0.010247
0.005916
0.000000
0.000000
0.011832
0.000000
0.000000
0.000000
0.012306
0.00000
0.00000
0.00000
Bellamacina, C.R.
Shafer, C.M.
Lindvall, M.
Gesner, T.G.
Yabannavar, A.
Weiping, J.
Song, L.
Walter, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
97.590
97.590
81.258
C17 H14 N2 O2
278.305
4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one
non-polymer
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
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H8 N O6 P
185.072
n
PHOSPHOSERINE
PHOSPHONOSERINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
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
N
1
N
O
N
2
N
C
N
3
N
N
N
4
N
C
Y
5
N
C
Y
6
N
C
Y
7
N
C
N
8
N
C
Y
9
N
C
N
10
N
O
Y
11
N
C
Y
12
N
C
N
13
N
C
N
14
N
C
N
15
N
N
Y
16
N
C
Y
17
N
C
Y
18
N
C
Y
19
N
C
Y
20
N
C
Y
21
N
C
N
22
N
H
N
23
N
H
N
24
N
H
N
25
N
H
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
N
N
37
S
C
N
38
N
C
N
39
N
O
N
40
N
C
N
41
N
O
N
42
N
H
N
43
N
H
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
N
N
50
S
C
N
51
N
C
N
52
N
O
N
53
N
C
N
54
N
C
N
55
N
C
N
56
N
N
N
57
N
C
N
58
N
N
N
59
N
N
N
60
N
O
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
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
H
N
75
N
H
N
76
N
N
N
77
S
C
N
78
N
C
N
79
N
O
N
80
N
C
N
81
N
C
N
82
N
O
N
83
N
N
N
84
N
O
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
N
N
94
S
C
N
95
N
C
N
96
N
O
N
97
N
C
N
98
N
C
N
99
N
O
N
100
N
O
N
101
N
O
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
N
N
110
R
C
N
111
N
C
N
112
N
O
N
113
N
C
N
114
N
S
N
115
N
O
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
N
N
124
S
C
N
125
N
C
N
126
N
O
N
127
N
C
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
N
N
132
N
O
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
N
N
144
S
C
N
145
N
C
N
146
N
O
N
147
N
C
N
148
N
C
N
149
N
C
N
150
N
O
N
151
N
O
N
152
N
O
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
N
N
163
N
C
N
164
N
C
N
165
N
O
N
166
N
O
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
N
N
173
S
C
N
174
N
C
N
175
N
O
N
176
N
C
Y
177
N
C
Y
178
N
N
Y
179
N
C
Y
180
N
C
Y
181
N
N
N
182
N
O
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
O
N
194
N
H
N
195
N
H
N
196
N
N
N
197
S
C
N
198
N
C
N
199
N
O
N
200
S
C
N
201
N
C
N
202
N
C
N
203
N
C
N
204
N
O
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
N
N
219
S
C
N
220
N
C
N
221
N
O
N
222
N
C
N
223
N
C
N
224
N
C
N
225
N
C
N
226
N
O
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
N
N
241
S
C
N
242
N
C
N
243
N
O
N
244
N
C
N
245
N
C
N
246
N
C
N
247
N
C
N
248
N
N
N
249
N
O
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
N
N
266
S
C
N
267
N
C
N
268
N
O
N
269
N
C
N
270
N
C
N
271
N
S
N
272
N
C
N
273
N
O
N
274
N
H
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
H
N
283
N
H
N
284
N
H
N
285
N
N
N
286
S
C
N
287
N
C
N
288
N
O
N
289
N
C
Y
290
N
C
Y
291
N
C
Y
292
N
C
Y
293
N
C
Y
294
N
C
Y
295
N
C
N
296
N
O
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
N
N
309
S
C
N
310
N
C
N
311
N
O
N
312
N
C
N
313
N
C
N
314
N
C
N
315
N
O
N
316
N
H
N
317
N
H
N
318
N
H
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
N
N
326
S
C
N
327
N
C
N
328
N
O
N
329
N
C
N
330
N
O
N
331
N
O
N
332
N
P
N
333
N
O
N
334
N
O
N
335
N
O
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
H
N
344
N
N
N
345
S
C
N
346
N
C
N
347
N
O
N
348
N
C
N
349
N
O
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
N
N
359
S
C
N
360
N
C
N
361
N
O
N
362
R
C
N
363
N
O
N
364
N
C
N
365
N
O
N
366
N
H
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
H
N
375
N
N
N
376
S
C
N
377
N
C
N
378
N
O
N
379
N
C
Y
380
N
C
Y
381
N
C
Y
382
N
C
Y
383
N
N
Y
384
N
C
Y
385
N
C
Y
386
N
C
Y
387
N
C
Y
388
N
C
N
389
N
O
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
H
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
N
N
403
S
C
N
404
N
C
N
405
N
O
N
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
Y
412
N
C
N
413
N
O
N
414
N
O
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
N
N
427
S
C
N
428
N
C
N
429
N
O
N
430
N
C
N
431
N
C
N
432
N
C
N
433
N
O
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
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
1
N
doub
N
2
N
sing
N
3
N
sing
N
4
N
doub
N
5
N
sing
N
6
N
sing
Y
7
N
doub
Y
8
N
sing
Y
9
N
doub
N
10
N
sing
Y
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
Y
16
N
doub
N
17
N
sing
N
18
N
sing
Y
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
doub
N
26
N
sing
Y
27
N
doub
Y
28
N
sing
Y
29
N
doub
N
30
N
sing
Y
31
N
sing
N
32
N
sing
Y
33
N
doub
N
34
N
sing
Y
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
doub
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
doub
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
doub
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
doub
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
doub
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
doub
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
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
doub
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
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
doub
N
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
doub
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
doub
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
doub
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
Y
177
N
sing
Y
178
N
doub
Y
179
N
doub
N
180
N
sing
Y
181
N
sing
N
182
N
sing
Y
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
doub
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
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
doub
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
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
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
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
doub
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
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
doub
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
Y
285
N
doub
Y
286
N
sing
Y
287
N
sing
N
288
N
sing
Y
289
N
doub
N
290
N
sing
Y
291
N
doub
N
292
N
sing
Y
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
doub
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
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
doub
N
325
N
sing
N
326
N
sing
N
327
N
doub
N
328
N
sing
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
doub
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
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
doub
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
doub
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
Y
372
N
doub
Y
373
N
sing
Y
374
N
sing
N
375
N
sing
Y
376
N
doub
Y
377
N
sing
Y
378
N
sing
N
379
N
sing
Y
380
N
sing
Y
381
N
doub
N
382
N
sing
Y
383
N
doub
N
384
N
sing
Y
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
N
394
N
sing
N
395
N
doub
N
396
N
sing
N
397
N
sing
N
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
doub
N
405
N
sing
Y
406
N
doub
N
407
N
sing
Y
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
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
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
UK
Bioorg.Med.Chem.Lett.
BMCLE8
1127
0960-894X
18
4482
4485
10.1016/j.bmcl.2008.07.061
18672368
4-(1H-indazol-5-yl)-6-phenylpyrimidin-2(1H)-one analogs as potent CDC7 inhibitors.
2008
10.2210/pdb3dcv/pdb
pdb_00003dcv
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
2006-03-20
MARMOSAIC 325 mm CCD
double crystal
SINGLE WAVELENGTH
M
x-ray
1
0.97900
1.0
BL9-2
SSRL
0.97900
SYNCHROTRON
SSRL BEAMLINE BL9-2
37596.703
Proto-oncogene serine/threonine-protein kinase Pim-1
2.7.11.1
Kinase domain: Residues 93-404
1
man
polymer
278.305
4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one
1
syn
non-polymer
18.015
water
98
nat
water
no
yes
MAHHHHHHLEVLFQGPLLSKINSLAHLRAAPCNDLHATKLAPGKEKEPLESQYQVGPLLGSGGFGSVYSGIRVSDNLPVA
IKHVEKDRISDWGELPNGTRVPMEVVLLKKVSSGFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELAR
SFFWQVLEAVRHCHNCGVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAV
WSLGILLYDMVCGDIPFEHDEEIIRGQVFFRQRVS(SEP)ECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAE
IHLHSLSPGPSK
MAHHHHHHLEVLFQGPLLSKINSLAHLRAAPCNDLHATKLAPGKEKEPLESQYQVGPLLGSGGFGSVYSGIRVSDNLPVA
IKHVEKDRISDWGELPNGTRVPMEVVLLKKVSSGFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELAR
SFFWQVLEAVRHCHNCGVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAV
WSLGILLYDMVCGDIPFEHDEEIIRGQVFFRQRVSSECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAEIHLH
SLSPGPSK
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
PIM1
9606
Homo sapiens
Escherichia coli
BL21
Plasmid
pDEST14
1
2.97
58.60
VAPOR DIFFUSION, HANGING DROP
5.5
600mM (NH4)2HPO4, 250mM NaCl, 100mM Na Citrate pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2008-08-19
1
1
2011-07-13
1
2
2024-04-03
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_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
2008-06-04
REL
REL
55E
4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one
HOH
water
Pim1-apo (in-house structure)
other
55E
500
2
55E
55E
500
A
HOH
1002
3
HOH
HOH
1002
A
HOH
1003
3
HOH
HOH
1003
A
HOH
1006
3
HOH
HOH
1006
A
HOH
1007
3
HOH
HOH
1007
A
HOH
1008
3
HOH
HOH
1008
A
HOH
1009
3
HOH
HOH
1009
A
HOH
1010
3
HOH
HOH
1010
A
HOH
1011
3
HOH
HOH
1011
A
HOH
1012
3
HOH
HOH
1012
A
HOH
1013
3
HOH
HOH
1013
A
HOH
1014
3
HOH
HOH
1014
A
HOH
1015
3
HOH
HOH
1015
A
HOH
1016
3
HOH
HOH
1016
A
HOH
1017
3
HOH
HOH
1017
A
HOH
1018
3
HOH
HOH
1018
A
HOH
1019
3
HOH
HOH
1019
A
HOH
1020
3
HOH
HOH
1020
A
HOH
1021
3
HOH
HOH
1021
A
HOH
1022
3
HOH
HOH
1022
A
HOH
1023
3
HOH
HOH
1023
A
HOH
1024
3
HOH
HOH
1024
A
HOH
1025
3
HOH
HOH
1025
A
HOH
1026
3
HOH
HOH
1026
A
HOH
1027
3
HOH
HOH
1027
A
HOH
1028
3
HOH
HOH
1028
A
HOH
1029
3
HOH
HOH
1029
A
HOH
1030
3
HOH
HOH
1030
A
HOH
1031
3
HOH
HOH
1031
A
HOH
1032
3
HOH
HOH
1032
A
HOH
1033
3
HOH
HOH
1033
A
HOH
1034
3
HOH
HOH
1034
A
HOH
1035
3
HOH
HOH
1035
A
HOH
1036
3
HOH
HOH
1036
A
HOH
1037
3
HOH
HOH
1037
A
HOH
1038
3
HOH
HOH
1038
A
HOH
1039
3
HOH
HOH
1039
A
HOH
1040
3
HOH
HOH
1040
A
HOH
1041
3
HOH
HOH
1041
A
HOH
1042
3
HOH
HOH
1042
A
HOH
1043
3
HOH
HOH
1043
A
HOH
1044
3
HOH
HOH
1044
A
HOH
1045
3
HOH
HOH
1045
A
HOH
1046
3
HOH
HOH
1046
A
HOH
1047
3
HOH
HOH
1047
A
HOH
1048
3
HOH
HOH
1048
A
HOH
1049
3
HOH
HOH
1049
A
HOH
1050
3
HOH
HOH
1050
A
HOH
1051
3
HOH
HOH
1051
A
HOH
1052
3
HOH
HOH
1052
A
HOH
1053
3
HOH
HOH
1053
A
HOH
1054
3
HOH
HOH
1054
A
HOH
1055
3
HOH
HOH
1055
A
HOH
1056
3
HOH
HOH
1056
A
HOH
1057
3
HOH
HOH
1057
A
HOH
1058
3
HOH
HOH
1058
A
HOH
1059
3
HOH
HOH
1059
A
HOH
1060
3
HOH
HOH
1060
A
HOH
1061
3
HOH
HOH
1061
A
HOH
1062
3
HOH
HOH
1062
A
HOH
1063
3
HOH
HOH
1063
A
HOH
1064
3
HOH
HOH
1064
A
HOH
1065
3
HOH
HOH
1065
A
HOH
1066
3
HOH
HOH
1066
A
HOH
1067
3
HOH
HOH
1067
A
HOH
1068
3
HOH
HOH
1068
A
HOH
1069
3
HOH
HOH
1069
A
HOH
1070
3
HOH
HOH
1070
A
HOH
1071
3
HOH
HOH
1071
A
HOH
1072
3
HOH
HOH
1072
A
HOH
1073
3
HOH
HOH
1073
A
HOH
1074
3
HOH
HOH
1074
A
HOH
1075
3
HOH
HOH
1075
A
HOH
1076
3
HOH
HOH
1076
A
HOH
1077
3
HOH
HOH
1077
A
HOH
1078
3
HOH
HOH
1078
A
HOH
1079
3
HOH
HOH
1079
A
HOH
1080
3
HOH
HOH
1080
A
HOH
1081
3
HOH
HOH
1081
A
HOH
1082
3
HOH
HOH
1082
A
HOH
1083
3
HOH
HOH
1083
A
HOH
1084
3
HOH
HOH
1084
A
HOH
1085
3
HOH
HOH
1085
A
HOH
1086
3
HOH
HOH
1086
A
HOH
1087
3
HOH
HOH
1087
A
HOH
1088
3
HOH
HOH
1088
A
HOH
1089
3
HOH
HOH
1089
A
HOH
1090
3
HOH
HOH
1090
A
HOH
1091
3
HOH
HOH
1091
A
HOH
1092
3
HOH
HOH
1092
A
HOH
1093
3
HOH
HOH
1093
A
HOH
1094
3
HOH
HOH
1094
A
HOH
1095
3
HOH
HOH
1095
A
HOH
1096
3
HOH
HOH
1096
A
HOH
1097
3
HOH
HOH
1097
A
HOH
1098
3
HOH
HOH
1098
A
HOH
1099
3
HOH
HOH
1099
A
HOH
1100
3
HOH
HOH
1100
A
HOH
1101
3
HOH
HOH
1101
A
n
1
-14
A
n
2
-13
A
n
3
-12
A
n
4
-11
A
n
5
-10
A
n
6
-9
A
n
7
-8
A
n
8
-7
A
n
9
-6
A
n
10
-5
A
n
11
-4
A
n
12
-3
A
n
13
-2
A
n
14
-1
A
n
15
0
A
n
16
1
A
n
17
2
A
n
18
3
A
n
19
4
A
n
20
5
A
n
21
6
A
n
22
7
A
n
23
8
A
n
24
9
A
n
25
10
A
n
26
11
A
n
27
12
A
n
28
13
A
n
29
14
A
n
30
15
A
n
31
16
A
n
32
17
A
n
33
18
A
n
34
19
A
n
35
20
A
n
36
21
A
n
37
22
A
n
38
23
A
n
39
24
A
n
40
25
A
n
41
26
A
n
42
27
A
n
43
28
A
n
44
29
A
n
45
30
A
n
46
31
A
GLU
32
n
47
GLU
32
A
PRO
33
n
48
PRO
33
A
LEU
34
n
49
LEU
34
A
GLU
35
n
50
GLU
35
A
SER
36
n
51
SER
36
A
GLN
37
n
52
GLN
37
A
TYR
38
n
53
TYR
38
A
GLN
39
n
54
GLN
39
A
VAL
40
n
55
VAL
40
A
GLY
41
n
56
GLY
41
A
PRO
42
n
57
PRO
42
A
LEU
43
n
58
LEU
43
A
LEU
44
n
59
LEU
44
A
GLY
45
n
60
GLY
45
A
SER
46
n
61
SER
46
A
GLY
47
n
62
GLY
47
A
GLY
48
n
63
GLY
48
A
PHE
49
n
64
PHE
49
A
GLY
50
n
65
GLY
50
A
SER
51
n
66
SER
51
A
VAL
52
n
67
VAL
52
A
TYR
53
n
68
TYR
53
A
SER
54
n
69
SER
54
A
GLY
55
n
70
GLY
55
A
ILE
56
n
71
ILE
56
A
ARG
57
n
72
ARG
57
A
VAL
58
n
73
VAL
58
A
SER
59
n
74
SER
59
A
ASP
60
n
75
ASP
60
A
ASN
61
n
76
ASN
61
A
LEU
62
n
77
LEU
62
A
PRO
63
n
78
PRO
63
A
VAL
64
n
79
VAL
64
A
ALA
65
n
80
ALA
65
A
ILE
66
n
81
ILE
66
A
LYS
67
n
82
LYS
67
A
HIS
68
n
83
HIS
68
A
VAL
69
n
84
VAL
69
A
GLU
70
n
85
GLU
70
A
LYS
71
n
86
LYS
71
A
ASP
72
n
87
ASP
72
A
ARG
73
n
88
ARG
73
A
ILE
74
n
89
ILE
74
A
SER
75
n
90
SER
75
A
ASP
76
n
91
ASP
76
A
TRP
77
n
92
TRP
77
A
GLY
78
n
93
GLY
78
A
GLU
79
n
94
GLU
79
A
LEU
80
n
95
LEU
80
A
PRO
81
n
96
PRO
81
A
ASN
82
n
97
ASN
82
A
GLY
83
n
98
GLY
83
A
THR
84
n
99
THR
84
A
ARG
85
n
100
ARG
85
A
VAL
86
n
101
VAL
86
A
PRO
87
n
102
PRO
87
A
MET
88
n
103
MET
88
A
GLU
89
n
104
GLU
89
A
VAL
90
n
105
VAL
90
A
VAL
91
n
106
VAL
91
A
LEU
92
n
107
LEU
92
A
LEU
93
n
108
LEU
93
A
LYS
94
n
109
LYS
94
A
LYS
95
n
110
LYS
95
A
VAL
96
n
111
VAL
96
A
SER
97
n
112
SER
97
A
SER
98
n
113
SER
98
A
GLY
99
n
114
GLY
99
A
PHE
100
n
115
PHE
100
A
SER
101
n
116
SER
101
A
GLY
102
n
117
GLY
102
A
VAL
103
n
118
VAL
103
A
ILE
104
n
119
ILE
104
A
ARG
105
n
120
ARG
105
A
LEU
106
n
121
LEU
106
A
LEU
107
n
122
LEU
107
A
ASP
108
n
123
ASP
108
A
TRP
109
n
124
TRP
109
A
PHE
110
n
125
PHE
110
A
GLU
111
n
126
GLU
111
A
ARG
112
n
127
ARG
112
A
PRO
113
n
128
PRO
113
A
ASP
114
n
129
ASP
114
A
SER
115
n
130
SER
115
A
PHE
116
n
131
PHE
116
A
VAL
117
n
132
VAL
117
A
LEU
118
n
133
LEU
118
A
ILE
119
n
134
ILE
119
A
LEU
120
n
135
LEU
120
A
GLU
121
n
136
GLU
121
A
ARG
122
n
137
ARG
122
A
PRO
123
n
138
PRO
123
A
GLU
124
n
139
GLU
124
A
PRO
125
n
140
PRO
125
A
VAL
126
n
141
VAL
126
A
GLN
127
n
142
GLN
127
A
ASP
128
n
143
ASP
128
A
LEU
129
n
144
LEU
129
A
PHE
130
n
145
PHE
130
A
ASP
131
n
146
ASP
131
A
PHE
132
n
147
PHE
132
A
ILE
133
n
148
ILE
133
A
THR
134
n
149
THR
134
A
GLU
135
n
150
GLU
135
A
ARG
136
n
151
ARG
136
A
GLY
137
n
152
GLY
137
A
ALA
138
n
153
ALA
138
A
LEU
139
n
154
LEU
139
A
GLN
140
n
155
GLN
140
A
GLU
141
n
156
GLU
141
A
GLU
142
n
157
GLU
142
A
LEU
143
n
158
LEU
143
A
ALA
144
n
159
ALA
144
A
ARG
145
n
160
ARG
145
A
SER
146
n
161
SER
146
A
PHE
147
n
162
PHE
147
A
PHE
148
n
163
PHE
148
A
TRP
149
n
164
TRP
149
A
GLN
150
n
165
GLN
150
A
VAL
151
n
166
VAL
151
A
LEU
152
n
167
LEU
152
A
GLU
153
n
168
GLU
153
A
ALA
154
n
169
ALA
154
A
VAL
155
n
170
VAL
155
A
ARG
156
n
171
ARG
156
A
HIS
157
n
172
HIS
157
A
CYS
158
n
173
CYS
158
A
HIS
159
n
174
HIS
159
A
ASN
160
n
175
ASN
160
A
CYS
161
n
176
CYS
161
A
GLY
162
n
177
GLY
162
A
VAL
163
n
178
VAL
163
A
LEU
164
n
179
LEU
164
A
HIS
165
n
180
HIS
165
A
ARG
166
n
181
ARG
166
A
ASP
167
n
182
ASP
167
A
ILE
168
n
183
ILE
168
A
LYS
169
n
184
LYS
169
A
ASP
170
n
185
ASP
170
A
GLU
171
n
186
GLU
171
A
ASN
172
n
187
ASN
172
A
ILE
173
n
188
ILE
173
A
LEU
174
n
189
LEU
174
A
ILE
175
n
190
ILE
175
A
ASP
176
n
191
ASP
176
A
LEU
177
n
192
LEU
177
A
ASN
178
n
193
ASN
178
A
ARG
179
n
194
ARG
179
A
GLY
180
n
195
GLY
180
A
GLU
181
n
196
GLU
181
A
LEU
182
n
197
LEU
182
A
LYS
183
n
198
LYS
183
A
LEU
184
n
199
LEU
184
A
ILE
185
n
200
ILE
185
A
ASP
186
n
201
ASP
186
A
PHE
187
n
202
PHE
187
A
GLY
188
n
203
GLY
188
A
SER
189
n
204
SER
189
A
GLY
190
n
205
GLY
190
A
ALA
191
n
206
ALA
191
A
LEU
192
n
207
LEU
192
A
LEU
193
n
208
LEU
193
A
LYS
194
n
209
LYS
194
A
ASP
195
n
210
ASP
195
A
THR
196
n
211
THR
196
A
VAL
197
n
212
VAL
197
A
TYR
198
n
213
TYR
198
A
THR
199
n
214
THR
199
A
ASP
200
n
215
ASP
200
A
PHE
201
n
216
PHE
201
A
ASP
202
n
217
ASP
202
A
GLY
203
n
218
GLY
203
A
THR
204
n
219
THR
204
A
ARG
205
n
220
ARG
205
A
VAL
206
n
221
VAL
206
A
TYR
207
n
222
TYR
207
A
SER
208
n
223
SER
208
A
PRO
209
n
224
PRO
209
A
PRO
210
n
225
PRO
210
A
GLU
211
n
226
GLU
211
A
TRP
212
n
227
TRP
212
A
ILE
213
n
228
ILE
213
A
ARG
214
n
229
ARG
214
A
TYR
215
n
230
TYR
215
A
HIS
216
n
231
HIS
216
A
ARG
217
n
232
ARG
217
A
TYR
218
n
233
TYR
218
A
HIS
219
n
234
HIS
219
A
GLY
220
n
235
GLY
220
A
ARG
221
n
236
ARG
221
A
SER
222
n
237
SER
222
A
ALA
223
n
238
ALA
223
A
ALA
224
n
239
ALA
224
A
VAL
225
n
240
VAL
225
A
TRP
226
n
241
TRP
226
A
SER
227
n
242
SER
227
A
LEU
228
n
243
LEU
228
A
GLY
229
n
244
GLY
229
A
ILE
230
n
245
ILE
230
A
LEU
231
n
246
LEU
231
A
LEU
232
n
247
LEU
232
A
TYR
233
n
248
TYR
233
A
ASP
234
n
249
ASP
234
A
MET
235
n
250
MET
235
A
VAL
236
n
251
VAL
236
A
CYS
237
n
252
CYS
237
A
GLY
238
n
253
GLY
238
A
ASP
239
n
254
ASP
239
A
ILE
240
n
255
ILE
240
A
PRO
241
n
256
PRO
241
A
PHE
242
n
257
PHE
242
A
GLU
243
n
258
GLU
243
A
HIS
244
n
259
HIS
244
A
ASP
245
n
260
ASP
245
A
GLU
246
n
261
GLU
246
A
GLU
247
n
262
GLU
247
A
ILE
248
n
263
ILE
248
A
ILE
249
n
264
ILE
249
A
ARG
250
n
265
ARG
250
A
GLY
251
n
266
GLY
251
A
GLN
252
n
267
GLN
252
A
VAL
253
n
268
VAL
253
A
PHE
254
n
269
PHE
254
A
PHE
255
n
270
PHE
255
A
ARG
256
n
271
ARG
256
A
GLN
257
n
272
GLN
257
A
ARG
258
n
273
ARG
258
A
VAL
259
n
274
VAL
259
A
SER
260
n
275
SER
260
A
SEP
261
n
276
SEP
261
A
GLU
262
n
277
GLU
262
A
CYS
263
n
278
CYS
263
A
GLN
264
n
279
GLN
264
A
HIS
265
n
280
HIS
265
A
LEU
266
n
281
LEU
266
A
ILE
267
n
282
ILE
267
A
ARG
268
n
283
ARG
268
A
TRP
269
n
284
TRP
269
A
CYS
270
n
285
CYS
270
A
LEU
271
n
286
LEU
271
A
ALA
272
n
287
ALA
272
A
LEU
273
n
288
LEU
273
A
ARG
274
n
289
ARG
274
A
PRO
275
n
290
PRO
275
A
SER
276
n
291
SER
276
A
ASP
277
n
292
ASP
277
A
ARG
278
n
293
ARG
278
A
PRO
279
n
294
PRO
279
A
THR
280
n
295
THR
280
A
PHE
281
n
296
PHE
281
A
GLU
282
n
297
GLU
282
A
GLU
283
n
298
GLU
283
A
ILE
284
n
299
ILE
284
A
GLN
285
n
300
GLN
285
A
ASN
286
n
301
ASN
286
A
HIS
287
n
302
HIS
287
A
PRO
288
n
303
PRO
288
A
TRP
289
n
304
TRP
289
A
MET
290
n
305
MET
290
A
GLN
291
n
306
GLN
291
A
ASP
292
n
307
ASP
292
A
VAL
293
n
308
VAL
293
A
LEU
294
n
309
LEU
294
A
LEU
295
n
310
LEU
295
A
PRO
296
n
311
PRO
296
A
GLN
297
n
312
GLN
297
A
GLU
298
n
313
GLU
298
A
THR
299
n
314
THR
299
A
ALA
300
n
315
ALA
300
A
GLU
301
n
316
GLU
301
A
ILE
302
n
317
ILE
302
A
HIS
303
n
318
HIS
303
A
LEU
304
n
319
LEU
304
A
HIS
305
n
320
HIS
305
A
n
321
306
A
n
322
307
A
n
323
308
A
n
324
309
A
n
325
310
A
n
326
311
A
n
327
312
A
n
328
313
A
author_and_software_defined_assembly
PISA
1
monomeric
A
SEP
261
PHOSPHOSERINE
A
SEP
276
SER
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
44
A
N
LEU
59
A
O
VAL
52
A
O
VAL
67
A
N
ARG
57
A
N
ARG
72
A
O
LEU
62
A
O
LEU
77
A
N
VAL
69
A
N
VAL
84
A
O
PHE
116
A
O
PHE
131
A
O
ILE
119
A
O
ILE
134
A
N
LEU
107
A
N
LEU
122
A
N
GLY
78
A
N
GLY
93
A
O
VAL
86
A
O
VAL
101
A
N
GLN
127
A
N
GLN
142
A
O
ILE
175
A
O
ILE
190
A
N
ASP
176
A
N
ASP
191
A
O
GLU
181
A
O
GLU
196
A
N
LEU
164
A
N
LEU
179
A
O
ALA
191
A
O
ALA
206
1
A
MET
-14
A
MET
1
1
Y
1
A
ALA
-13
A
ALA
2
1
Y
1
A
HIS
-12
A
HIS
3
1
Y
1
A
HIS
-11
A
HIS
4
1
Y
1
A
HIS
-10
A
HIS
5
1
Y
1
A
HIS
-9
A
HIS
6
1
Y
1
A
HIS
-8
A
HIS
7
1
Y
1
A
HIS
-7
A
HIS
8
1
Y
1
A
LEU
-6
A
LEU
9
1
Y
1
A
GLU
-5
A
GLU
10
1
Y
1
A
VAL
-4
A
VAL
11
1
Y
1
A
LEU
-3
A
LEU
12
1
Y
1
A
PHE
-2
A
PHE
13
1
Y
1
A
GLN
-1
A
GLN
14
1
Y
1
A
GLY
0
A
GLY
15
1
Y
1
A
PRO
1
A
PRO
16
1
Y
1
A
LEU
2
A
LEU
17
1
Y
1
A
LEU
3
A
LEU
18
1
Y
1
A
SER
4
A
SER
19
1
Y
1
A
LYS
5
A
LYS
20
1
Y
1
A
ILE
6
A
ILE
21
1
Y
1
A
ASN
7
A
ASN
22
1
Y
1
A
SER
8
A
SER
23
1
Y
1
A
LEU
9
A
LEU
24
1
Y
1
A
ALA
10
A
ALA
25
1
Y
1
A
HIS
11
A
HIS
26
1
Y
1
A
LEU
12
A
LEU
27
1
Y
1
A
ARG
13
A
ARG
28
1
Y
1
A
ALA
14
A
ALA
29
1
Y
1
A
ALA
15
A
ALA
30
1
Y
1
A
PRO
16
A
PRO
31
1
Y
1
A
CYS
17
A
CYS
32
1
Y
1
A
ASN
18
A
ASN
33
1
Y
1
A
ASP
19
A
ASP
34
1
Y
1
A
LEU
20
A
LEU
35
1
Y
1
A
HIS
21
A
HIS
36
1
Y
1
A
ALA
22
A
ALA
37
1
Y
1
A
THR
23
A
THR
38
1
Y
1
A
LYS
24
A
LYS
39
1
Y
1
A
LEU
25
A
LEU
40
1
Y
1
A
ALA
26
A
ALA
41
1
Y
1
A
PRO
27
A
PRO
42
1
Y
1
A
GLY
28
A
GLY
43
1
Y
1
A
LYS
29
A
LYS
44
1
Y
1
A
GLU
30
A
GLU
45
1
Y
1
A
LYS
31
A
LYS
46
1
Y
1
A
SER
306
A
SER
321
1
Y
1
A
LEU
307
A
LEU
322
1
Y
1
A
SER
308
A
SER
323
1
Y
1
A
PRO
309
A
PRO
324
1
Y
1
A
GLY
310
A
GLY
325
1
Y
1
A
PRO
311
A
PRO
326
1
Y
1
A
SER
312
A
SER
327
1
Y
1
A
LYS
313
A
LYS
328
1
Y
1
A
LEU
34
165.71
-64.71
1
A
SER
59
123.90
-72.42
1
A
THR
84
-38.39
130.44
1
A
SER
98
174.36
-142.11
1
A
SER
101
-96.13
42.48
1
A
ALA
138
-34.83
133.13
1
A
ASP
167
-145.42
45.32
1
A
ASP
186
69.03
78.23
1
A
VAL
206
-59.26
-8.45
43.9
The Friedel pairs were used in phasing
0.2337
0.1788
0.182
0.182
2.7
48.8
1104
23099
23099
4.78
100.00
Random
1
isotropic
THROUGHOUT
0
0
MOLECULAR REPLACEMENT
Pim1-apo (in-house structure)
Engh & Huber
2.7
48.8
98
2356
21
0
2237
0.006
0.961
19.46
0.3073
0.2088
2.8230
125
2637
8
0.2861
0.2045
2.9718
127
2712
8
0.2954
0.1906
3.1580
115
2736
8
0.2834
0.1757
3.4018
140
2751
8
0.1928
0.1688
3.7440
158
2782
8
0.2064
0.1518
4.2855
148
2775
8
0.1987
0.1527
5.3982
166
2783
8
0.2298
0.1828
48.8029
125
2819
8
63.6
2.7
84.5
3DCV
23099
2.0
0.078
1
7.5
7.5
100.0
0.257
2.7
2.8
2.9
7.5
98.9
refinement
PHENIX
(phenix.refine)
data collection
MAR345dtb
data reduction
MOSFLM
data scaling
SCALA
phasing
MOLREP
Crystal structure of human Pim1 kinase complexed with 4-(4-hydroxy-3-methyl-phenyl)-6-phenylpyrimidin-2(1H)-one
1
N
N
2
N
N
3
N
N
A
ASP
72
A
ASP
87
HELX_P
A
ILE
74
A
ILE
89
5
1
3
A
MET
88
A
MET
103
HELX_P
A
VAL
96
A
VAL
111
1
2
9
A
LEU
129
A
LEU
144
HELX_P
A
GLU
135
A
GLU
150
1
3
7
A
GLN
140
A
GLN
155
HELX_P
A
CYS
161
A
CYS
176
1
4
22
A
LYS
169
A
LYS
184
HELX_P
A
GLU
171
A
GLU
186
5
5
3
A
THR
204
A
THR
219
HELX_P
A
SER
208
A
SER
223
5
6
5
A
PRO
209
A
PRO
224
HELX_P
A
HIS
216
A
HIS
231
1
7
8
A
HIS
219
A
HIS
234
HELX_P
A
GLY
238
A
GLY
253
1
8
20
A
HIS
244
A
HIS
259
HELX_P
A
GLY
251
A
GLY
266
1
9
8
A
SER
260
A
SER
275
HELX_P
A
LEU
271
A
LEU
286
1
10
12
A
ARG
274
A
ARG
289
HELX_P
A
ARG
278
A
ARG
293
5
11
5
A
THR
280
A
THR
295
HELX_P
A
ASN
286
A
ASN
301
1
12
7
A
HIS
287
A
HIS
302
HELX_P
A
GLN
291
A
GLN
306
5
13
5
A
LEU
295
A
LEU
310
HELX_P
A
LEU
304
A
LEU
319
1
14
10
covale
1.328
both
A
SER
260
A
C
SER
275
1_555
A
SEP
261
A
N
SEP
276
1_555
covale
1.330
both
A
SEP
261
A
C
SEP
276
1_555
A
GLU
262
A
N
GLU
277
1_555
TRANSFERASE
Ser/Thr protein kinase, nucleotide-binding, phsphorylation, ATP-binding, cancer, oncogene, Alternative initiation, Cytoplasm, Manganese, Membrane, Metal-binding, Nucleus, Phosphoprotein, Polymorphism, Proto-oncogene, Serine/threonine-protein kinase, Transferase
A
GLU
124
A
GLU
139
1
A
PRO
125
A
PRO
140
-6.30
PIM1_HUMAN
UNP
1
93
P11309
LLSKINSLAHLRAAPCNDLHATKLAPGKEKEPLESQYQVGPLLGSGGFGSVYSGIRVSDNLPVAIKHVEKDRISDWGELP
NGTRVPMEVVLLKKVSSGFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELARSFFWQVLEAVRHCHNC
GVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAVWSLGILLYDMVCGDIP
FEHDEEIIRGQVFFRQRVSSECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAEIHLHSLSPGPSK
93
404
3DCV
2
313
P11309
A
1
17
328
1
expression tag
MET
-14
3DCV
A
P11309
UNP
1
1
expression tag
ALA
-13
3DCV
A
P11309
UNP
2
1
expression tag
HIS
-12
3DCV
A
P11309
UNP
3
1
expression tag
HIS
-11
3DCV
A
P11309
UNP
4
1
expression tag
HIS
-10
3DCV
A
P11309
UNP
5
1
expression tag
HIS
-9
3DCV
A
P11309
UNP
6
1
expression tag
HIS
-8
3DCV
A
P11309
UNP
7
1
expression tag
HIS
-7
3DCV
A
P11309
UNP
8
1
expression tag
LEU
-6
3DCV
A
P11309
UNP
9
1
expression tag
GLU
-5
3DCV
A
P11309
UNP
10
1
expression tag
VAL
-4
3DCV
A
P11309
UNP
11
1
expression tag
LEU
-3
3DCV
A
P11309
UNP
12
1
expression tag
PHE
-2
3DCV
A
P11309
UNP
13
1
expression tag
GLN
-1
3DCV
A
P11309
UNP
14
1
expression tag
GLY
0
3DCV
A
P11309
UNP
15
1
expression tag
PRO
1
3DCV
A
P11309
UNP
16
5
2
3
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
TYR
38
A
TYR
53
A
SER
46
A
SER
61
A
SER
51
A
SER
66
A
ARG
57
A
ARG
72
A
LEU
62
A
LEU
77
A
GLU
70
A
GLU
85
A
SER
115
A
SER
130
A
GLU
121
A
GLU
136
A
LEU
106
A
LEU
121
A
ARG
112
A
ARG
127
A
TRP
77
A
TRP
92
A
GLU
79
A
GLU
94
A
ARG
85
A
ARG
100
A
PRO
87
A
PRO
102
A
VAL
126
A
VAL
141
A
ASP
128
A
ASP
143
A
ILE
173
A
ILE
188
A
ASP
176
A
ASP
191
A
GLU
181
A
GLU
196
A
LEU
184
A
LEU
199
A
VAL
163
A
VAL
178
A
LEU
164
A
LEU
179
A
ALA
191
A
ALA
206
A
LEU
192
A
LEU
207
BINDING SITE FOR RESIDUE 55E A 500
A
55E
500
Software
9
A
PHE
49
A
PHE
64
9
1_555
A
ALA
65
A
ALA
80
9
1_555
A
LYS
67
A
LYS
82
9
1_555
A
LEU
120
A
LEU
135
9
1_555
A
GLU
121
A
GLU
136
9
1_555
A
ARG
122
A
ARG
137
9
1_555
A
LEU
174
A
LEU
189
9
1_555
A
ILE
185
A
ILE
200
9
1_555
A
ASP
186
A
ASP
201
9
1_555
170
P 65