0.008129
0.004693
0.000000
0.000000
0.009387
0.000000
0.000000
0.000000
0.020998
0.00000
0.00000
0.00000
Biondi, R.M.
Komander, D.
Thomas, C.C.
Lizcano, J.M.
Deak, M.
Alessi, D.R.
Van Aalten, D.M.F.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
123.013
123.013
47.624
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
C10 H16 N5 O13 P3
507.181
ADENOSINE-5'-TRIPHOSPHATE
non-polymer
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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
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
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
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
P
N
75
N
O
N
76
N
O
N
77
N
O
N
78
R
P
N
79
N
O
N
80
N
O
N
81
N
O
N
82
R
P
N
83
N
O
N
84
N
O
N
85
N
O
N
86
N
O
N
87
N
C
N
88
R
C
N
89
N
O
N
90
S
C
N
91
N
O
N
92
R
C
N
93
N
O
N
94
R
C
Y
95
N
N
Y
96
N
C
Y
97
N
N
Y
98
N
C
Y
99
N
C
N
100
N
N
Y
101
N
N
Y
102
N
C
Y
103
N
N
Y
104
N
C
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
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
N
N
122
R
C
N
123
N
C
N
124
N
O
N
125
N
C
N
126
N
S
N
127
N
O
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
N
N
136
S
C
N
137
N
C
N
138
N
O
N
139
N
C
N
140
N
C
N
141
N
C
N
142
N
O
N
143
N
N
N
144
N
O
N
145
N
H
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
N
N
156
S
C
N
157
N
C
N
158
N
O
N
159
N
C
N
160
N
C
N
161
N
C
N
162
N
O
N
163
N
O
N
164
N
O
N
165
N
H
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
N
N
175
N
C
N
176
N
C
N
177
N
O
N
178
N
O
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
C
N
185
N
O
N
186
N
C
N
187
N
O
N
188
N
C
N
189
N
O
N
190
N
H
N
191
N
H
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
N
N
199
S
C
N
200
N
C
N
201
N
O
N
202
N
C
Y
203
N
C
Y
204
N
N
Y
205
N
C
Y
206
N
C
Y
207
N
N
N
208
N
O
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
H
N
219
N
O
N
220
N
H
N
221
N
H
N
222
N
N
N
223
S
C
N
224
N
C
N
225
N
O
N
226
S
C
N
227
N
C
N
228
N
C
N
229
N
C
N
230
N
O
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
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
N
N
245
S
C
N
246
N
C
N
247
N
O
N
248
N
C
N
249
N
C
N
250
N
C
N
251
N
C
N
252
N
O
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
H
N
266
N
N
N
267
S
C
N
268
N
C
N
269
N
O
N
270
N
C
N
271
N
C
N
272
N
C
N
273
N
C
N
274
N
N
N
275
N
O
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
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
N
N
292
S
C
N
293
N
C
N
294
N
O
N
295
N
C
N
296
N
C
N
297
N
S
N
298
N
C
N
299
N
O
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
N
N
312
S
C
N
313
N
C
N
314
N
O
N
315
N
C
Y
316
N
C
Y
317
N
C
Y
318
N
C
Y
319
N
C
Y
320
N
C
Y
321
N
C
N
322
N
O
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
H
N
332
N
H
N
333
N
H
N
334
N
N
N
335
S
C
N
336
N
C
N
337
N
O
N
338
N
C
N
339
N
C
N
340
N
C
N
341
N
O
N
342
N
H
N
343
N
H
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
N
N
352
S
C
N
353
N
C
N
354
N
O
N
355
N
C
N
356
N
O
N
357
N
O
N
358
N
P
N
359
N
O
N
360
N
O
N
361
N
O
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
N
N
371
S
C
N
372
N
C
N
373
N
O
N
374
N
C
N
375
N
O
N
376
N
O
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
S
N
385
N
O
N
386
N
O
N
387
N
O
N
388
N
O
N
389
N
N
N
390
S
C
N
391
N
C
N
392
N
O
N
393
R
C
N
394
N
O
N
395
N
C
N
396
N
O
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
N
N
407
S
C
N
408
N
C
N
409
N
O
N
410
N
C
Y
411
N
C
Y
412
N
C
Y
413
N
C
Y
414
N
N
Y
415
N
C
Y
416
N
C
Y
417
N
C
Y
418
N
C
Y
419
N
C
N
420
N
O
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
N
N
434
S
C
N
435
N
C
N
436
N
O
N
437
N
C
Y
438
N
C
Y
439
N
C
Y
440
N
C
Y
441
N
C
Y
442
N
C
Y
443
N
C
N
444
N
O
N
445
N
O
N
446
N
H
N
447
N
H
N
448
N
H
N
449
N
H
N
450
N
H
N
451
N
H
N
452
N
H
N
453
N
H
N
454
N
H
N
455
N
H
N
456
N
H
N
457
N
N
N
458
S
C
N
459
N
C
N
460
N
O
N
461
N
C
N
462
N
C
N
463
N
C
N
464
N
O
N
465
N
H
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
H
N
470
N
H
N
471
N
H
N
472
N
H
N
473
N
H
N
474
N
H
N
475
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
doub
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
doub
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
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
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
Y
104
N
sing
Y
105
N
sing
Y
106
N
doub
N
107
N
sing
Y
108
N
sing
Y
109
N
sing
Y
110
N
doub
N
111
N
sing
Y
112
N
doub
N
113
N
sing
N
114
N
sing
Y
115
N
sing
Y
116
N
doub
N
117
N
sing
Y
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
doub
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
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
doub
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
Y
202
N
sing
Y
203
N
doub
Y
204
N
doub
N
205
N
sing
Y
206
N
sing
N
207
N
sing
Y
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
doub
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
sing
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
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
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
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
doub
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
doub
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
Y
310
N
doub
Y
311
N
sing
Y
312
N
sing
N
313
N
sing
Y
314
N
doub
N
315
N
sing
Y
316
N
doub
N
317
N
sing
Y
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
doub
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
doub
N
350
N
sing
N
351
N
sing
N
352
N
doub
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
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
doub
N
371
N
doub
N
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
doub
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
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
doub
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
Y
401
N
doub
Y
402
N
sing
Y
403
N
sing
N
404
N
sing
Y
405
N
doub
Y
406
N
sing
Y
407
N
sing
N
408
N
sing
Y
409
N
sing
Y
410
N
doub
N
411
N
sing
Y
412
N
doub
N
413
N
sing
Y
414
N
sing
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
doub
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
Y
429
N
doub
Y
430
N
sing
Y
431
N
sing
N
432
N
sing
Y
433
N
doub
N
434
N
sing
Y
435
N
doub
N
436
N
sing
Y
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
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
sing
N
448
N
doub
N
449
N
sing
N
450
N
sing
N
451
N
sing
N
452
N
sing
N
453
N
sing
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
sing
N
458
N
sing
N
459
N
sing
UK
Embo J.
EMJODG
0897
0261-4189
21
4219
10.1093/EMBOJ/CDF437
12169624
High Resolution Crystal Structure of the Human Pdk1 Catalytic Domain Defines the Regulatory Phosphopeptide Docking Site
2003
10.2210/pdb1h1w/pdb
pdb_00001h1w
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
MIRRORS
CCD
2002-03-04
ADSC CCD
THIN DIAMOND CRYSTAL
SINGLE WAVELENGTH
M
x-ray
1
0.934
1.0
ID14-1
ESRF
0.934
SYNCHROTRON
ESRF BEAMLINE ID14-1
ACTIVATION LOOP PHOSPHORYLATION (SER241)
33452.469
3-PHOSPHOINOSITIDE DEPENDENT PROTEIN KINASE-1
2.7.11.1
KINASE CATALYTIC DOMAIN, RESIDUES 71-359
1
man
polymer
92.094
GLYCEROL
8
syn
non-polymer
96.063
SULFATE ION
5
syn
non-polymer
507.181
ADENOSINE-5'-TRIPHOSPHATE
1
syn
non-polymer
18.015
water
200
nat
water
HPDK1
no
yes
PPQPRKKRPEDFKFGKILGEGSFSTVVLARELATSREYAIKILEKRHIIKENKVPYVTRERDVMSRLDHPFFVKLYFTFQ
DDEKLYFGLSYAKNGELLKYIRKIGSFDETCTRFYTAEIVSALEYLHGKGIIHRDLKPENILLNEDMHIQITDFGTAKVL
SPESKQARAN(SEP)FVGTAQYVSPELLTEKSACKSSDLWALGCIIYQLVAGLPPFRAGNEYLIFQKIIKLEYDFPEKFF
PKARDLVEKLLVLDATKRLGCEEMEGYGPLKAHPFFESVTWENLHQQTPPKLT
PPQPRKKRPEDFKFGKILGEGSFSTVVLARELATSREYAIKILEKRHIIKENKVPYVTRERDVMSRLDHPFFVKLYFTFQ
DDEKLYFGLSYAKNGELLKYIRKIGSFDETCTRFYTAEIVSALEYLHGKGIIHRDLKPENILLNEDMHIQITDFGTAKVL
SPESKQARANSFVGTAQYVSPELLTEKSACKSSDLWALGCIIYQLVAGLPPFRAGNEYLIFQKIIKLEYDFPEKFFPKAR
DLVEKLLVLDATKRLGCEEMEGYGPLKAHPFFESVTWENLHQQTPPKLT
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
HUMAN
FALL ARMYWORM
sample
9606
HOMO SAPIENS
7108
SPODOPTERA FRUGIPERDA
SF21
BACULOVIRUS
1
2.81
55.9
8.50
0.1 M TRIS/HCL PH 8.5, 2.0 M AMMONIUM SULPHATE, 16.6 MM ATP
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
struct_conn
struct_site
repository
Initial release
Derived calculations
Non-polymer description
Other
Refinement description
Source and taxonomy
Structure summary
Version format compliance
Data collection
Database references
Derived calculations
Other
Refinement description
1
0
2003-07-17
1
1
2011-09-14
1
2
2023-12-13
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
_struct_conn.pdbx_leaving_atom_flag
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
PDBE
Y
PDBE
2002-07-23
REL
REL
GOL
GLYCEROL
SO4
SULFATE ION
ATP
ADENOSINE-5'-TRIPHOSPHATE
HOH
water
1YDB
PDB ENTRY 1YDB
PDB
experimental model
GOL
1360
2
GOL
GOL
1360
A
GOL
1361
2
GOL
GOL
1361
A
GOL
1362
2
GOL
GOL
1362
A
GOL
1363
2
GOL
GOL
1363
A
GOL
1364
2
GOL
GOL
1364
A
GOL
1365
2
GOL
GOL
1365
A
GOL
1366
2
GOL
GOL
1366
A
GOL
1367
2
GOL
GOL
1367
A
SO4
1368
3
SO4
SO4
1368
A
SO4
1369
3
SO4
SO4
1369
A
SO4
1370
3
SO4
SO4
1370
A
SO4
1371
3
SO4
SO4
1371
A
SO4
1372
3
SO4
SO4
1372
A
ATP
1373
4
ATP
ATP
1373
A
HOH
2001
5
HOH
HOH
2001
A
HOH
2002
5
HOH
HOH
2002
A
HOH
2003
5
HOH
HOH
2003
A
HOH
2004
5
HOH
HOH
2004
A
HOH
2005
5
HOH
HOH
2005
A
HOH
2006
5
HOH
HOH
2006
A
HOH
2007
5
HOH
HOH
2007
A
HOH
2008
5
HOH
HOH
2008
A
HOH
2009
5
HOH
HOH
2009
A
HOH
2010
5
HOH
HOH
2010
A
HOH
2011
5
HOH
HOH
2011
A
HOH
2012
5
HOH
HOH
2012
A
HOH
2013
5
HOH
HOH
2013
A
HOH
2014
5
HOH
HOH
2014
A
HOH
2015
5
HOH
HOH
2015
A
HOH
2016
5
HOH
HOH
2016
A
HOH
2017
5
HOH
HOH
2017
A
HOH
2018
5
HOH
HOH
2018
A
HOH
2019
5
HOH
HOH
2019
A
HOH
2020
5
HOH
HOH
2020
A
HOH
2021
5
HOH
HOH
2021
A
HOH
2022
5
HOH
HOH
2022
A
HOH
2023
5
HOH
HOH
2023
A
HOH
2024
5
HOH
HOH
2024
A
HOH
2025
5
HOH
HOH
2025
A
HOH
2026
5
HOH
HOH
2026
A
HOH
2027
5
HOH
HOH
2027
A
HOH
2028
5
HOH
HOH
2028
A
HOH
2029
5
HOH
HOH
2029
A
HOH
2030
5
HOH
HOH
2030
A
HOH
2031
5
HOH
HOH
2031
A
HOH
2032
5
HOH
HOH
2032
A
HOH
2033
5
HOH
HOH
2033
A
HOH
2034
5
HOH
HOH
2034
A
HOH
2035
5
HOH
HOH
2035
A
HOH
2036
5
HOH
HOH
2036
A
HOH
2037
5
HOH
HOH
2037
A
HOH
2038
5
HOH
HOH
2038
A
HOH
2039
5
HOH
HOH
2039
A
HOH
2040
5
HOH
HOH
2040
A
HOH
2041
5
HOH
HOH
2041
A
HOH
2042
5
HOH
HOH
2042
A
HOH
2043
5
HOH
HOH
2043
A
HOH
2044
5
HOH
HOH
2044
A
HOH
2045
5
HOH
HOH
2045
A
HOH
2046
5
HOH
HOH
2046
A
HOH
2047
5
HOH
HOH
2047
A
HOH
2048
5
HOH
HOH
2048
A
HOH
2049
5
HOH
HOH
2049
A
HOH
2050
5
HOH
HOH
2050
A
HOH
2051
5
HOH
HOH
2051
A
HOH
2052
5
HOH
HOH
2052
A
HOH
2053
5
HOH
HOH
2053
A
HOH
2054
5
HOH
HOH
2054
A
HOH
2055
5
HOH
HOH
2055
A
HOH
2056
5
HOH
HOH
2056
A
HOH
2057
5
HOH
HOH
2057
A
HOH
2058
5
HOH
HOH
2058
A
HOH
2059
5
HOH
HOH
2059
A
HOH
2060
5
HOH
HOH
2060
A
HOH
2061
5
HOH
HOH
2061
A
HOH
2062
5
HOH
HOH
2062
A
HOH
2063
5
HOH
HOH
2063
A
HOH
2064
5
HOH
HOH
2064
A
HOH
2065
5
HOH
HOH
2065
A
HOH
2066
5
HOH
HOH
2066
A
HOH
2067
5
HOH
HOH
2067
A
HOH
2068
5
HOH
HOH
2068
A
HOH
2069
5
HOH
HOH
2069
A
HOH
2070
5
HOH
HOH
2070
A
HOH
2071
5
HOH
HOH
2071
A
HOH
2072
5
HOH
HOH
2072
A
HOH
2073
5
HOH
HOH
2073
A
HOH
2074
5
HOH
HOH
2074
A
HOH
2075
5
HOH
HOH
2075
A
HOH
2076
5
HOH
HOH
2076
A
HOH
2077
5
HOH
HOH
2077
A
HOH
2078
5
HOH
HOH
2078
A
HOH
2079
5
HOH
HOH
2079
A
HOH
2080
5
HOH
HOH
2080
A
HOH
2081
5
HOH
HOH
2081
A
HOH
2082
5
HOH
HOH
2082
A
HOH
2083
5
HOH
HOH
2083
A
HOH
2084
5
HOH
HOH
2084
A
HOH
2085
5
HOH
HOH
2085
A
HOH
2086
5
HOH
HOH
2086
A
HOH
2087
5
HOH
HOH
2087
A
HOH
2088
5
HOH
HOH
2088
A
HOH
2089
5
HOH
HOH
2089
A
HOH
2090
5
HOH
HOH
2090
A
HOH
2091
5
HOH
HOH
2091
A
HOH
2092
5
HOH
HOH
2092
A
HOH
2093
5
HOH
HOH
2093
A
HOH
2094
5
HOH
HOH
2094
A
HOH
2095
5
HOH
HOH
2095
A
HOH
2096
5
HOH
HOH
2096
A
HOH
2097
5
HOH
HOH
2097
A
HOH
2098
5
HOH
HOH
2098
A
HOH
2099
5
HOH
HOH
2099
A
HOH
2100
5
HOH
HOH
2100
A
HOH
2101
5
HOH
HOH
2101
A
HOH
2102
5
HOH
HOH
2102
A
HOH
2103
5
HOH
HOH
2103
A
HOH
2104
5
HOH
HOH
2104
A
HOH
2105
5
HOH
HOH
2105
A
HOH
2106
5
HOH
HOH
2106
A
HOH
2107
5
HOH
HOH
2107
A
HOH
2108
5
HOH
HOH
2108
A
HOH
2109
5
HOH
HOH
2109
A
HOH
2110
5
HOH
HOH
2110
A
HOH
2111
5
HOH
HOH
2111
A
HOH
2112
5
HOH
HOH
2112
A
HOH
2113
5
HOH
HOH
2113
A
HOH
2114
5
HOH
HOH
2114
A
HOH
2115
5
HOH
HOH
2115
A
HOH
2116
5
HOH
HOH
2116
A
HOH
2117
5
HOH
HOH
2117
A
HOH
2118
5
HOH
HOH
2118
A
HOH
2119
5
HOH
HOH
2119
A
HOH
2120
5
HOH
HOH
2120
A
HOH
2121
5
HOH
HOH
2121
A
HOH
2122
5
HOH
HOH
2122
A
HOH
2123
5
HOH
HOH
2123
A
HOH
2124
5
HOH
HOH
2124
A
HOH
2125
5
HOH
HOH
2125
A
HOH
2126
5
HOH
HOH
2126
A
HOH
2127
5
HOH
HOH
2127
A
HOH
2128
5
HOH
HOH
2128
A
HOH
2129
5
HOH
HOH
2129
A
HOH
2130
5
HOH
HOH
2130
A
HOH
2131
5
HOH
HOH
2131
A
HOH
2132
5
HOH
HOH
2132
A
HOH
2133
5
HOH
HOH
2133
A
HOH
2134
5
HOH
HOH
2134
A
HOH
2135
5
HOH
HOH
2135
A
HOH
2136
5
HOH
HOH
2136
A
HOH
2137
5
HOH
HOH
2137
A
HOH
2138
5
HOH
HOH
2138
A
HOH
2139
5
HOH
HOH
2139
A
HOH
2140
5
HOH
HOH
2140
A
HOH
2141
5
HOH
HOH
2141
A
HOH
2142
5
HOH
HOH
2142
A
HOH
2143
5
HOH
HOH
2143
A
HOH
2144
5
HOH
HOH
2144
A
HOH
2145
5
HOH
HOH
2145
A
HOH
2146
5
HOH
HOH
2146
A
HOH
2147
5
HOH
HOH
2147
A
HOH
2148
5
HOH
HOH
2148
A
HOH
2149
5
HOH
HOH
2149
A
HOH
2150
5
HOH
HOH
2150
A
HOH
2151
5
HOH
HOH
2151
A
HOH
2152
5
HOH
HOH
2152
A
HOH
2153
5
HOH
HOH
2153
A
HOH
2154
5
HOH
HOH
2154
A
HOH
2155
5
HOH
HOH
2155
A
HOH
2156
5
HOH
HOH
2156
A
HOH
2157
5
HOH
HOH
2157
A
HOH
2158
5
HOH
HOH
2158
A
HOH
2159
5
HOH
HOH
2159
A
HOH
2160
5
HOH
HOH
2160
A
HOH
2161
5
HOH
HOH
2161
A
HOH
2162
5
HOH
HOH
2162
A
HOH
2163
5
HOH
HOH
2163
A
HOH
2164
5
HOH
HOH
2164
A
HOH
2165
5
HOH
HOH
2165
A
HOH
2166
5
HOH
HOH
2166
A
HOH
2167
5
HOH
HOH
2167
A
HOH
2168
5
HOH
HOH
2168
A
HOH
2169
5
HOH
HOH
2169
A
HOH
2170
5
HOH
HOH
2170
A
HOH
2171
5
HOH
HOH
2171
A
HOH
2172
5
HOH
HOH
2172
A
HOH
2173
5
HOH
HOH
2173
A
HOH
2174
5
HOH
HOH
2174
A
HOH
2175
5
HOH
HOH
2175
A
HOH
2176
5
HOH
HOH
2176
A
HOH
2177
5
HOH
HOH
2177
A
HOH
2178
5
HOH
HOH
2178
A
HOH
2179
5
HOH
HOH
2179
A
HOH
2180
5
HOH
HOH
2180
A
HOH
2181
5
HOH
HOH
2181
A
HOH
2182
5
HOH
HOH
2182
A
HOH
2183
5
HOH
HOH
2183
A
HOH
2184
5
HOH
HOH
2184
A
HOH
2185
5
HOH
HOH
2185
A
HOH
2186
5
HOH
HOH
2186
A
HOH
2187
5
HOH
HOH
2187
A
HOH
2188
5
HOH
HOH
2188
A
HOH
2189
5
HOH
HOH
2189
A
HOH
2190
5
HOH
HOH
2190
A
HOH
2191
5
HOH
HOH
2191
A
HOH
2192
5
HOH
HOH
2192
A
HOH
2193
5
HOH
HOH
2193
A
HOH
2194
5
HOH
HOH
2194
A
HOH
2195
5
HOH
HOH
2195
A
HOH
2196
5
HOH
HOH
2196
A
HOH
2197
5
HOH
HOH
2197
A
HOH
2198
5
HOH
HOH
2198
A
HOH
2199
5
HOH
HOH
2199
A
HOH
2200
5
HOH
HOH
2200
A
PRO
71
n
1
PRO
71
A
PRO
72
n
2
PRO
72
A
GLN
73
n
3
GLN
73
A
PRO
74
n
4
PRO
74
A
ARG
75
n
5
ARG
75
A
LYS
76
n
6
LYS
76
A
LYS
77
n
7
LYS
77
A
ARG
78
n
8
ARG
78
A
PRO
79
n
9
PRO
79
A
GLU
80
n
10
GLU
80
A
ASP
81
n
11
ASP
81
A
PHE
82
n
12
PHE
82
A
LYS
83
n
13
LYS
83
A
PHE
84
n
14
PHE
84
A
GLY
85
n
15
GLY
85
A
LYS
86
n
16
LYS
86
A
ILE
87
n
17
ILE
87
A
LEU
88
n
18
LEU
88
A
GLY
89
n
19
GLY
89
A
GLU
90
n
20
GLU
90
A
GLY
91
n
21
GLY
91
A
SER
92
n
22
SER
92
A
PHE
93
n
23
PHE
93
A
SER
94
n
24
SER
94
A
THR
95
n
25
THR
95
A
VAL
96
n
26
VAL
96
A
VAL
97
n
27
VAL
97
A
LEU
98
n
28
LEU
98
A
ALA
99
n
29
ALA
99
A
ARG
100
n
30
ARG
100
A
GLU
101
n
31
GLU
101
A
LEU
102
n
32
LEU
102
A
ALA
103
n
33
ALA
103
A
THR
104
n
34
THR
104
A
SER
105
n
35
SER
105
A
ARG
106
n
36
ARG
106
A
GLU
107
n
37
GLU
107
A
TYR
108
n
38
TYR
108
A
ALA
109
n
39
ALA
109
A
ILE
110
n
40
ILE
110
A
LYS
111
n
41
LYS
111
A
ILE
112
n
42
ILE
112
A
LEU
113
n
43
LEU
113
A
GLU
114
n
44
GLU
114
A
LYS
115
n
45
LYS
115
A
ARG
116
n
46
ARG
116
A
HIS
117
n
47
HIS
117
A
ILE
118
n
48
ILE
118
A
ILE
119
n
49
ILE
119
A
LYS
120
n
50
LYS
120
A
GLU
121
n
51
GLU
121
A
ASN
122
n
52
ASN
122
A
LYS
123
n
53
LYS
123
A
VAL
124
n
54
VAL
124
A
PRO
125
n
55
PRO
125
A
TYR
126
n
56
TYR
126
A
VAL
127
n
57
VAL
127
A
THR
128
n
58
THR
128
A
ARG
129
n
59
ARG
129
A
GLU
130
n
60
GLU
130
A
ARG
131
n
61
ARG
131
A
ASP
132
n
62
ASP
132
A
VAL
133
n
63
VAL
133
A
MET
134
n
64
MET
134
A
SER
135
n
65
SER
135
A
ARG
136
n
66
ARG
136
A
LEU
137
n
67
LEU
137
A
ASP
138
n
68
ASP
138
A
HIS
139
n
69
HIS
139
A
PRO
140
n
70
PRO
140
A
PHE
141
n
71
PHE
141
A
PHE
142
n
72
PHE
142
A
VAL
143
n
73
VAL
143
A
LYS
144
n
74
LYS
144
A
LEU
145
n
75
LEU
145
A
TYR
146
n
76
TYR
146
A
PHE
147
n
77
PHE
147
A
THR
148
n
78
THR
148
A
PHE
149
n
79
PHE
149
A
GLN
150
n
80
GLN
150
A
ASP
151
n
81
ASP
151
A
ASP
152
n
82
ASP
152
A
GLU
153
n
83
GLU
153
A
LYS
154
n
84
LYS
154
A
LEU
155
n
85
LEU
155
A
TYR
156
n
86
TYR
156
A
PHE
157
n
87
PHE
157
A
GLY
158
n
88
GLY
158
A
LEU
159
n
89
LEU
159
A
SER
160
n
90
SER
160
A
TYR
161
n
91
TYR
161
A
ALA
162
n
92
ALA
162
A
LYS
163
n
93
LYS
163
A
ASN
164
n
94
ASN
164
A
GLY
165
n
95
GLY
165
A
GLU
166
n
96
GLU
166
A
LEU
167
n
97
LEU
167
A
LEU
168
n
98
LEU
168
A
LYS
169
n
99
LYS
169
A
TYR
170
n
100
TYR
170
A
ILE
171
n
101
ILE
171
A
ARG
172
n
102
ARG
172
A
LYS
173
n
103
LYS
173
A
ILE
174
n
104
ILE
174
A
GLY
175
n
105
GLY
175
A
SER
176
n
106
SER
176
A
PHE
177
n
107
PHE
177
A
ASP
178
n
108
ASP
178
A
GLU
179
n
109
GLU
179
A
THR
180
n
110
THR
180
A
CYS
181
n
111
CYS
181
A
THR
182
n
112
THR
182
A
ARG
183
n
113
ARG
183
A
PHE
184
n
114
PHE
184
A
TYR
185
n
115
TYR
185
A
THR
186
n
116
THR
186
A
ALA
187
n
117
ALA
187
A
GLU
188
n
118
GLU
188
A
ILE
189
n
119
ILE
189
A
VAL
190
n
120
VAL
190
A
SER
191
n
121
SER
191
A
ALA
192
n
122
ALA
192
A
LEU
193
n
123
LEU
193
A
GLU
194
n
124
GLU
194
A
TYR
195
n
125
TYR
195
A
LEU
196
n
126
LEU
196
A
HIS
197
n
127
HIS
197
A
GLY
198
n
128
GLY
198
A
LYS
199
n
129
LYS
199
A
GLY
200
n
130
GLY
200
A
ILE
201
n
131
ILE
201
A
ILE
202
n
132
ILE
202
A
HIS
203
n
133
HIS
203
A
ARG
204
n
134
ARG
204
A
ASP
205
n
135
ASP
205
A
LEU
206
n
136
LEU
206
A
LYS
207
n
137
LYS
207
A
PRO
208
n
138
PRO
208
A
GLU
209
n
139
GLU
209
A
ASN
210
n
140
ASN
210
A
ILE
211
n
141
ILE
211
A
LEU
212
n
142
LEU
212
A
LEU
213
n
143
LEU
213
A
ASN
214
n
144
ASN
214
A
GLU
215
n
145
GLU
215
A
ASP
216
n
146
ASP
216
A
MET
217
n
147
MET
217
A
HIS
218
n
148
HIS
218
A
ILE
219
n
149
ILE
219
A
GLN
220
n
150
GLN
220
A
ILE
221
n
151
ILE
221
A
THR
222
n
152
THR
222
A
ASP
223
n
153
ASP
223
A
PHE
224
n
154
PHE
224
A
GLY
225
n
155
GLY
225
A
THR
226
n
156
THR
226
A
ALA
227
n
157
ALA
227
A
LYS
228
n
158
LYS
228
A
VAL
229
n
159
VAL
229
A
LEU
230
n
160
LEU
230
A
SER
231
n
161
SER
231
A
PRO
232
n
162
PRO
232
A
n
163
233
A
n
164
234
A
n
165
235
A
n
166
236
A
ALA
237
n
167
ALA
237
A
ARG
238
n
168
ARG
238
A
ALA
239
n
169
ALA
239
A
ASN
240
n
170
ASN
240
A
SEP
241
n
171
SEP
241
A
PHE
242
n
172
PHE
242
A
VAL
243
n
173
VAL
243
A
GLY
244
n
174
GLY
244
A
THR
245
n
175
THR
245
A
ALA
246
n
176
ALA
246
A
GLN
247
n
177
GLN
247
A
TYR
248
n
178
TYR
248
A
VAL
249
n
179
VAL
249
A
SER
250
n
180
SER
250
A
PRO
251
n
181
PRO
251
A
GLU
252
n
182
GLU
252
A
LEU
253
n
183
LEU
253
A
LEU
254
n
184
LEU
254
A
THR
255
n
185
THR
255
A
GLU
256
n
186
GLU
256
A
LYS
257
n
187
LYS
257
A
SER
258
n
188
SER
258
A
ALA
259
n
189
ALA
259
A
CYS
260
n
190
CYS
260
A
LYS
261
n
191
LYS
261
A
SER
262
n
192
SER
262
A
SER
263
n
193
SER
263
A
ASP
264
n
194
ASP
264
A
LEU
265
n
195
LEU
265
A
TRP
266
n
196
TRP
266
A
ALA
267
n
197
ALA
267
A
LEU
268
n
198
LEU
268
A
GLY
269
n
199
GLY
269
A
CYS
270
n
200
CYS
270
A
ILE
271
n
201
ILE
271
A
ILE
272
n
202
ILE
272
A
TYR
273
n
203
TYR
273
A
GLN
274
n
204
GLN
274
A
LEU
275
n
205
LEU
275
A
VAL
276
n
206
VAL
276
A
ALA
277
n
207
ALA
277
A
GLY
278
n
208
GLY
278
A
LEU
279
n
209
LEU
279
A
PRO
280
n
210
PRO
280
A
PRO
281
n
211
PRO
281
A
PHE
282
n
212
PHE
282
A
ARG
283
n
213
ARG
283
A
ALA
284
n
214
ALA
284
A
GLY
285
n
215
GLY
285
A
ASN
286
n
216
ASN
286
A
GLU
287
n
217
GLU
287
A
TYR
288
n
218
TYR
288
A
LEU
289
n
219
LEU
289
A
ILE
290
n
220
ILE
290
A
PHE
291
n
221
PHE
291
A
GLN
292
n
222
GLN
292
A
LYS
293
n
223
LYS
293
A
ILE
294
n
224
ILE
294
A
ILE
295
n
225
ILE
295
A
LYS
296
n
226
LYS
296
A
LEU
297
n
227
LEU
297
A
GLU
298
n
228
GLU
298
A
TYR
299
n
229
TYR
299
A
ASP
300
n
230
ASP
300
A
PHE
301
n
231
PHE
301
A
PRO
302
n
232
PRO
302
A
GLU
303
n
233
GLU
303
A
LYS
304
n
234
LYS
304
A
PHE
305
n
235
PHE
305
A
PHE
306
n
236
PHE
306
A
PRO
307
n
237
PRO
307
A
LYS
308
n
238
LYS
308
A
ALA
309
n
239
ALA
309
A
ARG
310
n
240
ARG
310
A
ASP
311
n
241
ASP
311
A
LEU
312
n
242
LEU
312
A
VAL
313
n
243
VAL
313
A
GLU
314
n
244
GLU
314
A
LYS
315
n
245
LYS
315
A
LEU
316
n
246
LEU
316
A
LEU
317
n
247
LEU
317
A
VAL
318
n
248
VAL
318
A
LEU
319
n
249
LEU
319
A
ASP
320
n
250
ASP
320
A
ALA
321
n
251
ALA
321
A
THR
322
n
252
THR
322
A
LYS
323
n
253
LYS
323
A
ARG
324
n
254
ARG
324
A
LEU
325
n
255
LEU
325
A
GLY
326
n
256
GLY
326
A
CYS
327
n
257
CYS
327
A
GLU
328
n
258
GLU
328
A
GLU
329
n
259
GLU
329
A
MET
330
n
260
MET
330
A
GLU
331
n
261
GLU
331
A
GLY
332
n
262
GLY
332
A
TYR
333
n
263
TYR
333
A
GLY
334
n
264
GLY
334
A
PRO
335
n
265
PRO
335
A
LEU
336
n
266
LEU
336
A
LYS
337
n
267
LYS
337
A
ALA
338
n
268
ALA
338
A
HIS
339
n
269
HIS
339
A
PRO
340
n
270
PRO
340
A
PHE
341
n
271
PHE
341
A
PHE
342
n
272
PHE
342
A
GLU
343
n
273
GLU
343
A
SER
344
n
274
SER
344
A
VAL
345
n
275
VAL
345
A
THR
346
n
276
THR
346
A
TRP
347
n
277
TRP
347
A
GLU
348
n
278
GLU
348
A
ASN
349
n
279
ASN
349
A
LEU
350
n
280
LEU
350
A
HIS
351
n
281
HIS
351
A
GLN
352
n
282
GLN
352
A
GLN
353
n
283
GLN
353
A
THR
354
n
284
THR
354
A
PRO
355
n
285
PRO
355
A
PRO
356
n
286
PRO
356
A
LYS
357
n
287
LYS
357
A
LEU
358
n
288
LEU
358
A
THR
359
n
289
THR
359
A
author_and_software_defined_assembly
PISA
2
dimeric
9510
-173.6
24620
A
SEP
241
PHOSPHOSERINE
A
SEP
171
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
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
5_555
x-y,-y,-z+1/3
crystal symmetry operation
0.0000000000
0.0000000000
15.8746666667
A
N
LEU
88
A
N
LEU
18
A
O
VAL
96
A
O
VAL
26
A
N
ALA
99
A
N
ALA
29
A
O
TYR
108
A
O
TYR
38
A
N
LEU
113
A
N
LEU
43
A
O
LEU
155
A
O
LEU
85
A
O
GLY
158
A
O
GLY
88
A
N
TYR
146
A
N
TYR
76
A
N
ILE
202
A
N
ILE
132
A
O
LYS
228
A
O
LYS
158
A
N
LEU
212
A
N
LEU
142
A
O
GLN
220
A
O
GLN
150
1
A
HOH
2144
P
HOH
1
A
CG
GLN
73
A
CG
GLN
3
1
Y
1
A
CD
GLN
73
A
CD
GLN
3
1
Y
1
A
OE1
GLN
73
A
OE1
GLN
3
1
Y
1
A
NE2
GLN
73
A
NE2
GLN
3
1
Y
1
A
CG
ARG
75
A
CG
ARG
5
1
Y
1
A
CD
ARG
75
A
CD
ARG
5
1
Y
1
A
NE
ARG
75
A
NE
ARG
5
1
Y
1
A
CZ
ARG
75
A
CZ
ARG
5
1
Y
1
A
NH1
ARG
75
A
NH1
ARG
5
1
Y
1
A
NH2
ARG
75
A
NH2
ARG
5
1
Y
1
A
CG
ARG
238
A
CG
ARG
168
1
Y
1
A
CD
ARG
238
A
CD
ARG
168
1
Y
1
A
NE
ARG
238
A
NE
ARG
168
1
Y
1
A
CZ
ARG
238
A
CZ
ARG
168
1
Y
1
A
NH1
ARG
238
A
NH1
ARG
168
1
Y
1
A
NH2
ARG
238
A
NH2
ARG
168
1
Y
1
A
CG
GLU
303
A
CG
GLU
233
1
Y
1
A
CD
GLU
303
A
CD
GLU
233
1
Y
1
A
OE1
GLU
303
A
OE1
GLU
233
1
Y
1
A
OE2
GLU
303
A
OE2
GLU
233
1
Y
1
A
CG
LYS
304
A
CG
LYS
234
1
Y
1
A
CD
LYS
304
A
CD
LYS
234
1
Y
1
A
CE
LYS
304
A
CE
LYS
234
1
Y
1
A
NZ
LYS
304
A
NZ
LYS
234
1
Y
1
A
CG
GLU
348
A
CG
GLU
278
1
Y
1
A
CD
GLU
348
A
CD
GLU
278
1
Y
1
A
OE1
GLU
348
A
OE1
GLU
278
1
Y
1
A
OE2
GLU
348
A
OE2
GLU
278
1
Y
1
A
CG
LYS
357
A
CG
LYS
287
1
Y
1
A
CD
LYS
357
A
CD
LYS
287
1
Y
1
A
CE
LYS
357
A
CE
LYS
287
1
Y
1
A
NZ
LYS
357
A
NZ
LYS
287
1
Y
1
A
GLU
233
A
GLU
163
1
Y
1
A
SER
234
A
SER
164
1
Y
1
A
LYS
235
A
LYS
165
1
Y
1
A
GLN
236
A
GLN
166
1
Y
1
A
ASP
151
-118.05
-163.87
1
A
ARG
204
74.08
-8.04
1
A
ASP
205
-146.28
40.77
1
A
ASP
223
71.92
72.18
1
A
SER
231
-131.46
-40.66
1
A
ALA
239
-171.65
-134.93
1
A
ASN
240
88.27
164.70
1
A
SEP
241
108.48
-54.94
1
A
PHE
305
-26.58
122.50
1
A
GLU
331
74.10
30.83
PROT.PARAM
PROT.TOP
ATP.PARAM
WATER.TOP
WATER_REP.PARAM
GLYC.TOP
ION.PARAM
ATP.TOP
GLYC.PARAM
ION.TOP
27.9
2.76
0.39
0.00
2.76
0.00
-5.52
0.223
0.009
0.196
0.196
2.00
24.44
579
27642
2.1
97.9
RANDOM
2010867.11
0.000000
1
RESTRAINED
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
PDB ENTRY 1YDB
FLAT MODEL
51.6939
0.380238
0.26
0.22
5.00
0.26
0.24
2.00
24.44
200
2599
104
0
2295
0.005
1.3
21.6
0.82
1.50
1.50
2.35
2.00
2.23
2.00
3.30
2.50
0.276
0.030
0.263
2.13
84
4355
6
1.9
95.4
12.6
2.000
25.000
1H1W
27643
0.09100
1
7.3000
2.800
98.0
0.45400
2.00
2.07
2.000
1
2.50
93.5
refinement
CNS
1.0
data reduction
DENZO
data scaling
SCALEPACK
phasing
AMoRE
High resolution crystal structure of the human PDK1 catalytic domain
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
4
N
N
5
N
N
A
ARG
78
A
ARG
8
HELX_P
A
GLU
80
A
GLU
10
5
1
3
A
LYS
115
A
LYS
45
HELX_P
A
GLU
121
A
GLU
51
1
2
7
A
LYS
123
A
LYS
53
HELX_P
A
LEU
137
A
LEU
67
1
3
15
A
GLU
166
A
GLU
96
HELX_P
A
GLY
175
A
GLY
105
1
4
10
A
ASP
178
A
ASP
108
HELX_P
A
LYS
199
A
LYS
129
1
5
22
A
THR
245
A
THR
175
HELX_P
A
VAL
249
A
VAL
179
5
6
5
A
SER
250
A
SER
180
HELX_P
A
GLU
256
A
GLU
186
1
7
7
A
CYS
260
A
CYS
190
HELX_P
A
GLY
278
A
GLY
208
1
8
19
A
ASN
286
A
ASN
216
HELX_P
A
LYS
296
A
LYS
226
1
9
11
A
PHE
306
A
PHE
236
HELX_P
A
LYS
315
A
LYS
245
1
10
10
A
ASP
320
A
ASP
250
HELX_P
A
ARG
324
A
ARG
254
5
11
5
A
CYS
327
A
CYS
257
HELX_P
A
GLU
331
A
GLU
261
5
12
5
A
GLY
332
A
GLY
262
HELX_P
A
ALA
338
A
ALA
268
1
13
7
A
HIS
339
A
HIS
269
HELX_P
A
GLU
343
A
GLU
273
5
14
5
A
ASN
349
A
ASN
279
HELX_P
A
GLN
353
A
GLN
283
5
15
5
covale
1.336
both
A
ASN
240
A
C
ASN
170
1_555
A
SEP
241
A
N
SEP
171
1_555
covale
1.329
both
A
SEP
241
A
C
SEP
171
1_555
A
PHE
242
A
N
PHE
172
1_555
TRANSFERASE
TRANSFERASE, PHOSPHOINOSITIDE DEPENDENT PROTEIN KINASE, PKA, AGC KINASE ACTIVATION, PIF-POCKET, PI3-KINASE SIGNALLING, SERINE/THREONINE-PROTEIN KINASE, ATP-BINDING
PDPK_HUMAN
UNP
1
O15530
71
359
1H1W
71
359
O15530
A
1
1
289
5
2
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
PHE
82
A
PHE
12
A
GLU
90
A
GLU
20
A
THR
95
A
THR
25
A
GLU
101
A
GLU
31
A
GLU
107
A
GLU
37
A
GLU
114
A
GLU
44
A
LYS
154
A
LYS
84
A
LEU
159
A
LEU
89
A
LEU
145
A
LEU
75
A
GLN
150
A
GLN
80
A
ILE
201
A
ILE
131
A
ILE
202
A
ILE
132
A
LYS
228
A
LYS
158
A
VAL
229
A
VAL
159
A
ILE
211
A
ILE
141
A
LEU
213
A
LEU
143
A
ILE
219
A
ILE
149
A
ILE
221
A
ILE
151
BINDING SITE FOR RESIDUE SO4 A 1368
A
SO4
1368
Software
6
BINDING SITE FOR RESIDUE SO4 A 1369
A
SO4
1369
Software
6
BINDING SITE FOR RESIDUE SO4 A 1370
A
SO4
1370
Software
5
BINDING SITE FOR RESIDUE SO4 A 1371
A
SO4
1371
Software
4
BINDING SITE FOR RESIDUE SO4 A 1372
A
SO4
1372
Software
3
BINDING SITE FOR RESIDUE ATP A 1373
A
ATP
1373
Software
18
BINDING SITE FOR RESIDUE GOL A 1360
A
GOL
1360
Software
7
BINDING SITE FOR RESIDUE GOL A 1361
A
GOL
1361
Software
10
BINDING SITE FOR RESIDUE GOL A 1362
A
GOL
1362
Software
8
BINDING SITE FOR RESIDUE GOL A 1363
A
GOL
1363
Software
9
BINDING SITE FOR RESIDUE GOL A 1364
A
GOL
1364
Software
7
BINDING SITE FOR RESIDUE GOL A 1365
A
GOL
1365
Software
7
BINDING SITE FOR RESIDUE GOL A 1366
A
GOL
1366
Software
6
BINDING SITE FOR RESIDUE GOL A 1367
A
GOL
1367
Software
4
A
LYS
76
A
LYS
6
6
1_555
A
ARG
131
A
ARG
61
6
1_555
A
THR
148
A
THR
78
6
1_555
A
PHE
149
A
PHE
79
6
1_555
A
GLN
150
A
GLN
80
6
1_555
A
HOH
2043
P
HOH
6
1_555
A
TYR
146
A
TYR
76
6
1_555
A
SER
160
A
SER
90
6
1_555
A
GLN
220
A
GLN
150
6
1_555
A
GOL
1363
E
GOL
6
1_555
A
HOH
2194
P
HOH
6
1_555
A
HOH
2195
P
HOH
6
5_555
A
ARG
106
A
ARG
36
5
1_555
A
PRO
140
A
PRO
70
5
5_555
A
GOL
1363
E
GOL
5
1_555
A
GOL
1365
G
GOL
5
5_555
A
HOH
2195
P
HOH
5
1_555
A
LYS
83
A
LYS
13
4
1_556
A
THR
346
A
THR
276
4
1_555
A
TRP
347
A
TRP
277
4
1_555
A
GLU
348
A
GLU
278
4
1_555
A
ARG
75
A
ARG
5
3
1_555
A
ARG
136
A
ARG
66
3
5_555
A
LYS
199
A
LYS
129
3
5_555
A
GLY
89
A
GLY
19
18
1_555
A
GLY
91
A
GLY
21
18
1_555
A
SER
92
A
SER
22
18
1_555
A
SER
94
A
SER
24
18
1_555
A
VAL
96
A
VAL
26
18
1_555
A
ALA
109
A
ALA
39
18
1_555
A
LYS
111
A
LYS
41
18
1_555
A
SER
160
A
SER
90
18
1_555
A
ALA
162
A
ALA
92
18
1_555
A
GLU
166
A
GLU
96
18
1_555
A
LEU
212
A
LEU
142
18
1_555
A
GOL
1366
H
GOL
18
1_555
A
HOH
2104
P
HOH
18
1_555
A
HOH
2196
P
HOH
18
1_555
A
HOH
2197
P
HOH
18
1_555
A
HOH
2198
P
HOH
18
1_555
A
HOH
2199
P
HOH
18
1_555
A
HOH
2200
P
HOH
18
1_555
A
PHE
84
A
PHE
14
7
1_555
A
LYS
154
A
LYS
84
7
1_555
A
TYR
156
A
TYR
86
7
1_555
A
GLU
328
A
GLU
258
7
1_554
A
GLU
331
A
GLU
261
7
1_554
A
GLY
332
A
GLY
262
7
1_554
A
HOH
2187
P
HOH
7
1_555
A
ALA
103
A
ALA
33
10
1_555
A
THR
104
A
THR
34
10
1_555
A
SER
105
A
SER
35
10
1_555
A
HIS
139
A
HIS
69
10
5_555
A
SER
191
A
SER
121
10
5_555
A
TRP
347
A
TRP
277
10
5_555
A
GLU
348
A
GLU
278
10
5_555
A
ASN
349
A
ASN
279
10
5_555
A
LEU
350
A
LEU
280
10
5_555
A
HIS
351
A
HIS
281
10
5_555
A
PHE
82
A
PHE
12
8
1_555
A
LYS
83
A
LYS
13
8
1_555
A
PHE
84
A
PHE
14
8
1_555
A
GLU
194
A
GLU
124
8
1_554
A
GLY
334
A
GLY
264
8
1_554
A
LYS
337
A
LYS
267
8
1_554
A
HOH
2187
P
HOH
8
1_555
A
HOH
2189
P
HOH
8
1_555
A
ARG
106
A
ARG
36
9
1_555
A
GLU
107
A
GLU
37
9
1_555
A
TYR
108
A
TYR
38
9
1_555
A
SER
160
A
SER
90
9
1_555
A
TYR
161
A
TYR
91
9
1_555
A
GOL
1365
G
GOL
9
5_555
A
SO4
1369
K
SO4
9
1_555
A
SO4
1370
L
SO4
9
1_555
A
HOH
2069
P
HOH
9
1_555
A
LYS
315
A
LYS
245
7
1_555
A
MET
330
A
MET
260
7
1_555
A
HOH
2010
P
HOH
7
1_556
A
HOH
2153
P
HOH
7
1_555
A
HOH
2191
P
HOH
7
1_555
A
HOH
2192
P
HOH
7
1_555
A
HOH
2193
P
HOH
7
1_555
A
SER
105
A
SER
35
7
5_555
A
ARG
106
A
ARG
36
7
5_555
A
GLU
107
A
GLU
37
7
5_555
A
HIS
351
A
HIS
281
7
1_555
A
GLN
352
A
GLN
282
7
1_555
A
GOL
1363
E
GOL
7
5_555
A
SO4
1370
L
SO4
7
5_555
A
SER
94
A
SER
24
6
1_555
A
LYS
111
A
LYS
41
6
1_555
A
GLU
130
A
GLU
60
6
1_555
A
ATP
1373
O
ATP
6
1_555
A
HOH
2111
P
HOH
6
1_555
A
HOH
2200
P
HOH
6
1_555
A
LEU
297
A
LEU
227
4
1_555
A
TYR
299
A
TYR
229
4
1_555
A
PHE
301
A
PHE
231
4
1_555
A
HOH
2143
P
HOH
4
1_555
154
P 32 2 1