0.023317
0.000000
0.000000
0.000000
0.014780
0.000000
0.000000
0.000000
0.014887
0.00000
0.00000
0.00000
Graves, B.J.
Lukacs, C.M.
Kammlott, R.U.
Crowther, R.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
42.887
67.657
67.173
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
C30 H30 Cl2 N4 O4
581.490
4-({(4S,5R)-4,5-bis(4-chlorophenyl)-2-[4-methoxy-2-(propan-2-yloxy)phenyl]-4,5-dihydro-1H-imidazol-1-yl}carbonyl)piperazin-2-one
Nutlin 3a
non-polymer
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
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
O
N
251
N
C
N
252
N
N
N
253
N
C
N
254
N
C
N
255
N
O
N
256
N
N
N
257
N
C
N
258
N
C
N
259
N
N
N
260
N
C
Y
261
N
C
Y
262
N
C
Y
263
N
C
Y
264
N
C
N
265
N
O
N
266
N
C
N
267
N
C
N
268
N
C
Y
269
N
C
Y
270
N
C
N
271
N
O
N
272
N
C
N
273
R
C
Y
274
N
C
Y
275
N
C
Y
276
N
C
Y
277
N
C
N
278
N
CL
Y
279
N
C
Y
280
N
C
N
281
S
C
N
282
N
N
Y
283
N
C
Y
284
N
C
Y
285
N
C
Y
286
N
C
N
287
N
CL
Y
288
N
C
Y
289
N
C
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
H
N
299
N
H
N
300
N
H
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
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
N
N
321
S
C
N
322
N
C
N
323
N
O
N
324
N
C
Y
325
N
C
Y
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
C
N
331
N
O
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
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
N
N
344
S
C
N
345
N
C
N
346
N
O
N
347
N
C
N
348
N
C
N
349
N
C
N
350
N
O
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
N
N
361
S
C
N
362
N
C
N
363
N
O
N
364
N
C
N
365
N
O
N
366
N
O
N
367
N
H
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
S
N
375
N
O
N
376
N
O
N
377
N
O
N
378
N
O
N
379
N
N
N
380
S
C
N
381
N
C
N
382
N
O
N
383
R
C
N
384
N
O
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
N
N
397
S
C
N
398
N
C
N
399
N
O
N
400
N
C
Y
401
N
C
Y
402
N
C
Y
403
N
C
Y
404
N
C
Y
405
N
C
Y
406
N
C
N
407
N
O
N
408
N
O
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
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
N
N
421
S
C
N
422
N
C
N
423
N
O
N
424
N
C
N
425
N
C
N
426
N
C
N
427
N
O
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
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
doub
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
Y
250
N
doub
Y
251
N
sing
N
252
N
sing
N
253
N
sing
Y
254
N
sing
Y
255
N
doub
Y
256
N
sing
N
257
N
sing
N
258
N
doub
N
259
N
sing
Y
260
N
doub
N
261
N
sing
Y
262
N
sing
N
263
N
sing
Y
264
N
doub
Y
265
N
doub
Y
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
Y
270
N
doub
Y
271
N
sing
Y
272
N
sing
Y
273
N
doub
Y
274
N
sing
N
275
N
sing
N
276
N
sing
Y
277
N
doub
Y
278
N
doub
Y
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
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
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
doub
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
Y
322
N
doub
Y
323
N
sing
Y
324
N
sing
N
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
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
doub
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
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
doub
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
doub
N
365
N
doub
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
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
doub
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
Y
395
N
doub
Y
396
N
sing
Y
397
N
sing
N
398
N
sing
Y
399
N
doub
N
400
N
sing
Y
401
N
doub
N
402
N
sing
Y
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
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
doub
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
US
ACS Med Chem Lett
1948-5875
4
466
469
10.1021/ml4000657
24900694
Discovery of RG7112: A Small-Molecule MDM2 Inhibitor in Clinical Development.
2013
US
Cancer Res.
CNREA8
0400
0008-5472
73
2587
2597
10.1158/0008-5472.CAN-12-2807
23400593
MDM2 Small-Molecule Antagonist RG7112 Activates p53 Signaling and Regresses Human Tumors in Preclinical Cancer Models.
2013
US
Science
SCIEAS
0038
0036-8075
303
844
848
10.1126/science.1092472
14704432
In vivo activation of the p53 pathway by small-molecule antagonists of MDM2.
2004
10.2210/pdb4j3e/pdb
pdb_00004j3e
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
2004-04-19
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
1.0000
1.0
X8C
NSLS
1.0000
SYNCHROTRON
NSLS BEAMLINE X8C
9962.615
E3 ubiquitin-protein ligase Mdm2
6.3.2.-
N-terminal domain (UNP residues 21-105)
I50L, P92H, L95I
1
man
polymer
581.490
4-({(4S,5R)-4,5-bis(4-chlorophenyl)-2-[4-methoxy-2-(propan-2-yloxy)phenyl]-4,5-dihydro-1H-imidazol-1-yl}carbonyl)piperazin-2-one
1
syn
non-polymer
96.063
SULFATE ION
1
syn
non-polymer
18.015
water
128
nat
water
Double minute 2 protein, Xdm2, p53-binding protein Mdm2
no
no
MEKLVQPTPLLLSLLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEHRRIYAMI
SRNLVS
MEKLVQPTPLLLSLLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEHRRIYAMI
SRNLVS
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
clawed frog,common platanna,platanna
sample
mdm2
8355
Xenopus laevis
511693
Escherichia coli
BL21
PLASMID
PUBS 520
1
2.45
49.70
VAPOR DIFFUSION, HANGING DROP
6.0
100 mM ADA, pH 6, 50% SATURATED AMMONIUM SULFATE, 5% PEG200, 5 mM DTT RESERVOIR MIXED IN EQUAL VOLUME WITH THE PROTEIN AT 10 mg/mL, VAPOR DIFFUSION, HANGING DROP, temperature 278K
278
chem_comp_atom
chem_comp_bond
database_2
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
1
0
2013-04-24
1
1
2014-10-08
1
2
2024-02-28
_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
SAME PROTEIN COMPLEXED WITH RO5045337
HUMAN MDM2 COMPLEXED WITH NUTLIN-2
RCSB
Y
RCSB
2013-02-05
REL
REL
NUT
4-({(4S,5R)-4,5-bis(4-chlorophenyl)-2-[4-methoxy-2-(propan-2-yloxy)phenyl]-4,5-dihydro-1H-imidazol-1-yl}carbonyl)piperazin-2-one
SO4
SULFATE ION
HOH
water
LIG
1
2
NUT
NUT
201
A
SO4
201
3
SO4
SO4
202
A
HOH
1
4
HOH
HOH
301
A
HOH
2
4
HOH
HOH
302
A
HOH
3
4
HOH
HOH
303
A
HOH
4
4
HOH
HOH
304
A
HOH
5
4
HOH
HOH
305
A
HOH
6
4
HOH
HOH
306
A
HOH
7
4
HOH
HOH
307
A
HOH
8
4
HOH
HOH
308
A
HOH
9
4
HOH
HOH
309
A
HOH
10
4
HOH
HOH
310
A
HOH
11
4
HOH
HOH
311
A
HOH
12
4
HOH
HOH
312
A
HOH
13
4
HOH
HOH
313
A
HOH
14
4
HOH
HOH
314
A
HOH
15
4
HOH
HOH
315
A
HOH
16
4
HOH
HOH
316
A
HOH
17
4
HOH
HOH
317
A
HOH
18
4
HOH
HOH
318
A
HOH
19
4
HOH
HOH
319
A
HOH
20
4
HOH
HOH
320
A
HOH
21
4
HOH
HOH
321
A
HOH
22
4
HOH
HOH
322
A
HOH
23
4
HOH
HOH
323
A
HOH
24
4
HOH
HOH
324
A
HOH
25
4
HOH
HOH
325
A
HOH
26
4
HOH
HOH
326
A
HOH
27
4
HOH
HOH
327
A
HOH
28
4
HOH
HOH
328
A
HOH
29
4
HOH
HOH
329
A
HOH
30
4
HOH
HOH
330
A
HOH
31
4
HOH
HOH
331
A
HOH
32
4
HOH
HOH
332
A
HOH
33
4
HOH
HOH
333
A
HOH
34
4
HOH
HOH
334
A
HOH
35
4
HOH
HOH
335
A
HOH
36
4
HOH
HOH
336
A
HOH
37
4
HOH
HOH
337
A
HOH
38
4
HOH
HOH
338
A
HOH
39
4
HOH
HOH
339
A
HOH
40
4
HOH
HOH
340
A
HOH
41
4
HOH
HOH
341
A
HOH
42
4
HOH
HOH
342
A
HOH
43
4
HOH
HOH
343
A
HOH
44
4
HOH
HOH
344
A
HOH
45
4
HOH
HOH
345
A
HOH
46
4
HOH
HOH
346
A
HOH
47
4
HOH
HOH
347
A
HOH
48
4
HOH
HOH
348
A
HOH
49
4
HOH
HOH
349
A
HOH
50
4
HOH
HOH
350
A
HOH
51
4
HOH
HOH
351
A
HOH
52
4
HOH
HOH
352
A
HOH
53
4
HOH
HOH
353
A
HOH
54
4
HOH
HOH
354
A
HOH
55
4
HOH
HOH
355
A
HOH
56
4
HOH
HOH
356
A
HOH
57
4
HOH
HOH
357
A
HOH
58
4
HOH
HOH
358
A
HOH
59
4
HOH
HOH
359
A
HOH
60
4
HOH
HOH
360
A
HOH
61
4
HOH
HOH
361
A
HOH
62
4
HOH
HOH
362
A
HOH
63
4
HOH
HOH
363
A
HOH
64
4
HOH
HOH
364
A
HOH
65
4
HOH
HOH
365
A
HOH
66
4
HOH
HOH
366
A
HOH
67
4
HOH
HOH
367
A
HOH
68
4
HOH
HOH
368
A
HOH
69
4
HOH
HOH
369
A
HOH
70
4
HOH
HOH
370
A
HOH
71
4
HOH
HOH
371
A
HOH
72
4
HOH
HOH
372
A
HOH
73
4
HOH
HOH
373
A
HOH
74
4
HOH
HOH
374
A
HOH
75
4
HOH
HOH
375
A
HOH
76
4
HOH
HOH
376
A
HOH
77
4
HOH
HOH
377
A
HOH
78
4
HOH
HOH
378
A
HOH
79
4
HOH
HOH
379
A
HOH
80
4
HOH
HOH
380
A
HOH
81
4
HOH
HOH
381
A
HOH
82
4
HOH
HOH
382
A
HOH
83
4
HOH
HOH
383
A
HOH
84
4
HOH
HOH
384
A
HOH
85
4
HOH
HOH
385
A
HOH
86
4
HOH
HOH
386
A
HOH
87
4
HOH
HOH
387
A
HOH
88
4
HOH
HOH
388
A
HOH
89
4
HOH
HOH
389
A
HOH
90
4
HOH
HOH
390
A
HOH
91
4
HOH
HOH
391
A
HOH
92
4
HOH
HOH
392
A
HOH
93
4
HOH
HOH
393
A
HOH
94
4
HOH
HOH
394
A
HOH
95
4
HOH
HOH
395
A
HOH
96
4
HOH
HOH
396
A
HOH
97
4
HOH
HOH
397
A
HOH
98
4
HOH
HOH
398
A
HOH
99
4
HOH
HOH
399
A
HOH
100
4
HOH
HOH
400
A
HOH
101
4
HOH
HOH
401
A
HOH
102
4
HOH
HOH
402
A
HOH
103
4
HOH
HOH
403
A
HOH
104
4
HOH
HOH
404
A
HOH
105
4
HOH
HOH
405
A
HOH
106
4
HOH
HOH
406
A
HOH
107
4
HOH
HOH
407
A
HOH
108
4
HOH
HOH
408
A
HOH
109
4
HOH
HOH
409
A
HOH
110
4
HOH
HOH
410
A
HOH
111
4
HOH
HOH
411
A
HOH
112
4
HOH
HOH
412
A
HOH
113
4
HOH
HOH
413
A
HOH
114
4
HOH
HOH
414
A
HOH
115
4
HOH
HOH
415
A
HOH
116
4
HOH
HOH
416
A
HOH
117
4
HOH
HOH
417
A
HOH
118
4
HOH
HOH
418
A
HOH
119
4
HOH
HOH
419
A
HOH
120
4
HOH
HOH
420
A
HOH
121
4
HOH
HOH
421
A
HOH
122
4
HOH
HOH
422
A
HOH
123
4
HOH
HOH
423
A
HOH
124
4
HOH
HOH
424
A
HOH
125
4
HOH
HOH
425
A
HOH
126
4
HOH
HOH
426
A
HOH
127
4
HOH
HOH
427
A
HOH
128
4
HOH
HOH
428
A
MET
20
n
1
MET
20
A
GLU
21
n
2
GLU
21
A
LYS
22
n
3
LYS
22
A
LEU
23
n
4
LEU
23
A
VAL
24
n
5
VAL
24
A
GLN
25
n
6
GLN
25
A
PRO
26
n
7
PRO
26
A
THR
27
n
8
THR
27
A
PRO
28
n
9
PRO
28
A
LEU
29
n
10
LEU
29
A
LEU
30
n
11
LEU
30
A
LEU
31
n
12
LEU
31
A
SER
32
n
13
SER
32
A
LEU
33
n
14
LEU
33
A
LEU
34
n
15
LEU
34
A
LYS
35
n
16
LYS
35
A
SER
36
n
17
SER
36
A
ALA
37
n
18
ALA
37
A
GLY
38
n
19
GLY
38
A
ALA
39
n
20
ALA
39
A
GLN
40
n
21
GLN
40
A
LYS
41
n
22
LYS
41
A
GLU
42
n
23
GLU
42
A
THR
43
n
24
THR
43
A
PHE
44
n
25
PHE
44
A
THR
45
n
26
THR
45
A
MET
46
n
27
MET
46
A
LYS
47
n
28
LYS
47
A
GLU
48
n
29
GLU
48
A
VAL
49
n
30
VAL
49
A
LEU
50
n
31
LEU
50
A
TYR
51
n
32
TYR
51
A
HIS
52
n
33
HIS
52
A
LEU
53
n
34
LEU
53
A
GLY
54
n
35
GLY
54
A
GLN
55
n
36
GLN
55
A
TYR
56
n
37
TYR
56
A
ILE
57
n
38
ILE
57
A
MET
58
n
39
MET
58
A
ALA
59
n
40
ALA
59
A
LYS
60
n
41
LYS
60
A
GLN
61
n
42
GLN
61
A
LEU
62
n
43
LEU
62
A
TYR
63
n
44
TYR
63
A
ASP
64
n
45
ASP
64
A
GLU
65
n
46
GLU
65
A
LYS
66
n
47
LYS
66
A
GLN
67
n
48
GLN
67
A
GLN
68
n
49
GLN
68
A
HIS
69
n
50
HIS
69
A
ILE
70
n
51
ILE
70
A
VAL
71
n
52
VAL
71
A
HIS
72
n
53
HIS
72
A
CYS
73
n
54
CYS
73
A
SER
74
n
55
SER
74
A
ASN
75
n
56
ASN
75
A
ASP
76
n
57
ASP
76
A
PRO
77
n
58
PRO
77
A
LEU
78
n
59
LEU
78
A
GLY
79
n
60
GLY
79
A
GLU
80
n
61
GLU
80
A
LEU
81
n
62
LEU
81
A
PHE
82
n
63
PHE
82
A
GLY
83
n
64
GLY
83
A
VAL
84
n
65
VAL
84
A
GLN
85
n
66
GLN
85
A
GLU
86
n
67
GLU
86
A
PHE
87
n
68
PHE
87
A
SER
88
n
69
SER
88
A
VAL
89
n
70
VAL
89
A
LYS
90
n
71
LYS
90
A
GLU
91
n
72
GLU
91
A
HIS
92
n
73
HIS
92
A
ARG
93
n
74
ARG
93
A
ARG
94
n
75
ARG
94
A
ILE
95
n
76
ILE
95
A
TYR
96
n
77
TYR
96
A
ALA
97
n
78
ALA
97
A
MET
98
n
79
MET
98
A
ILE
99
n
80
ILE
99
A
SER
100
n
81
SER
100
A
ARG
101
n
82
ARG
101
A
ASN
102
n
83
ASN
102
A
LEU
103
n
84
LEU
103
A
VAL
104
n
85
VAL
104
A
SER
105
n
86
SER
105
A
0.196
0.194
0.012
0.239
384
5.1
author_and_software_defined_assembly
PISA
1
monomeric
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
VAL
71
A
N
VAL
52
A
O
PHE
87
A
O
PHE
68
1
A
HOH
423
D
HOH
protein_rep.para
protein.top
water_rep.param
water.top
ion.param
ion.top
RO4435385.prx
RO4435385.tpx
14.6
-0.59
0.00
0.00
-0.39
0.00
0.98
0.239
0.012
0.194
0.196
1.91
24.63
384
7488
7488
5.1
95.6
RANDOM
1199476.88
0.000000
1
RESTRAINED
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
Engh & Huber
FLAT MODEL
46.8571
0.355977
0.26
0.20
5.00
0.13
0.05
1.91
24.63
128
871
45
0
698
0.004
1.1
20.9
1.13
1.40
1.50
2.16
2.00
2.24
2.00
3.20
2.50
1
NONE
1
X-RAY DIFFRACTION
0.238
0.170
2.00
48
785
0.243
0.192
2.10
54
901
0.293
0.206
2.23
42
904
0.226
0.196
2.41
48
894
0.233
0.189
2.65
48
910
0.293
0.206
3.03
46
900
0.224
0.187
3.82
48
906
0.214
0.196
50
50
985
904
6.1
10.1
1.91
50.
4J3E
7488
0.000
0.039
1
46.1
3.8
95.3
0.064
1.91
1.98
29.8
1
2.9
85.9
0.030
4.11
50
53.8
1
3.9
89.8
0.034
3.27
4.11
54.2
1
4.0
94.7
0.036
2.85
3.27
53.0
1
4.0
96.2
0.039
2.59
2.85
50.4
1
4.0
97.2
0.045
2.41
2.59
50.6
1
4.0
97.4
0.051
2.26
2.41
47.8
1
4.0
97.8
0.056
2.15
2.26
45.7
1
4.0
97.9
0.059
2.06
2.15
42.3
1
3.9
98.6
0.060
1.98
2.06
37.9
1
3.6
98.2
data collection
HKL-2000
phasing
MOLREP
refinement
CNX
2005
data reduction
HKL-2000
data scaling
HKL-2000
The 1.9A crystal structure of humanized Xenopus Mdm2 with nutlin-3a
1
N
N
2
N
N
3
N
N
4
N
N
A
THR
27
A
THR
8
HELX_P
A
ALA
37
A
ALA
18
1
1
11
A
THR
45
A
THR
26
HELX_P
A
GLN
61
A
GLN
42
1
2
17
A
PRO
77
A
PRO
58
HELX_P
A
GLY
83
A
GLY
64
1
3
7
A
GLU
91
A
GLU
72
HELX_P
A
ARG
101
A
ARG
82
1
4
11
LIGASE/ANTAGONIST
Mdm2, protein-protein interaction, imidazoline, ligase-antagonist complex, E3 ubiquitin ligase, p53, nucleus
MDM2_XENLA
UNP
1
21
P56273
EKLVQPTPLLLSLLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQEFSVKEPRRLYAMIS
RNLVS
21
105
4J3E
21
105
P56273
A
1
2
86
1
initiating methionine
MET
20
4J3E
A
P56273
UNP
1
1
ILE
engineered mutation
LEU
50
4J3E
A
P56273
UNP
50
31
1
PRO
engineered mutation
HIS
92
4J3E
A
P56273
UNP
92
73
1
LEU
engineered mutation
ILE
95
4J3E
A
P56273
UNP
95
76
2
anti-parallel
A
ILE
70
A
ILE
51
A
HIS
72
A
HIS
53
A
GLU
86
A
GLU
67
A
SER
88
A
SER
69
BINDING SITE FOR RESIDUE NUT A 201
A
NUT
201
Software
14
BINDING SITE FOR RESIDUE SO4 A 202
A
SO4
202
Software
10
A
LEU
50
A
LEU
31
14
1_555
A
LEU
53
A
LEU
34
14
1_555
A
GLY
54
A
GLY
35
14
1_555
A
GLN
55
A
GLN
36
14
1_555
A
GLN
55
A
GLN
36
14
4_566
A
ILE
57
A
ILE
38
14
1_555
A
MET
58
A
MET
39
14
1_555
A
VAL
89
A
VAL
70
14
1_555
A
HIS
92
A
HIS
73
14
1_555
A
ILE
95
A
ILE
76
14
1_555
A
TYR
96
A
TYR
77
14
1_555
A
HOH
306
D
HOH
14
1_555
A
HOH
308
D
HOH
14
1_555
A
HOH
347
D
HOH
14
1_555
A
MET
20
A
MET
1
10
8_456
A
ASN
75
A
ASN
56
10
8_556
A
GLU
91
A
GLU
72
10
1_555
A
HIS
92
A
HIS
73
10
1_555
A
ARG
93
A
ARG
74
10
1_555
A
ARG
94
A
ARG
75
10
1_555
A
HOH
311
D
HOH
10
8_556
A
HOH
335
D
HOH
10
1_555
A
HOH
341
D
HOH
10
1_555
A
HOH
388
D
HOH
10
1_555
20
C 2 2 21