0.009770
0.005641
0.000000
0.000000
0.011282
0.000000
0.000000
0.000000
0.005952
0.00000
0.00000
0.00000
Patel, S.
Vuillard, L.
Cleasby, A.
Murray, C.W.
Yon, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
102.351
102.351
168.000
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
I -1
126.904
IODIDE ION
non-polymer
C32 H41 N3 O4
531.686
3-[({(1S,2R)-1-BENZYL-2-HYDROXY-3-[(3-METHOXYBENZYL)AMINO]PROPYL}AMINO)(HYDROXY)METHYL]-N,N-DIPROPYLBENZAMIDE
HYDROXYETHYLAMINE BACE INHIBITOR
non-polymer
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
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
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
I
N
184
N
C
N
185
N
C
N
186
N
C
N
187
N
N
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
C
N
192
N
O
Y
193
N
C
Y
194
N
C
Y
195
N
C
Y
196
N
C
Y
197
N
C
Y
198
N
C
N
199
N
C
N
200
N
O
N
201
N
N
N
202
S
C
N
203
N
C
Y
204
N
C
Y
205
N
C
Y
206
N
C
Y
207
N
C
Y
208
N
C
Y
209
N
C
N
210
R
C
N
211
N
O
N
212
N
C
N
213
N
N
N
214
N
C
Y
215
N
C
Y
216
N
C
Y
217
N
C
Y
218
N
C
Y
219
N
C
N
220
N
O
N
221
N
C
Y
222
N
C
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
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
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
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
N
N
265
S
C
N
266
N
C
N
267
N
O
N
268
N
C
N
269
N
C
N
270
N
C
N
271
N
C
N
272
N
O
N
273
N
H
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
H
N
286
N
N
N
287
S
C
N
288
N
C
N
289
N
O
N
290
N
C
N
291
N
C
N
292
N
C
N
293
N
C
N
294
N
N
N
295
N
O
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
N
N
312
S
C
N
313
N
C
N
314
N
O
N
315
N
C
N
316
N
C
N
317
N
S
N
318
N
C
N
319
N
O
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
N
N
332
S
C
N
333
N
C
N
334
N
O
N
335
N
C
Y
336
N
C
Y
337
N
C
Y
338
N
C
Y
339
N
C
Y
340
N
C
Y
341
N
C
N
342
N
O
N
343
N
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
H
N
352
N
H
N
353
N
H
N
354
N
N
N
355
S
C
N
356
N
C
N
357
N
O
N
358
N
C
N
359
N
C
N
360
N
C
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
H
N
371
N
N
N
372
S
C
N
373
N
C
N
374
N
O
N
375
N
C
N
376
N
O
N
377
N
O
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
N
N
386
S
C
N
387
N
C
N
388
N
O
N
389
R
C
N
390
N
O
N
391
N
C
N
392
N
O
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
N
Y
411
N
C
Y
412
N
C
Y
413
N
C
Y
414
N
C
Y
415
N
C
N
416
N
O
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
H
N
427
N
H
N
428
N
H
N
429
N
N
N
430
S
C
N
431
N
C
N
432
N
O
N
433
N
C
Y
434
N
C
Y
435
N
C
Y
436
N
C
Y
437
N
C
Y
438
N
C
Y
439
N
C
N
440
N
O
N
441
N
O
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
H
N
450
N
H
N
451
N
H
N
452
N
H
N
453
N
N
N
454
S
C
N
455
N
C
N
456
N
O
N
457
N
C
N
458
N
C
N
459
N
C
N
460
N
O
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
H
N
469
N
H
N
470
N
H
N
471
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
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
doub
N
195
N
sing
Y
196
N
sing
Y
197
N
doub
Y
198
N
doub
N
199
N
sing
Y
200
N
sing
N
201
N
sing
Y
202
N
doub
N
203
N
sing
Y
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
Y
217
N
sing
Y
218
N
doub
Y
219
N
doub
N
220
N
sing
Y
221
N
sing
N
222
N
sing
Y
223
N
doub
N
224
N
sing
Y
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
Y
240
N
sing
Y
241
N
doub
Y
242
N
doub
N
243
N
sing
Y
244
N
sing
N
245
N
sing
Y
246
N
doub
N
247
N
sing
N
248
N
sing
Y
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
sing
N
281
N
sing
N
282
N
doub
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
doub
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
sing
N
325
N
doub
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
Y
330
N
doub
Y
331
N
sing
Y
332
N
sing
N
333
N
sing
Y
334
N
doub
N
335
N
sing
Y
336
N
doub
N
337
N
sing
Y
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
doub
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
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
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
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
doub
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
sing
N
392
N
sing
N
393
N
sing
N
394
N
doub
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
Y
399
N
doub
Y
400
N
sing
Y
401
N
sing
N
402
N
sing
Y
403
N
doub
Y
404
N
sing
Y
405
N
sing
N
406
N
sing
Y
407
N
sing
Y
408
N
doub
N
409
N
sing
Y
410
N
doub
N
411
N
sing
Y
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
sing
N
420
N
sing
N
421
N
sing
N
422
N
doub
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
Y
427
N
doub
Y
428
N
sing
Y
429
N
sing
N
430
N
sing
Y
431
N
doub
N
432
N
sing
Y
433
N
doub
N
434
N
sing
Y
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
sing
N
444
N
sing
N
445
N
sing
N
446
N
doub
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
N
455
N
sing
N
456
N
sing
N
457
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
343
407
10.1016/J.JMB.2004.08.018
15451669
Apo and Inhibitor Complex Structures of Bace (Beta-Secretase)
2004
10.2210/pdb1w51/pdb
pdb_00001w51
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
IMAGE PLATE
RIGAKU RAXIS 4
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RU300
45822.445
BETA-SECRETASE 1
3.4.23.46
ACTIVE PROTEASE DOMAIN, RESIDUES 43-453
YES
1
man
polymer
126.904
IODIDE ION
4
syn
non-polymer
531.686
3-[({(1S,2R)-1-BENZYL-2-HYDROXY-3-[(3-METHOXYBENZYL)AMINO]PROPYL}AMINO)(HYDROXY)METHYL]-N,N-DIPROPYLBENZAMIDE
1
syn
non-polymer
18.015
water
140
nat
water
BETA SECRETASE, BETA-SITE APP CLEAVING ENZYME 1, BETA-SITE AMYLOID PRECURSOR PROTEIN CLEAVING ENZYME 1, ASPARTYL PROTEASE 2, ASP 2, ASP2, MEMBRANE-ASSOCIATED ASPARTIC PROTEASE 2, MEMAPSIN-2
no
no
LPRETDEEPEEPGKKGSFVEMVDNLRGKSGQGYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYR
DLRKGVYVPYTQGKWEGELGTDLVSIPHGPNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSLEPFFDSLV
KQTHVPNLFSLQLCGAGFPLNQSEVLASVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYN
YDKSIVDSGTTNLRLPKKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNIFPVISLYLMGEVTNQSFRITIL
PQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVIMEGFYVVFDRARKRIGFAVSACHVHDEFRTAAVEGPFVTLDMED
CGYNIPQTDES
LPRETDEEPEEPGKKGSFVEMVDNLRGKSGQGYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYR
DLRKGVYVPYTQGKWEGELGTDLVSIPHGPNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSLEPFFDSLV
KQTHVPNLFSLQLCGAGFPLNQSEVLASVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYN
YDKSIVDSGTTNLRLPKKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNIFPVISLYLMGEVTNQSFRITIL
PQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVIMEGFYVVFDRARKRIGFAVSACHVHDEFRTAAVEGPFVTLDMED
CGYNIPQTDES
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
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
9606
HOMO SAPIENS
469008
ESCHERICHIA COLI
BL21(DE3)
PET11A
1
2.77
55.62
6.60
pH 6.60
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Other
Refinement description
1
0
2004-09-23
1
1
2011-05-08
1
2
2011-07-13
1
3
2023-12-13
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
STRUCTURE OF BETA-SECRETASE COMPLEXED WITH INHIBITOR
CRYSTAL STRUCTURE OF BETA-SECRETASE COMPLEXED WITHINHIBITOR OM00-3
COMPLEX OF GGA1-VHS DOMAIN AND BETA- SECRETASE C-TERMINALPHOSPHOPEPTIDE
CRYSTAL STRUCTURE OF UNBOUND BETA-SECRETASE CATALYTICDOMAIN.
VHS DOMAIN OF HUMAN GGA1 COMPLEXED WITH C -TERMINAL PEPTIDEFROM BACE
VHS DOMAIN OF HUMAN GGA1 COMPLEXED WITH C -TERMINALPHOSPHOPEPTIDE FROM BACE
APO STRUCTURE OF BACE (BETA SECRETASE)
SHEET
THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN
ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW,
TWO SHEETS ARE DEFINED.
PDBE
Y
PDBE
2004-08-04
REL
REL
IOD
IODIDE ION
L01
3-[({(1S,2R)-1-BENZYL-2-HYDROXY-3-[(3-METHOXYBENZYL)AMINO]PROPYL}AMINO)(HYDROXY)METHYL]-N,N-DIPROPYLBENZAMIDE
HOH
water
ENGINEERED MUTATION IN CHAIN A ARG 56 LYS AND ARG 57 LYS
CATALYTIC ACTIVITY: BROAD ENDOPEPTIDASE SPECIFICITY. CLEAVES GLU-
VAL-ASN-LEU-|-ASP-ALA-GLU-PHE IN THE SWEDISH VARIANT OF
ALZHEIMER'S AMYLOID PRECURSOR PROTEIN.
RESIDUES 56 AND 57 FROM THE UNIPROT REFERENCE BELOW HAVE
HAVE BEEN MUTATED TO LYS FROM ARG. SINCE THIS MUTATION IS
NOT VISIBLE IN THE STRUCTURE, THERE ARE NO SEQADV RECORDS
GIVEN BELOW.
1W50
PDB ENTRY 1W50
PDB
experimental model
IOD
1502
2
IOD
IOD
1502
A
IOD
1503
2
IOD
IOD
1503
A
IOD
1504
2
IOD
IOD
1504
A
IOD
1505
2
IOD
IOD
1505
A
L01
1506
3
L01
L01
1506
A
HOH
2001
4
HOH
HOH
2001
A
HOH
2002
4
HOH
HOH
2002
A
HOH
2003
4
HOH
HOH
2003
A
HOH
2004
4
HOH
HOH
2004
A
HOH
2005
4
HOH
HOH
2005
A
HOH
2006
4
HOH
HOH
2006
A
HOH
2007
4
HOH
HOH
2007
A
HOH
2008
4
HOH
HOH
2008
A
HOH
2009
4
HOH
HOH
2009
A
HOH
2010
4
HOH
HOH
2010
A
HOH
2011
4
HOH
HOH
2011
A
HOH
2012
4
HOH
HOH
2012
A
HOH
2013
4
HOH
HOH
2013
A
HOH
2014
4
HOH
HOH
2014
A
HOH
2015
4
HOH
HOH
2015
A
HOH
2016
4
HOH
HOH
2016
A
HOH
2017
4
HOH
HOH
2017
A
HOH
2018
4
HOH
HOH
2018
A
HOH
2019
4
HOH
HOH
2019
A
HOH
2020
4
HOH
HOH
2020
A
HOH
2021
4
HOH
HOH
2021
A
HOH
2022
4
HOH
HOH
2022
A
HOH
2023
4
HOH
HOH
2023
A
HOH
2024
4
HOH
HOH
2024
A
HOH
2025
4
HOH
HOH
2025
A
HOH
2026
4
HOH
HOH
2026
A
HOH
2027
4
HOH
HOH
2027
A
HOH
2028
4
HOH
HOH
2028
A
HOH
2029
4
HOH
HOH
2029
A
HOH
2030
4
HOH
HOH
2030
A
HOH
2031
4
HOH
HOH
2031
A
HOH
2032
4
HOH
HOH
2032
A
HOH
2033
4
HOH
HOH
2033
A
HOH
2034
4
HOH
HOH
2034
A
HOH
2035
4
HOH
HOH
2035
A
HOH
2036
4
HOH
HOH
2036
A
HOH
2037
4
HOH
HOH
2037
A
HOH
2038
4
HOH
HOH
2038
A
HOH
2039
4
HOH
HOH
2039
A
HOH
2040
4
HOH
HOH
2040
A
HOH
2041
4
HOH
HOH
2041
A
HOH
2042
4
HOH
HOH
2042
A
HOH
2043
4
HOH
HOH
2043
A
HOH
2044
4
HOH
HOH
2044
A
HOH
2045
4
HOH
HOH
2045
A
HOH
2046
4
HOH
HOH
2046
A
HOH
2047
4
HOH
HOH
2047
A
HOH
2048
4
HOH
HOH
2048
A
HOH
2049
4
HOH
HOH
2049
A
HOH
2050
4
HOH
HOH
2050
A
HOH
2051
4
HOH
HOH
2051
A
HOH
2052
4
HOH
HOH
2052
A
HOH
2053
4
HOH
HOH
2053
A
HOH
2054
4
HOH
HOH
2054
A
HOH
2055
4
HOH
HOH
2055
A
HOH
2056
4
HOH
HOH
2056
A
HOH
2057
4
HOH
HOH
2057
A
HOH
2058
4
HOH
HOH
2058
A
HOH
2059
4
HOH
HOH
2059
A
HOH
2060
4
HOH
HOH
2060
A
HOH
2061
4
HOH
HOH
2061
A
HOH
2062
4
HOH
HOH
2062
A
HOH
2063
4
HOH
HOH
2063
A
HOH
2064
4
HOH
HOH
2064
A
HOH
2065
4
HOH
HOH
2065
A
HOH
2066
4
HOH
HOH
2066
A
HOH
2067
4
HOH
HOH
2067
A
HOH
2068
4
HOH
HOH
2068
A
HOH
2069
4
HOH
HOH
2069
A
HOH
2070
4
HOH
HOH
2070
A
HOH
2071
4
HOH
HOH
2071
A
HOH
2072
4
HOH
HOH
2072
A
HOH
2073
4
HOH
HOH
2073
A
HOH
2074
4
HOH
HOH
2074
A
HOH
2075
4
HOH
HOH
2075
A
HOH
2076
4
HOH
HOH
2076
A
HOH
2077
4
HOH
HOH
2077
A
HOH
2078
4
HOH
HOH
2078
A
HOH
2079
4
HOH
HOH
2079
A
HOH
2080
4
HOH
HOH
2080
A
HOH
2081
4
HOH
HOH
2081
A
HOH
2082
4
HOH
HOH
2082
A
HOH
2083
4
HOH
HOH
2083
A
HOH
2084
4
HOH
HOH
2084
A
HOH
2085
4
HOH
HOH
2085
A
HOH
2086
4
HOH
HOH
2086
A
HOH
2087
4
HOH
HOH
2087
A
HOH
2088
4
HOH
HOH
2088
A
HOH
2089
4
HOH
HOH
2089
A
HOH
2090
4
HOH
HOH
2090
A
HOH
2091
4
HOH
HOH
2091
A
HOH
2092
4
HOH
HOH
2092
A
HOH
2093
4
HOH
HOH
2093
A
HOH
2094
4
HOH
HOH
2094
A
HOH
2095
4
HOH
HOH
2095
A
HOH
2096
4
HOH
HOH
2096
A
HOH
2097
4
HOH
HOH
2097
A
HOH
2098
4
HOH
HOH
2098
A
HOH
2099
4
HOH
HOH
2099
A
HOH
2100
4
HOH
HOH
2100
A
HOH
2101
4
HOH
HOH
2101
A
HOH
2102
4
HOH
HOH
2102
A
HOH
2103
4
HOH
HOH
2103
A
HOH
2104
4
HOH
HOH
2104
A
HOH
2105
4
HOH
HOH
2105
A
HOH
2106
4
HOH
HOH
2106
A
HOH
2107
4
HOH
HOH
2107
A
HOH
2108
4
HOH
HOH
2108
A
HOH
2109
4
HOH
HOH
2109
A
HOH
2110
4
HOH
HOH
2110
A
HOH
2111
4
HOH
HOH
2111
A
HOH
2112
4
HOH
HOH
2112
A
HOH
2113
4
HOH
HOH
2113
A
HOH
2114
4
HOH
HOH
2114
A
HOH
2115
4
HOH
HOH
2115
A
HOH
2116
4
HOH
HOH
2116
A
HOH
2117
4
HOH
HOH
2117
A
HOH
2118
4
HOH
HOH
2118
A
HOH
2119
4
HOH
HOH
2119
A
HOH
2120
4
HOH
HOH
2120
A
HOH
2121
4
HOH
HOH
2121
A
HOH
2122
4
HOH
HOH
2122
A
HOH
2123
4
HOH
HOH
2123
A
HOH
2124
4
HOH
HOH
2124
A
HOH
2125
4
HOH
HOH
2125
A
HOH
2126
4
HOH
HOH
2126
A
HOH
2127
4
HOH
HOH
2127
A
HOH
2128
4
HOH
HOH
2128
A
HOH
2129
4
HOH
HOH
2129
A
HOH
2130
4
HOH
HOH
2130
A
HOH
2131
4
HOH
HOH
2131
A
HOH
2132
4
HOH
HOH
2132
A
HOH
2133
4
HOH
HOH
2133
A
HOH
2134
4
HOH
HOH
2134
A
HOH
2135
4
HOH
HOH
2135
A
HOH
2136
4
HOH
HOH
2136
A
HOH
2137
4
HOH
HOH
2137
A
HOH
2138
4
HOH
HOH
2138
A
HOH
2139
4
HOH
HOH
2139
A
HOH
2140
4
HOH
HOH
2140
A
n
1
-18
A
n
2
-17
A
n
3
-16
A
n
4
-15
A
n
5
-14
A
n
6
-13
A
n
7
-12
A
n
8
-11
A
n
9
-10
A
n
10
-9
A
n
11
-8
A
n
12
-7
A
n
13
-6
A
n
14
-5
A
n
15
-4
A
n
16
-3
A
n
17
-2
A
PHE
-1
n
18
PHE
-1
A
VAL
0
n
19
VAL
0
A
GLU
1
n
20
GLU
1
A
MET
2
n
21
MET
2
A
VAL
3
n
22
VAL
3
A
ASP
4
n
23
ASP
4
A
ASN
5
n
24
ASN
5
A
LEU
6
n
25
LEU
6
A
ARG
7
n
26
ARG
7
A
GLY
8
n
27
GLY
8
A
LYS
9
n
28
LYS
9
A
SER
10
n
29
SER
10
A
GLY
11
n
30
GLY
11
A
GLN
12
n
31
GLN
12
A
GLY
13
n
32
GLY
13
A
TYR
14
n
33
TYR
14
A
TYR
15
n
34
TYR
15
A
VAL
16
n
35
VAL
16
A
GLU
17
n
36
GLU
17
A
MET
18
n
37
MET
18
A
THR
19
n
38
THR
19
A
VAL
20
n
39
VAL
20
A
GLY
21
n
40
GLY
21
A
SER
22
n
41
SER
22
A
PRO
23
n
42
PRO
23
A
PRO
24
n
43
PRO
24
A
GLN
25
n
44
GLN
25
A
THR
26
n
45
THR
26
A
LEU
27
n
46
LEU
27
A
ASN
28
n
47
ASN
28
A
ILE
29
n
48
ILE
29
A
LEU
30
n
49
LEU
30
A
VAL
31
n
50
VAL
31
A
ASP
32
n
51
ASP
32
A
THR
33
n
52
THR
33
A
GLY
34
n
53
GLY
34
A
SER
35
n
54
SER
35
A
SER
36
n
55
SER
36
A
ASN
37
n
56
ASN
37
A
PHE
38
n
57
PHE
38
A
ALA
39
n
58
ALA
39
A
VAL
40
n
59
VAL
40
A
GLY
41
n
60
GLY
41
A
ALA
42
n
61
ALA
42
A
ALA
43
n
62
ALA
43
A
PRO
44
n
63
PRO
44
A
HIS
45
n
64
HIS
45
A
PRO
46
n
65
PRO
46
A
PHE
47
n
66
PHE
47
A
LEU
48
n
67
LEU
48
A
HIS
49
n
68
HIS
49
A
ARG
50
n
69
ARG
50
A
TYR
51
n
70
TYR
51
A
TYR
52
n
71
TYR
52
A
GLN
53
n
72
GLN
53
A
ARG
54
n
73
ARG
54
A
GLN
55
n
74
GLN
55
A
LEU
56
n
75
LEU
56
A
SER
57
n
76
SER
57
A
SER
58
n
77
SER
58
A
THR
59
n
78
THR
59
A
TYR
60
n
79
TYR
60
A
ARG
61
n
80
ARG
61
A
ASP
62
n
81
ASP
62
A
LEU
63
n
82
LEU
63
A
ARG
64
n
83
ARG
64
A
LYS
65
n
84
LYS
65
A
GLY
66
n
85
GLY
66
A
VAL
67
n
86
VAL
67
A
TYR
68
n
87
TYR
68
A
VAL
69
n
88
VAL
69
A
PRO
70
n
89
PRO
70
A
TYR
71
n
90
TYR
71
A
THR
72
n
91
THR
72
A
GLN
73
n
92
GLN
73
A
GLY
74
n
93
GLY
74
A
LYS
75
n
94
LYS
75
A
TRP
76
n
95
TRP
76
A
GLU
77
n
96
GLU
77
A
GLY
78
n
97
GLY
78
A
GLU
79
n
98
GLU
79
A
LEU
80
n
99
LEU
80
A
GLY
81
n
100
GLY
81
A
THR
82
n
101
THR
82
A
ASP
83
n
102
ASP
83
A
LEU
84
n
103
LEU
84
A
VAL
85
n
104
VAL
85
A
SER
86
n
105
SER
86
A
ILE
87
n
106
ILE
87
A
PRO
88
n
107
PRO
88
A
HIS
89
n
108
HIS
89
A
GLY
90
n
109
GLY
90
A
PRO
91
n
110
PRO
91
A
ASN
92
n
111
ASN
92
A
VAL
93
n
112
VAL
93
A
THR
94
n
113
THR
94
A
VAL
95
n
114
VAL
95
A
ARG
96
n
115
ARG
96
A
ALA
97
n
116
ALA
97
A
ASN
98
n
117
ASN
98
A
ILE
99
n
118
ILE
99
A
ALA
100
n
119
ALA
100
A
ALA
101
n
120
ALA
101
A
ILE
102
n
121
ILE
102
A
THR
103
n
122
THR
103
A
GLU
104
n
123
GLU
104
A
SER
105
n
124
SER
105
A
ASP
106
n
125
ASP
106
A
LYS
107
n
126
LYS
107
A
PHE
108
n
127
PHE
108
A
PHE
109
n
128
PHE
109
A
ILE
110
n
129
ILE
110
A
ASN
111
n
130
ASN
111
A
GLY
112
n
131
GLY
112
A
SER
113
n
132
SER
113
A
ASN
114
n
133
ASN
114
A
TRP
115
n
134
TRP
115
A
GLU
116
n
135
GLU
116
A
GLY
117
n
136
GLY
117
A
ILE
118
n
137
ILE
118
A
LEU
119
n
138
LEU
119
A
GLY
120
n
139
GLY
120
A
LEU
121
n
140
LEU
121
A
ALA
122
n
141
ALA
122
A
TYR
123
n
142
TYR
123
A
ALA
124
n
143
ALA
124
A
GLU
125
n
144
GLU
125
A
ILE
126
n
145
ILE
126
A
ALA
127
n
146
ALA
127
A
ARG
128
n
147
ARG
128
A
PRO
129
n
148
PRO
129
A
ASP
130
n
149
ASP
130
A
ASP
131
n
150
ASP
131
A
SER
132
n
151
SER
132
A
LEU
133
n
152
LEU
133
A
GLU
134
n
153
GLU
134
A
PRO
135
n
154
PRO
135
A
PHE
136
n
155
PHE
136
A
PHE
137
n
156
PHE
137
A
ASP
138
n
157
ASP
138
A
SER
139
n
158
SER
139
A
LEU
140
n
159
LEU
140
A
VAL
141
n
160
VAL
141
A
LYS
142
n
161
LYS
142
A
GLN
143
n
162
GLN
143
A
THR
144
n
163
THR
144
A
HIS
145
n
164
HIS
145
A
VAL
146
n
165
VAL
146
A
PRO
147
n
166
PRO
147
A
ASN
148
n
167
ASN
148
A
LEU
149
n
168
LEU
149
A
PHE
150
n
169
PHE
150
A
SER
151
n
170
SER
151
A
LEU
152
n
171
LEU
152
A
GLN
153
n
172
GLN
153
A
LEU
154
n
173
LEU
154
A
CYS
155
n
174
CYS
155
A
GLY
156
n
175
GLY
156
A
ALA
157
n
176
ALA
157
A
n
177
158
A
n
178
159
A
n
179
160
A
n
180
161
A
n
181
162
A
n
182
163
A
n
183
164
A
n
184
165
A
n
185
166
A
n
186
167
A
ALA
168
n
187
ALA
168
A
SER
169
n
188
SER
169
A
VAL
170
n
189
VAL
170
A
GLY
171
n
190
GLY
171
A
GLY
172
n
191
GLY
172
A
SER
173
n
192
SER
173
A
MET
174
n
193
MET
174
A
ILE
175
n
194
ILE
175
A
ILE
176
n
195
ILE
176
A
GLY
177
n
196
GLY
177
A
GLY
178
n
197
GLY
178
A
ILE
179
n
198
ILE
179
A
ASP
180
n
199
ASP
180
A
HIS
181
n
200
HIS
181
A
SER
182
n
201
SER
182
A
LEU
183
n
202
LEU
183
A
TYR
184
n
203
TYR
184
A
THR
185
n
204
THR
185
A
GLY
186
n
205
GLY
186
A
SER
187
n
206
SER
187
A
LEU
188
n
207
LEU
188
A
TRP
189
n
208
TRP
189
A
TYR
190
n
209
TYR
190
A
THR
191
n
210
THR
191
A
PRO
192
n
211
PRO
192
A
ILE
193
n
212
ILE
193
A
ARG
194
n
213
ARG
194
A
ARG
195
n
214
ARG
195
A
GLU
196
n
215
GLU
196
A
TRP
197
n
216
TRP
197
A
TYR
198
n
217
TYR
198
A
TYR
199
n
218
TYR
199
A
GLU
200
n
219
GLU
200
A
VAL
201
n
220
VAL
201
A
ILE
202
n
221
ILE
202
A
ILE
203
n
222
ILE
203
A
VAL
204
n
223
VAL
204
A
ARG
205
n
224
ARG
205
A
VAL
206
n
225
VAL
206
A
GLU
207
n
226
GLU
207
A
ILE
208
n
227
ILE
208
A
ASN
209
n
228
ASN
209
A
GLY
210
n
229
GLY
210
A
GLN
211
n
230
GLN
211
A
ASP
212
n
231
ASP
212
A
LEU
213
n
232
LEU
213
A
LYS
214
n
233
LYS
214
A
MET
215
n
234
MET
215
A
ASP
216
n
235
ASP
216
A
CYS
217
n
236
CYS
217
A
LYS
218
n
237
LYS
218
A
GLU
219
n
238
GLU
219
A
TYR
220
n
239
TYR
220
A
ASN
221
n
240
ASN
221
A
TYR
222
n
241
TYR
222
A
ASP
223
n
242
ASP
223
A
LYS
224
n
243
LYS
224
A
SER
225
n
244
SER
225
A
ILE
226
n
245
ILE
226
A
VAL
227
n
246
VAL
227
A
ASP
228
n
247
ASP
228
A
SER
229
n
248
SER
229
A
GLY
230
n
249
GLY
230
A
THR
231
n
250
THR
231
A
THR
232
n
251
THR
232
A
ASN
233
n
252
ASN
233
A
LEU
234
n
253
LEU
234
A
ARG
235
n
254
ARG
235
A
LEU
236
n
255
LEU
236
A
PRO
237
n
256
PRO
237
A
LYS
238
n
257
LYS
238
A
LYS
239
n
258
LYS
239
A
VAL
240
n
259
VAL
240
A
PHE
241
n
260
PHE
241
A
GLU
242
n
261
GLU
242
A
ALA
243
n
262
ALA
243
A
ALA
244
n
263
ALA
244
A
VAL
245
n
264
VAL
245
A
LYS
246
n
265
LYS
246
A
SER
247
n
266
SER
247
A
ILE
248
n
267
ILE
248
A
LYS
249
n
268
LYS
249
A
ALA
250
n
269
ALA
250
A
ALA
251
n
270
ALA
251
A
SER
252
n
271
SER
252
A
SER
253
n
272
SER
253
A
THR
254
n
273
THR
254
A
GLU
255
n
274
GLU
255
A
LYS
256
n
275
LYS
256
A
PHE
257
n
276
PHE
257
A
PRO
258
n
277
PRO
258
A
ASP
259
n
278
ASP
259
A
GLY
260
n
279
GLY
260
A
PHE
261
n
280
PHE
261
A
TRP
262
n
281
TRP
262
A
LEU
263
n
282
LEU
263
A
GLY
264
n
283
GLY
264
A
GLU
265
n
284
GLU
265
A
GLN
266
n
285
GLN
266
A
LEU
267
n
286
LEU
267
A
VAL
268
n
287
VAL
268
A
CYS
269
n
288
CYS
269
A
TRP
270
n
289
TRP
270
A
GLN
271
n
290
GLN
271
A
ALA
272
n
291
ALA
272
A
GLY
273
n
292
GLY
273
A
THR
274
n
293
THR
274
A
THR
275
n
294
THR
275
A
PRO
276
n
295
PRO
276
A
TRP
277
n
296
TRP
277
A
ASN
278
n
297
ASN
278
A
ILE
279
n
298
ILE
279
A
PHE
280
n
299
PHE
280
A
PRO
281
n
300
PRO
281
A
VAL
282
n
301
VAL
282
A
ILE
283
n
302
ILE
283
A
SER
284
n
303
SER
284
A
LEU
285
n
304
LEU
285
A
TYR
286
n
305
TYR
286
A
LEU
287
n
306
LEU
287
A
MET
288
n
307
MET
288
A
GLY
289
n
308
GLY
289
A
GLU
290
n
309
GLU
290
A
VAL
291
n
310
VAL
291
A
THR
292
n
311
THR
292
A
ASN
293
n
312
ASN
293
A
GLN
294
n
313
GLN
294
A
SER
295
n
314
SER
295
A
PHE
296
n
315
PHE
296
A
ARG
297
n
316
ARG
297
A
ILE
298
n
317
ILE
298
A
THR
299
n
318
THR
299
A
ILE
300
n
319
ILE
300
A
LEU
301
n
320
LEU
301
A
PRO
302
n
321
PRO
302
A
GLN
303
n
322
GLN
303
A
GLN
304
n
323
GLN
304
A
TYR
305
n
324
TYR
305
A
LEU
306
n
325
LEU
306
A
ARG
307
n
326
ARG
307
A
PRO
308
n
327
PRO
308
A
VAL
309
n
328
VAL
309
A
GLU
310
n
329
GLU
310
A
n
330
311
A
n
331
312
A
n
332
313
A
THR
314
n
333
THR
314
A
SER
315
n
334
SER
315
A
GLN
316
n
335
GLN
316
A
ASP
317
n
336
ASP
317
A
ASP
318
n
337
ASP
318
A
CYS
319
n
338
CYS
319
A
TYR
320
n
339
TYR
320
A
LYS
321
n
340
LYS
321
A
PHE
322
n
341
PHE
322
A
ALA
323
n
342
ALA
323
A
ILE
324
n
343
ILE
324
A
SER
325
n
344
SER
325
A
GLN
326
n
345
GLN
326
A
SER
327
n
346
SER
327
A
SER
328
n
347
SER
328
A
THR
329
n
348
THR
329
A
GLY
330
n
349
GLY
330
A
THR
331
n
350
THR
331
A
VAL
332
n
351
VAL
332
A
MET
333
n
352
MET
333
A
GLY
334
n
353
GLY
334
A
ALA
335
n
354
ALA
335
A
VAL
336
n
355
VAL
336
A
ILE
337
n
356
ILE
337
A
MET
338
n
357
MET
338
A
GLU
339
n
358
GLU
339
A
GLY
340
n
359
GLY
340
A
PHE
341
n
360
PHE
341
A
TYR
342
n
361
TYR
342
A
VAL
343
n
362
VAL
343
A
VAL
344
n
363
VAL
344
A
PHE
345
n
364
PHE
345
A
ASP
346
n
365
ASP
346
A
ARG
347
n
366
ARG
347
A
ALA
348
n
367
ALA
348
A
ARG
349
n
368
ARG
349
A
LYS
350
n
369
LYS
350
A
ARG
351
n
370
ARG
351
A
ILE
352
n
371
ILE
352
A
GLY
353
n
372
GLY
353
A
PHE
354
n
373
PHE
354
A
ALA
355
n
374
ALA
355
A
VAL
356
n
375
VAL
356
A
SER
357
n
376
SER
357
A
ALA
358
n
377
ALA
358
A
CYS
359
n
378
CYS
359
A
HIS
360
n
379
HIS
360
A
VAL
361
n
380
VAL
361
A
HIS
362
n
381
HIS
362
A
ASP
363
n
382
ASP
363
A
GLU
364
n
383
GLU
364
A
PHE
365
n
384
PHE
365
A
ARG
366
n
385
ARG
366
A
THR
367
n
386
THR
367
A
ALA
368
n
387
ALA
368
A
ALA
369
n
388
ALA
369
A
VAL
370
n
389
VAL
370
A
GLU
371
n
390
GLU
371
A
GLY
372
n
391
GLY
372
A
PRO
373
n
392
PRO
373
A
PHE
374
n
393
PHE
374
A
VAL
375
n
394
VAL
375
A
THR
376
n
395
THR
376
A
LEU
377
n
396
LEU
377
A
ASP
378
n
397
ASP
378
A
MET
379
n
398
MET
379
A
GLU
380
n
399
GLU
380
A
ASP
381
n
400
ASP
381
A
CYS
382
n
401
CYS
382
A
GLY
383
n
402
GLY
383
A
TYR
384
n
403
TYR
384
A
ASN
385
n
404
ASN
385
A
ILE
386
n
405
ILE
386
A
n
406
387
A
n
407
388
A
n
408
389
A
n
409
390
A
n
410
391
A
n
411
392
A
author_and_software_defined_assembly
PQS
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
69
A
N
VAL
88
A
O
TRP
76
A
O
TRP
95
A
N
SER
86
A
N
SER
105
A
O
THR
19
A
O
THR
38
A
N
VAL
69
A
N
VAL
88
A
O
TRP
76
A
O
TRP
95
A
N
VAL
85
A
N
VAL
104
A
O
VAL
95
A
O
VAL
114
A
N
ALA
100
A
N
ALA
119
A
O
PHE
38
A
O
PHE
57
A
N
ALA
39
A
N
ALA
58
A
O
ILE
118
A
O
ILE
137
A
N
LEU
119
A
N
LEU
138
A
O
LEU
30
A
O
LEU
49
A
N
VAL
31
A
N
VAL
50
A
O
TYR
14
A
O
TYR
33
A
N
VAL
201
A
N
VAL
220
A
O
SER
225
A
O
SER
244
A
N
ILE
226
A
N
ILE
245
A
O
THR
331
A
O
THR
350
A
N
GLN
211
A
N
GLN
230
A
O
ILE
208
A
O
ILE
227
A
N
GLU
207
A
N
GLU
226
A
O
SER
284
A
O
SER
303
A
N
LEU
287
A
N
LEU
306
A
O
PHE
296
A
O
PHE
315
A
N
THR
299
A
N
THR
318
A
O
ALA
369
A
O
ALA
388
A
N
LEU
236
A
N
LEU
255
A
O
SER
325
A
O
SER
344
A
N
ARG
307
A
N
ARG
326
A
O
LYS
321
A
O
LYS
340
1
A
HOH
2012
G
HOH
1
A
HOH
2049
G
HOH
1
A
HOH
2114
G
HOH
1
A
CA
ILE
386
A
CA
ILE
405
1
Y
1
A
C
ILE
386
A
C
ILE
405
1
Y
1
A
O
ILE
386
A
O
ILE
405
1
Y
1
A
CB
ILE
386
A
CB
ILE
405
1
Y
1
A
CG1
ILE
386
A
CG1
ILE
405
1
Y
1
A
CG2
ILE
386
A
CG2
ILE
405
1
Y
1
A
CD1
ILE
386
A
CD1
ILE
405
1
Y
1
A
LEU
-18
A
LEU
1
1
Y
1
A
PRO
-17
A
PRO
2
1
Y
1
A
ARG
-16
A
ARG
3
1
Y
1
A
GLU
-15
A
GLU
4
1
Y
1
A
THR
-14
A
THR
5
1
Y
1
A
ASP
-13
A
ASP
6
1
Y
1
A
GLU
-12
A
GLU
7
1
Y
1
A
GLU
-11
A
GLU
8
1
Y
1
A
PRO
-10
A
PRO
9
1
Y
1
A
GLU
-9
A
GLU
10
1
Y
1
A
GLU
-8
A
GLU
11
1
Y
1
A
PRO
-7
A
PRO
12
1
Y
1
A
GLY
-6
A
GLY
13
1
Y
1
A
LYS
-5
A
LYS
14
1
Y
1
A
LYS
-4
A
LYS
15
1
Y
1
A
GLY
-3
A
GLY
16
1
Y
1
A
SER
-2
A
SER
17
1
Y
1
A
GLY
158
A
GLY
177
1
Y
1
A
PHE
159
A
PHE
178
1
Y
1
A
PRO
160
A
PRO
179
1
Y
1
A
LEU
161
A
LEU
180
1
Y
1
A
ASN
162
A
ASN
181
1
Y
1
A
GLN
163
A
GLN
182
1
Y
1
A
SER
164
A
SER
183
1
Y
1
A
GLU
165
A
GLU
184
1
Y
1
A
VAL
166
A
VAL
185
1
Y
1
A
LEU
167
A
LEU
186
1
Y
1
A
ASP
311
A
ASP
330
1
Y
1
A
VAL
312
A
VAL
331
1
Y
1
A
ALA
313
A
ALA
332
1
Y
1
A
PRO
387
A
PRO
406
1
Y
1
A
GLN
388
A
GLN
407
1
Y
1
A
THR
389
A
THR
408
1
Y
1
A
ASP
390
A
ASP
409
1
Y
1
A
GLU
391
A
GLU
410
1
Y
1
A
SER
392
A
SER
411
1
Y
1
A
A
I
O
IOD
HOH
1505
2056
1.21
1
A
A
NZ
O
LYS
HOH
239
2108
2.09
1
A
A
O
O
GLN
HOH
73
2050
2.09
1
A
A
O
O
HOH
HOH
2031
2082
2.13
1
A
A
OD1
O
ASP
HOH
138
2078
2.17
1
A
A
OD2
O
ASP
HOH
212
2099
2.17
1
5.94
0.90
118.30
124.24
A
A
A
CB
CG
OD2
ASP
ASP
ASP
83
83
83
N
1
6.05
0.90
118.30
124.35
A
A
A
CB
CG
OD2
ASP
ASP
ASP
138
138
138
N
1
5.81
0.90
118.30
124.11
A
A
A
CB
CG
OD2
ASP
ASP
ASP
212
212
212
N
1
5.99
0.90
118.30
124.29
A
A
A
CB
CG
OD2
ASP
ASP
ASP
216
216
216
N
1
5.54
0.90
118.30
123.84
A
A
A
CB
CG
OD2
ASP
ASP
ASP
223
223
223
N
1
6.08
0.90
118.30
124.38
A
A
A
CB
CG
OD2
ASP
ASP
ASP
228
228
228
N
1
A
A
NE2
O
GLN
SER
326
328
2.08
1_555
12_555
1
A
ASP
83
178.81
173.30
1
A
HIS
89
-97.79
40.29
1
A
VAL
93
-129.69
-166.63
1
A
PHE
108
-102.48
-63.72
1
A
CYS
155
-103.41
-88.53
1
A
TRP
197
-136.28
-86.44
1
A
LYS
214
14.17
57.65
1
A
TYR
220
-36.71
-35.56
1
A
THR
254
-22.20
-47.04
1
A
GLU
265
-63.83
51.14
1
A
GLN
266
156.29
138.69
1
A
LEU
267
-54.32
170.50
1
A
ILE
279
-171.97
-24.09
1
A
SER
315
-170.92
135.59
1
A
GLN
316
-155.91
42.02
1
A
ASP
318
-49.29
98.45
1
A
SER
328
-149.13
-3.88
1
A
VAL
361
60.57
108.31
1
A
HIS
362
-129.34
-141.95
1
A
ASP
363
-154.65
-150.50
1
A
THR
367
169.19
145.69
1
A
ASP
378
71.28
45.37
46.79
-0.94000
-0.47000
0.00000
-0.94000
0.00000
1.41000
0.931
0.891
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
0.288
0.216
0.219
2.55
39.20
890
16609
5.100
99.4
11.510
0.247
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.491
0.325
0.80
0.80
1.40
PDB ENTRY 1W50
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
2.55
39.20
140
3129
43
0
2946
0.017
0.021
3064
0.002
0.020
2717
1.681
1.954
4161
0.906
3.000
6312
8.274
5.000
371
0.089
0.200
449
0.006
0.020
3419
0.003
0.020
655
0.219
0.200
674
0.241
0.200
3445
0.087
0.200
1824
0.217
0.200
146
0.302
0.200
14
0.250
0.200
57
0.366
0.200
8
3.131
5.000
1854
4.666
6.000
2997
3.762
6.000
1210
5.464
7.500
1164
0.3380
0.2890
2.62
60
1175
20
2.550
39.000
1W51
16609
0.000
0.11000
1
4.5000
3.200
99.6
0.46000
2.55
2.69
1.600
1
99.0
refinement
REFMAC
5.1.29
data reduction
MOSFLM
data scaling
SCALA
phasing
AMoRE
BACE (Beta Secretase) in complex with a nanomolar non-peptidic inhibitor
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
4
N
N
A
GLN
53
A
GLN
72
HELX_P
A
SER
57
A
SER
76
5
1
5
A
TYR
123
A
TYR
142
HELX_P
A
ALA
127
A
ALA
146
5
2
5
A
PRO
135
A
PRO
154
HELX_P
A
THR
144
A
THR
163
1
3
10
A
ASP
180
A
ASP
199
HELX_P
A
SER
182
A
SER
201
5
4
3
A
ASP
216
A
ASP
235
HELX_P
A
ASN
221
A
ASN
240
1
5
6
A
LYS
238
A
LYS
257
HELX_P
A
SER
252
A
SER
271
1
6
15
A
PRO
258
A
PRO
277
HELX_P
A
LEU
263
A
LEU
282
1
7
6
A
LEU
301
A
LEU
320
HELX_P
A
TYR
305
A
TYR
324
1
8
5
A
GLY
334
A
GLY
353
HELX_P
A
GLU
339
A
GLU
358
1
9
6
A
ARG
347
A
ARG
366
HELX_P
A
ARG
349
A
ARG
368
5
10
3
A
ASP
378
A
ASP
397
HELX_P
A
GLY
383
A
GLY
402
5
11
6
disulf
2.060
A
CYS
155
A
SG
CYS
174
1_555
A
CYS
359
A
SG
CYS
378
1_555
disulf
2.029
A
CYS
217
A
SG
CYS
236
1_555
A
CYS
382
A
SG
CYS
401
1_555
disulf
2.044
A
CYS
269
A
SG
CYS
288
1_555
A
CYS
319
A
SG
CYS
338
1_555
HYDROLASE/INHIBITOR
HYDROLASE/INHIBITOR, HYDROLASE-INHIBITOR COMPLEX, ALTERNATIVE SPLICING, ALZHEIMER'S DISEASE, ASPARTIC PROTEASE, ASPARTYL PROTEASE, BASE, BETA-SECRETASE, GLYCOPROTEIN, HYDROLASE, MEMAPSIN 2, TRANSMEMBRANE, ZYMOGEN
A
SER
22
A
SER
41
1
A
PRO
23
A
PRO
42
-3.67
A
ARG
128
A
ARG
147
1
A
PRO
129
A
PRO
148
0.06
A
TYR
222
A
TYR
241
1
A
ASP
223
A
ASP
242
2.52
A
GLY
372
A
GLY
391
1
A
PRO
373
A
PRO
392
-0.97
BAE1_HUMAN
UNP
1
P56817
43
453
1W51
-18
392
P56817
A
1
1
411
3
7
3
5
2
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
A
ARG
61
A
ARG
80
A
PRO
70
A
PRO
89
A
LYS
75
A
LYS
94
A
SER
86
A
SER
105
A
TYR
14
A
TYR
33
A
VAL
20
A
VAL
39
A
ARG
61
A
ARG
80
A
PRO
70
A
PRO
89
A
LYS
75
A
LYS
94
A
SER
86
A
SER
105
A
VAL
95
A
VAL
114
A
ASP
106
A
ASP
125
A
PHE
38
A
PHE
57
A
GLY
41
A
GLY
60
A
GLY
117
A
GLY
136
A
GLY
120
A
GLY
139
A
GLN
25
A
GLN
44
A
ASP
32
A
ASP
51
A
TYR
14
A
TYR
33
A
VAL
20
A
VAL
39
A
GLU
200
A
GLU
219
A
VAL
201
A
VAL
220
A
SER
225
A
SER
244
A
VAL
227
A
VAL
246
A
THR
331
A
THR
350
A
MET
333
A
MET
352
A
GLN
211
A
GLN
230
A
ASP
212
A
ASP
231
A
ILE
203
A
ILE
222
A
ILE
208
A
ILE
227
A
ILE
283
A
ILE
302
A
MET
288
A
MET
307
A
GLN
294
A
GLN
313
A
ILE
300
A
ILE
319
A
ALA
369
A
ALA
388
A
VAL
375
A
VAL
394
A
LEU
234
A
LEU
253
A
PRO
237
A
PRO
256
A
ILE
324
A
ILE
343
A
SER
327
A
SER
346
A
LEU
306
A
LEU
325
A
ARG
307
A
ARG
326
A
LYS
321
A
LYS
340
A
PHE
322
A
PHE
341
BINDING SITE FOR RESIDUE IOD A1502
Software
3
BINDING SITE FOR RESIDUE IOD A1503
Software
2
BINDING SITE FOR RESIDUE IOD A1505
Software
2
BINDING SITE FOR RESIDUE L01 A1506
Software
19
A
THR
103
A
THR
122
3
1_555
A
GLU
104
A
GLU
123
3
1_555
A
SER
105
A
SER
124
3
1_555
A
GLN
55
A
GLN
74
2
1_555
A
HOH
2127
G
HOH
2
1_555
A
ARG
96
A
ARG
115
2
1_555
A
HOH
2056
G
HOH
2
1_555
A
GLY
11
A
GLY
30
19
1_555
A
GLN
12
A
GLN
31
19
1_555
A
GLY
13
A
GLY
32
19
1_555
A
LEU
30
A
LEU
49
19
1_555
A
ASP
32
A
ASP
51
19
1_555
A
GLY
34
A
GLY
53
19
1_555
A
SER
35
A
SER
54
19
1_555
A
PRO
70
A
PRO
89
19
1_555
A
TYR
71
A
TYR
90
19
1_555
A
THR
72
A
THR
91
19
1_555
A
GLN
73
A
GLN
92
19
1_555
A
PHE
108
A
PHE
127
19
1_555
A
ILE
126
A
ILE
145
19
1_555
A
ARG
128
A
ARG
147
19
1_555
A
ASP
228
A
ASP
247
19
1_555
A
GLY
230
A
GLY
249
19
1_555
A
THR
231
A
THR
250
19
1_555
A
THR
232
A
THR
251
19
1_555
A
GLU
265
A
GLU
284
19
1_555
178
P 61 2 2