER
158
5
8
5
A
PRO
200
A
PRO
173
HELX_P
A
LEU
204
A
LEU
177
5
9
5
A
ASP
228
A
ASP
201
HELX_P
A
ASP
236
A
ASP
209
1
10
9
A
ASP
236
A
ASP
209
HELX_P
A
HIS
241
A
HIS
214
1
11
6
A
PHE
260
A
PHE
233
HELX_P
A
GLY
268
A
GLY
241
1
12
9
A
THR
295
A
THR
268
HELX_P
A
LEU
301
A
LEU
274
1
13
7
B
SER
39
B
SER
12
HELX_P
B
ALA
48
B
ALA
21
1
14
10
B
ALA
59
B
ALA
32
HELX_P
B
GLU
64
B
GLU
37
1
15
6
B
GLN
81
B
GLN
54
HELX_P
B
LEU
85
B
LEU
58
5
16
5
B
THR
87
B
THR
60
HELX_P
B
ASN
94
B
ASN
67
1
17
8
B
ARG
97
B
ARG
70
HELX_P
B
VAL
108
B
VAL
81
1
18
12
B
ASN
115
B
ASN
88
HELX_P
B
LYS
130
B
LYS
103
1
19
16
B
HIS
146
B
HIS
119
HELX_P
B
GLY
150
B
GLY
123
5
20
5
B
CYS
181
B
CYS
154
HELX_P
B
SER
185
B
SER
158
5
21
5
B
ASP
228
B
ASP
201
HELX_P
B
CYS
242
B
CYS
215
1
22
15
B
PRO
256
B
PRO
229
HELX_P
B
PHE
260
B
PHE
233
5
23
5
B
ALA
261
B
ALA
234
HELX_P
B
ALA
266
B
ALA
239
1
24
6
B
PRO
292
B
PRO
265
HELX_P
B
LEU
301
B
LEU
274
1
25
10
metalc
2.289
A
CYS
166
A
SG
CYS
139
1_555
A
ZN
401
D
ZN
ZN
1_555
metalc
2.313
A
CYS
169
A
SG
CYS
142
1_555
A
ZN
401
D
ZN
ZN
1_555
metalc
2.460
A
CYS
207
A
SG
CYS
180
1_555
A
ZN
401
D
ZN
ZN
1_555
metalc
2.277
A
CYS
212
A
SG
CYS
185
1_555
A
ZN
401
D
ZN
ZN
1_555
metalc
2.320
B
CYS
166
B
SG
CYS
139
1_555
B
ZN
401
E
ZN
ZN
1_555
metalc
2.318
B
CYS
169
B
SG
CYS
142
1_555
B
ZN
401
E
ZN
ZN
1_555
metalc
2.360
B
CYS
207
B
SG
CYS
180
1_555
B
ZN
401
E
ZN
ZN
1_555
metalc
2.287
B
CYS
212
B
SG
CYS
185
1_555
B
ZN
401
E
ZN
ZN
1_555
HYDROLASE/HYDROLASE ACTIVATOR
NAD-dependent deacetylase, Sirtuin, mitochondrial, activator complex, resveratrol, HYDROLASE-HYDROLASE ACTIVATOR complex
A
SER
178
A
SER
151
1
A
PRO
179
A
PRO
152
-1.09
A
TYR
255
A
TYR
228
1
A
PRO
256
A
PRO
229
-1.26
B
SER
178
B
SER
151
1
B
PRO
179
B
PRO
152
1.66
B
TYR
255
B
TYR
228
1
B
PRO
256
B
PRO
229
10.37
SIR5_HUMAN
UNP
1
34
Q9NXA8
ARPSSSMADFRKFFAKAKHIVIISGAGVSAESGVPTFRGAGGYWRKWQAQDLATPLAFAHNPSRVWEFYHYRREVMGSKE
PNAGHRAIAECETRLGKQGRRVVVITQNIDELHRKAGTKNLLEIHGSLFKTRCTSCGVVAENYKSPICPALSGKGAPEPG
TQDASIPVEKLPRCEEAGCGGLLRPHVVWFGENLDPAILEEVDRELAHCDLCLVVGTSSVVYPAAMFAPQVAARGVPVAE
FNTETTPATNRFRFHFQGPCGTTLPEALA
4HDA
PDB
2
1
4HDA
RHKK
34
302
4HDA
34
302
Q9NXA8
A
1
7
275
34
302
4HDA
34
302
Q9NXA8
B
1
7
275
1
4
4HDA
1
4
4HDA
F
2
1
4
1
expression tag
GLY
28
4HDA
A
Q9NXA8
UNP
1
1
expression tag
ILE
29
4HDA
A
Q9NXA8
UNP
2
1
expression tag
ASP
30
4HDA
A
Q9NXA8
UNP
3
1
expression tag
PRO
31
4HDA
A
Q9NXA8
UNP
4
1
expression tag
PHE
32
4HDA
A
Q9NXA8
UNP
5
1
expression tag
THR
33
4HDA
A
Q9NXA8
UNP
6
2
expression tag
GLY
28
4HDA
B
Q9NXA8
UNP
1
2
expression tag
ILE
29
4HDA
B
Q9NXA8
UNP
2
2
expression tag
ASP
30
4HDA
B
Q9NXA8
UNP
3
2
expression tag
PRO
31
4HDA
B
Q9NXA8
UNP
4
2
expression tag
PHE
32
4HDA
B
Q9NXA8
UNP
5
2
expression tag
THR
33
4HDA
B
Q9NXA8
UNP
6
6
3
6
3
parallel
parallel
parallel
parallel
parallel
anti-parallel
anti-parallel
parallel
parallel
parallel
parallel
parallel
anti-parallel
anti-parallel
A
LEU
154
A
LEU
127
A
GLU
156
A
GLU
129
A
ARG
134
A
ARG
107
A
THR
139
A
THR
112
A
HIS
52
A
HIS
25
A
SER
57
A
SER
30
A
LEU
244
A
LEU
217
A
GLY
249
A
GLY
222
A
VAL
271
A
VAL
244
A
ASN
275
A
ASN
248
A
PHE
287
A
PHE
260
A
GLN
290
A
GLN
263
A
VAL
172
A
VAL
145
A
GLU
174
A
GLU
147
A
GLY
159
A
GLY
132
A
CYS
166
A
CYS
139
A
LEU
216
A
LEU
189
A
VAL
220
A
VAL
193
B
LEU
154
B
LEU
127
B
GLU
156
B
GLU
129
B
ARG
134
B
ARG
107
B
THR
139
B
THR
112
B
HIS
52
B
HIS
25
B
SER
57
B
SER
30
B
LEU
244
B
LEU
217
B
VAL
248
B
VAL
221
B
VAL
271
B
VAL
244
B
ASN
275
B
ASN
248
B
HIS
288
B
HIS
261
B
GLN
290
B
GLN
263
B
VAL
172
B
VAL
145
B
GLU
174
B
GLU
147
B
GLY
159
B
GLY
132
B
CYS
166
B
CYS
139
B
LEU
216
B
LEU
189
B
VAL
220
B
VAL
193
BINDING SITE FOR RESIDUE ZN A 401
A
ZN
401
Software
4
BINDING SITE FOR RESIDUE ZN B 401
B
ZN
401
Software
4
BINDING SITE FOR RESIDUE STL B 402
B
STL
402
Software
4
A
CYS
166
A
CYS
139
4
1_555
A
CYS
169
A
CYS
142
4
1_555
A
CYS
207
A
CYS
180
4
1_555
A
CYS
212
A
CYS
185
4
1_555
B
CYS
166
B
CYS
139
4
1_555
B
CYS
169
B
CYS
142
4
1_555
B
CYS
207
B
CYS
180
4
1_555
B
CYS
212
B
CYS
185
4
1_555
B
LYS
51
B
LYS
24
4
1_455
B
GLY
72
B
GLY
45
4
1_555
B
THR
279
B
THR
252
4
1_555
F
FDL
4
C
FDL
4
4
1_555
4
P 1 21 1