0.007943
0.004586
0.000000
0.000000
0.009172
0.000000
0.000000
0.000000
0.009606
0.00000
0.00000
0.00000
GLY A 1 - PRO A 2 OMEGA =326.44 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION
CIS PROLINE - PRO A 24
CIS PROLINE - PRO A 95
CIS PROLINE - PRO B 177
CIS PROLINE - PRO B 314
CIS PROLINE - PRO B 317
CIS PROLINE - PRO C 2
CIS PROLINE - PRO C 24
CIS PROLINE - PRO C 95
CIS PROLINE - PRO D 177
PRO D 312 - PRO D 313 OMEGA =149.72 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION
CIS PROLINE - PRO D 314
CIS PROLINE - PRO D 317
Baldwin, E.T.
Bhat, T.N.
Gulnik, S.
Erickson, J.W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
125.900
125.900
104.100
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
C6 H12 O6
180.156
beta-D-mannopyranose
beta-D-mannose; D-mannose; mannose
D-saccharide, beta 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
C5 H10 O2
102.132
ISOVALERIC ACID
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
C6 H12 O6
180.156
alpha-D-mannopyranose
alpha-D-mannose; D-mannose; mannose
D-saccharide, alpha linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE
D-saccharide, beta 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
C8 H17 N O3
175.225
STATINE
peptide-like
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
R
C
N
75
S
C
N
76
S
C
N
77
S
C
N
78
R
C
N
79
N
C
N
80
N
O
N
81
N
O
N
82
N
O
N
83
N
O
N
84
N
O
N
85
N
O
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
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
N
N
99
R
C
N
100
N
C
N
101
N
O
N
102
N
C
N
103
N
S
N
104
N
O
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
N
N
113
S
C
N
114
N
C
N
115
N
O
N
116
N
C
N
117
N
C
N
118
N
C
N
119
N
O
N
120
N
N
N
121
N
O
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
N
N
133
S
C
N
134
N
C
N
135
N
O
N
136
N
C
N
137
N
C
N
138
N
C
N
139
N
O
N
140
N
O
N
141
N
O
N
142
N
H
N
143
N
H
N
144
N
H
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
N
N
152
N
C
N
153
N
C
N
154
N
O
N
155
N
O
N
156
N
H
N
157
N
H
N
158
N
H
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
N
C
Y
166
N
C
Y
167
N
N
Y
168
N
C
Y
169
N
C
Y
170
N
N
N
171
N
O
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
O
N
183
N
H
N
184
N
H
N
185
N
N
N
186
S
C
N
187
N
C
N
188
N
O
N
189
S
C
N
190
N
C
N
191
N
C
N
192
N
C
N
193
N
O
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
C
N
208
N
C
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
O
N
213
N
O
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
N
N
225
S
C
N
226
N
C
N
227
N
O
N
228
N
C
N
229
N
C
N
230
N
C
N
231
N
C
N
232
N
O
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
N
N
247
S
C
N
248
N
C
N
249
N
O
N
250
N
C
N
251
N
C
N
252
N
C
N
253
N
C
N
254
N
N
N
255
N
O
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
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
S
C
N
272
S
C
N
273
S
C
N
274
S
C
N
275
R
C
N
276
N
C
N
277
N
O
N
278
N
O
N
279
N
O
N
280
N
O
N
281
N
O
N
282
N
O
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
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
N
N
296
S
C
N
297
N
C
N
298
N
O
N
299
N
C
N
300
N
C
N
301
N
S
N
302
N
C
N
303
N
O
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
R
C
N
316
R
C
N
317
R
C
N
318
S
C
N
319
R
C
N
320
N
C
N
321
N
C
N
322
N
C
N
323
N
N
N
324
N
O
N
325
N
O
N
326
N
O
N
327
N
O
N
328
N
O
N
329
N
O
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
N
C
Y
350
N
C
Y
351
N
C
Y
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
N
356
N
O
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
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
N
N
369
S
C
N
370
N
C
N
371
N
O
N
372
N
C
N
373
N
C
N
374
N
C
N
375
N
O
N
376
N
H
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
H
N
385
N
N
N
386
S
C
N
387
N
C
N
388
N
O
N
389
N
C
N
390
N
O
N
391
N
O
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
N
N
400
S
C
N
401
N
C
N
402
N
C
N
403
N
C
N
404
N
C
N
405
S
C
N
406
N
O
N
407
N
C
N
408
N
C
N
409
N
O
N
410
N
O
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
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
N
N
429
S
C
N
430
N
C
N
431
N
O
N
432
R
C
N
433
N
O
N
434
N
C
N
435
N
O
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
445
N
N
N
446
S
C
N
447
N
C
N
448
N
O
N
449
N
C
Y
450
N
C
Y
451
N
C
Y
452
N
C
Y
453
N
N
Y
454
N
C
Y
455
N
C
Y
456
N
C
Y
457
N
C
Y
458
N
C
N
459
N
O
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
H
N
470
N
H
N
471
N
H
N
472
N
N
N
473
S
C
N
474
N
C
N
475
N
O
N
476
N
C
Y
477
N
C
Y
478
N
C
Y
479
N
C
Y
480
N
C
Y
481
N
C
Y
482
N
C
N
483
N
O
N
484
N
O
N
485
N
H
N
486
N
H
N
487
N
H
N
488
N
H
N
489
N
H
N
490
N
H
N
491
N
H
N
492
N
H
N
493
N
H
N
494
N
H
N
495
N
H
N
496
N
N
N
497
S
C
N
498
N
C
N
499
N
O
N
500
N
C
N
501
N
C
N
502
N
C
N
503
N
O
N
504
N
H
N
505
N
H
N
506
N
H
N
507
N
H
N
508
N
H
N
509
N
H
N
510
N
H
N
511
N
H
N
512
N
H
N
513
N
H
N
514
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
sing
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
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
doub
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
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
doub
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
doub
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
doub
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
doub
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
sing
N
159
N
doub
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
Y
164
N
sing
Y
165
N
doub
Y
166
N
doub
N
167
N
sing
Y
168
N
sing
N
169
N
sing
Y
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
doub
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
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
doub
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
doub
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
sing
N
238
N
sing
N
239
N
sing
N
240
N
doub
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
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
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
sing
N
287
N
sing
N
288
N
doub
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
doub
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
doub
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
Y
342
N
doub
Y
343
N
sing
Y
344
N
sing
N
345
N
sing
Y
346
N
doub
N
347
N
sing
Y
348
N
doub
N
349
N
sing
Y
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
doub
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
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
doub
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
doub
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
doub
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
doub
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
Y
439
N
doub
Y
440
N
sing
Y
441
N
sing
N
442
N
sing
Y
443
N
doub
Y
444
N
sing
Y
445
N
sing
N
446
N
sing
Y
447
N
sing
Y
448
N
doub
N
449
N
sing
Y
450
N
doub
N
451
N
sing
Y
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
N
460
N
sing
N
461
N
sing
N
462
N
doub
N
463
N
sing
N
464
N
sing
N
465
N
sing
N
466
N
sing
Y
467
N
doub
Y
468
N
sing
Y
469
N
sing
N
470
N
sing
Y
471
N
doub
N
472
N
sing
Y
473
N
doub
N
474
N
sing
Y
475
N
sing
N
476
N
sing
N
477
N
sing
N
478
N
sing
N
479
N
sing
N
480
N
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
sing
N
486
N
doub
N
487
N
sing
N
488
N
sing
N
489
N
sing
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
N
494
N
sing
N
495
N
sing
N
496
N
sing
N
497
N
sing
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
90
6796
6800
10.1073/pnas.90.14.6796
8393577
Crystal structures of native and inhibited forms of human cathepsin D: implications for lysosomal targeting and drug design.
1993
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
227
265
Human Liver Cathepsin D. Purification, Crystallization and Preliminary X-Ray Diffraction Analysis of a Lysosomal Enzyme
1992
10.2210/pdb1lyb/pdb
pdb_00001lyb
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
x-ray
1
1.0
10688.941
CATHEPSIN D
3.4.23.5
2
nat
polymer
26270.207
CATHEPSIN D
3.4.23.5
2
nat
polymer
685.891
PEPSTATIN
2
man
polymer
748.682
alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
2
man
branched
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
2
man
non-polymer
18.015
water
44
nat
water
no
no
GPIPEVLKNYMDAQYYGEIGIGTPPQCFTVVFDTGSSNLWVPSIHCKLLDIACWIHHKYNSDKSSTYVKNGTSFDIHYGS
GSLSGYLSQDTVSVPCQ
GPIPEVLKNYMDAQYYGEIGIGTPPQCFTVVFDTGSSNLWVPSIHCKLLDIACWIHHKYNSDKSSTYVKNGTSFDIHYGS
GSLSGYLSQDTVSVPCQ
A,C
polypeptide(L)
no
no
GGVKVERQVFGEATKQPGITFIAAKFDGILGMAYPRISVNNVLPVFDNLMQQKLVDQNIFSFYLSRDPDAQPGGELMLGG
TDSKYYKGSLSYLNVTRKAYWQVHLDQVEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPLIQGEYMIPC
EKVSTLPAITLKLGGKGYKLSPEDYTLKVSQAGKTLCLSGFMGMDIPPPSGPLWILGDVFIGRYYTVFDRDNNRVGFAEA
A
GGVKVERQVFGEATKQPGITFIAAKFDGILGMAYPRISVNNVLPVFDNLMQQKLVDQNIFSFYLSRDPDAQPGGELMLGG
TDSKYYKGSLSYLNVTRKAYWQVHLDQVEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPLIQGEYMIPC
EKVSTLPAITLKLGGKGYKLSPEDYTLKVSQAGKTLCLSGFMGMDIPPPSGPLWILGDVFIGRYYTVFDRDNNRVGFAEA
A
B,D
polypeptide(L)
no
yes
(IVA)VV(STA)A(STA)
XVVXAX
I,J
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
sample
285516
Streptomyces argenteolus subsp. toyonakensis
human
Homo
sample
9606
LIVER
Homo sapiens
LIVER
human
Homo
sample
9606
LIVER
Homo sapiens
LIVER
3.16
61.10
pdbx_database_status
struct_conf
struct_conf_type
atom_site
chem_comp
entity
pdbx_branch_scheme
pdbx_chem_comp_identifier
pdbx_entity_branch
pdbx_entity_branch_descriptor
pdbx_entity_branch_link
pdbx_entity_branch_list
pdbx_entity_nonpoly
pdbx_nonpoly_scheme
pdbx_struct_assembly_gen
struct_asym
struct_conn
struct_site
struct_site_gen
atom_site
chem_comp
chem_comp_atom
chem_comp_bond
database_2
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Other
Derived calculations
Other
Atomic model
Data collection
Derived calculations
Structure summary
Atomic model
Data collection
Database references
Structure summary
1
0
1994-01-31
1
1
2008-03-03
1
2
2011-07-13
1
3
2013-02-27
1
4
2017-11-29
2
0
2020-07-29
3
0
2023-11-15
_pdbx_database_status.process_site
_atom_site.B_iso_or_equiv
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.auth_asym_id
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.label_asym_id
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_entity_id
_atom_site.type_symbol
_chem_comp.name
_chem_comp.type
_pdbx_struct_assembly_gen.asym_id_list
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_role
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_atom_site.auth_atom_id
_atom_site.label_atom_id
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
A
NAG
1
n
E
NAG
1
A
NAG
2
n
E
NAG
2
A
MAN
3
n
E
BMA
3
A
MAN
8
n
E
MAN
4
C
NAG
1
n
F
NAG
1
C
NAG
2
n
F
NAG
2
C
MAN
3
n
F
BMA
3
C
MAN
8
n
F
MAN
4
DManpb
b-D-mannopyranose
b-D-Manp
Man
DManpa
a-D-mannopyranose
a-D-Manp
Man
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
SHEET
THERE ARE SEVERAL BIFURCATED SHEETS IN THIS STRUCTURE.
THESE ARE REPRESENTED BY TWO SHEETS WHICH HAVE ONE OR MORE
IDENTICAL STRANDS. SHEETS *1A1* AND *1B1* AND SHEETS *1A2*
AND *1B2* REPRESENT ONE BIFURCATED SHEET IN EACH MOLECULE.
SHEETS *2A1* AND *2B1* AND *2A2* AND *2B2* REPRESENT ONE
BIFURCATED SHEET IN EACH MOLECULE.
Y
BNL
1993-04-22
REL
oligosaccharide
DManpa1-6DManpb1-4DGlcpNAcb1-4DGlcpNAcb1-
4
GMML
1.0
Glycam Condensed Sequence
WURCS=2.0/3,4,3/[a2122h-1b_1-5_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5]/1-1-2-3/a4-b1_b4-c1_c6-d1
4
PDB2Glycan
1.1.0
WURCS
[]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-Manp]{[(6+1)][a-D-Manp]{}}}}}
4
PDB-CARE
LINUCS
C1
O4
NAG
NAG
2
1
4
O1
HO4
sing
C1
O4
BMA
NAG
3
2
4
O1
HO4
sing
C1
O6
MAN
BMA
4
3
4
O1
HO6
sing
n
n
n
n
NAG
2-acetamido-2-deoxy-beta-D-glucopyranose
HOH
water
Enzyme inhibitor
Pepstatin
Oligopeptide
NAG
1
5
NAG
NAG
1
B
NAG
1
5
NAG
NAG
1
D
HOH
1
6
HOH
HOH
102
A
HOH
2
6
HOH
HOH
103
A
HOH
3
6
HOH
HOH
104
A
HOH
4
6
HOH
HOH
105
A
HOH
5
6
HOH
HOH
106
A
HOH
6
6
HOH
HOH
107
A
HOH
10
6
HOH
HOH
108
A
HOH
11
6
HOH
HOH
109
A
HOH
28
6
HOH
HOH
110
A
HOH
9
6
HOH
HOH
29
B
HOH
12
6
HOH
HOH
32
B
HOH
13
6
HOH
HOH
33
B
HOH
15
6
HOH
HOH
34
B
HOH
21
6
HOH
HOH
35
B
HOH
22
6
HOH
HOH
36
B
HOH
24
6
HOH
HOH
37
B
HOH
25
6
HOH
HOH
38
B
HOH
26
6
HOH
HOH
39
B
HOH
29
6
HOH
HOH
41
B
HOH
118
6
HOH
HOH
42
B
HOH
120
6
HOH
HOH
43
B
HOH
122
6
HOH
HOH
44
B
HOH
1
6
HOH
HOH
102
C
HOH
2
6
HOH
HOH
103
C
HOH
4
6
HOH
HOH
104
C
HOH
5
6
HOH
HOH
105
C
HOH
6
6
HOH
HOH
106
C
HOH
9
6
HOH
HOH
107
C
HOH
10
6
HOH
HOH
108
C
HOH
11
6
HOH
HOH
109
C
HOH
28
6
HOH
HOH
110
C
HOH
3
6
HOH
HOH
3
D
HOH
12
6
HOH
HOH
10
D
HOH
13
6
HOH
HOH
11
D
HOH
15
6
HOH
HOH
12
D
HOH
21
6
HOH
HOH
13
D
HOH
22
6
HOH
HOH
14
D
HOH
24
6
HOH
HOH
15
D
HOH
25
6
HOH
HOH
16
D
HOH
26
6
HOH
HOH
17
D
HOH
29
6
HOH
HOH
19
D
HOH
118
6
HOH
HOH
20
D
HOH
120
6
HOH
HOH
21
D
HOH
122
6
HOH
HOH
22
D
GLY
1
n
1
GLY
1
A
PRO
2
n
2
PRO
2
A
ILE
3
n
3
ILE
3
A
PRO
4
n
4
PRO
4
A
GLU
5
n
5
GLU
5
A
VAL
6
n
6
VAL
6
A
LEU
7
n
7
LEU
7
A
LYS
8
n
8
LYS
8
A
ASN
9
n
9
ASN
9
A
TYR
10
n
10
TYR
10
A
MET
11
n
11
MET
11
A
ASP
12
n
12
ASP
12
A
ALA
13
n
13
ALA
13
A
GLN
14
n
14
GLN
14
A
TYR
15
n
15
TYR
15
A
TYR
16
n
16
TYR
16
A
GLY
17
n
17
GLY
17
A
GLU
18
n
18
GLU
18
A
ILE
19
n
19
ILE
19
A
GLY
20
n
20
GLY
20
A
ILE
21
n
21
ILE
21
A
GLY
22
n
22
GLY
22
A
THR
23
n
23
THR
23
A
PRO
24
n
24
PRO
24
A
PRO
25
n
25
PRO
25
A
GLN
26
n
26
GLN
26
A
CYS
27
n
27
CYS
27
A
PHE
28
n
28
PHE
28
A
THR
29
n
29
THR
29
A
VAL
30
n
30
VAL
30
A
VAL
31
n
31
VAL
31
A
PHE
32
n
32
PHE
32
A
ASP
33
n
33
ASP
33
A
THR
34
n
34
THR
34
A
GLY
35
n
35
GLY
35
A
SER
36
n
36
SER
36
A
SER
37
n
37
SER
37
A
ASN
38
n
38
ASN
38
A
LEU
39
n
39
LEU
39
A
TRP
40
n
40
TRP
40
A
VAL
41
n
41
VAL
41
A
PRO
42
n
42
PRO
42
A
SER
43
n
43
SER
43
A
ILE
44
n
44
ILE
44
A
HIS
45
n
45
HIS
45
A
CYS
46
n
46
CYS
46
A
LYS
47
n
47
LYS
47
A
LEU
48
n
48
LEU
48
A
LEU
49
n
49
LEU
49
A
ASP
50
n
50
ASP
50
A
ILE
51
n
51
ILE
51
A
ALA
52
n
52
ALA
52
A
CYS
53
n
53
CYS
53
A
TRP
54
n
54
TRP
54
A
ILE
55
n
55
ILE
55
A
HIS
56
n
56
HIS
56
A
HIS
57
n
57
HIS
57
A
LYS
58
n
58
LYS
58
A
TYR
59
n
59
TYR
59
A
ASN
60
n
60
ASN
60
A
SER
61
n
61
SER
61
A
ASP
62
n
62
ASP
62
A
LYS
63
n
63
LYS
63
A
SER
64
n
64
SER
64
A
SER
65
n
65
SER
65
A
THR
66
n
66
THR
66
A
TYR
67
n
67
TYR
67
A
VAL
68
n
68
VAL
68
A
LYS
69
n
69
LYS
69
A
ASN
70
n
70
ASN
70
A
GLY
71
n
71
GLY
71
A
THR
72
n
72
THR
72
A
SER
73
n
73
SER
73
A
PHE
74
n
74
PHE
74
A
ASP
75
n
75
ASP
75
A
ILE
76
n
76
ILE
76
A
HIS
77
n
77
HIS
77
A
TYR
78
n
78
TYR
78
A
GLY
79
n
79
GLY
79
A
SER
80
n
80
SER
80
A
GLY
81
n
81
GLY
81
A
SER
82
n
82
SER
82
A
LEU
83
n
83
LEU
83
A
SER
84
n
84
SER
84
A
GLY
85
n
85
GLY
85
A
TYR
86
n
86
TYR
86
A
LEU
87
n
87
LEU
87
A
SER
88
n
88
SER
88
A
GLN
89
n
89
GLN
89
A
ASP
90
n
90
ASP
90
A
THR
91
n
91
THR
91
A
VAL
92
n
92
VAL
92
A
SER
93
n
93
SER
93
A
VAL
94
n
94
VAL
94
A
PRO
95
n
95
PRO
95
A
CYS
96
n
96
CYS
96
A
GLN
97
n
97
GLN
97
A
GLY
106
n
1
GLY
106
B
GLY
107
n
2
GLY
107
B
VAL
108
n
3
VAL
108
B
LYS
109
n
4
LYS
109
B
VAL
110
n
5
VAL
110
B
GLU
111
n
6
GLU
111
B
ARG
112
n
7
ARG
112
B
GLN
113
n
8
GLN
113
B
VAL
114
n
9
VAL
114
B
PHE
115
n
10
PHE
115
B
GLY
116
n
11
GLY
116
B
GLU
117
n
12
GLU
117
B
ALA
118
n
13
ALA
118
B
THR
119
n
14
THR
119
B
LYS
120
n
15
LYS
120
B
GLN
121
n
16
GLN
121
B
PRO
122
n
17
PRO
122
B
GLY
123
n
18
GLY
123
B
ILE
124
n
19
ILE
124
B
THR
125
n
20
THR
125
B
PHE
126
n
21
PHE
126
B
ILE
127
n
22
ILE
127
B
ALA
128
n
23
ALA
128
B
ALA
129
n
24
ALA
129
B
LYS
130
n
25
LYS
130
B
PHE
131
n
26
PHE
131
B
ASP
132
n
27
ASP
132
B
GLY
133
n
28
GLY
133
B
ILE
134
n
29
ILE
134
B
LEU
135
n
30
LEU
135
B
GLY
136
n
31
GLY
136
B
MET
137
n
32
MET
137
B
ALA
138
n
33
ALA
138
B
TYR
139
n
34
TYR
139
B
PRO
140
n
35
PRO
140
B
ARG
141
n
36
ARG
141
B
ILE
142
n
37
ILE
142
B
SER
143
n
38
SER
143
B
VAL
144
n
39
VAL
144
B
ASN
145
n
40
ASN
145
B
ASN
146
n
41
ASN
146
B
VAL
147
n
42
VAL
147
B
LEU
148
n
43
LEU
148
B
PRO
149
n
44
PRO
149
B
VAL
150
n
45
VAL
150
B
PHE
151
n
46
PHE
151
B
ASP
152
n
47
ASP
152
B
ASN
153
n
48
ASN
153
B
LEU
154
n
49
LEU
154
B
MET
155
n
50
MET
155
B
GLN
156
n
51
GLN
156
B
GLN
157
n
52
GLN
157
B
LYS
158
n
53
LYS
158
B
LEU
159
n
54
LEU
159
B
VAL
160
n
55
VAL
160
B
ASP
161
n
56
ASP
161
B
GLN
162
n
57
GLN
162
B
ASN
163
n
58
ASN
163
B
ILE
164
n
59
ILE
164
B
PHE
165
n
60
PHE
165
B
SER
166
n
61
SER
166
B
PHE
167
n
62
PHE
167
B
TYR
168
n
63
TYR
168
B
LEU
169
n
64
LEU
169
B
SER
170
n
65
SER
170
B
ARG
171
n
66
ARG
171
B
ASP
172
n
67
ASP
172
B
PRO
173
n
68
PRO
173
B
ASP
174
n
69
ASP
174
B
ALA
175
n
70
ALA
175
B
GLN
176
n
71
GLN
176
B
PRO
177
n
72
PRO
177
B
GLY
178
n
73
GLY
178
B
GLY
179
n
74
GLY
179
B
GLU
180
n
75
GLU
180
B
LEU
181
n
76
LEU
181
B
MET
182
n
77
MET
182
B
LEU
183
n
78
LEU
183
B
GLY
184
n
79
GLY
184
B
GLY
185
n
80
GLY
185
B
THR
186
n
81
THR
186
B
ASP
187
n
82
ASP
187
B
SER
188
n
83
SER
188
B
LYS
189
n
84
LYS
189
B
TYR
190
n
85
TYR
190
B
TYR
191
n
86
TYR
191
B
LYS
192
n
87
LYS
192
B
GLY
193
n
88
GLY
193
B
SER
194
n
89
SER
194
B
LEU
195
n
90
LEU
195
B
SER
196
n
91
SER
196
B
TYR
197
n
92
TYR
197
B
LEU
198
n
93
LEU
198
B
ASN
199
n
94
ASN
199
B
VAL
200
n
95
VAL
200
B
THR
201
n
96
THR
201
B
ARG
202
n
97
ARG
202
B
LYS
203
n
98
LYS
203
B
ALA
204
n
99
ALA
204
B
TYR
205
n
100
TYR
205
B
TRP
206
n
101
TRP
206
B
GLN
207
n
102
GLN
207
B
VAL
208
n
103
VAL
208
B
HIS
209
n
104
HIS
209
B
LEU
210
n
105
LEU
210
B
ASP
211
n
106
ASP
211
B
GLN
212
n
107
GLN
212
B
VAL
213
n
108
VAL
213
B
GLU
214
n
109
GLU
214
B
VAL
215
n
110
VAL
215
B
ALA
216
n
111
ALA
216
B
SER
217
n
112
SER
217
B
GLY
218
n
113
GLY
218
B
LEU
219
n
114
LEU
219
B
THR
220
n
115
THR
220
B
LEU
221
n
116
LEU
221
B
CYS
222
n
117
CYS
222
B
LYS
223
n
118
LYS
223
B
GLU
224
n
119
GLU
224
B
GLY
225
n
120
GLY
225
B
CYS
226
n
121
CYS
226
B
GLU
227
n
122
GLU
227
B
ALA
228
n
123
ALA
228
B
ILE
229
n
124
ILE
229
B
VAL
230
n
125
VAL
230
B
ASP
231
n
126
ASP
231
B
THR
232
n
127
THR
232
B
GLY
233
n
128
GLY
233
B
THR
234
n
129
THR
234
B
SER
235
n
130
SER
235
B
LEU
236
n
131
LEU
236
B
MET
237
n
132
MET
237
B
VAL
238
n
133
VAL
238
B
GLY
239
n
134
GLY
239
B
PRO
240
n
135
PRO
240
B
VAL
241
n
136
VAL
241
B
ASP
242
n
137
ASP
242
B
GLU
243
n
138
GLU
243
B
VAL
244
n
139
VAL
244
B
ARG
245
n
140
ARG
245
B
GLU
246
n
141
GLU
246
B
LEU
247
n
142
LEU
247
B
GLN
248
n
143
GLN
248
B
LYS
249
n
144
LYS
249
B
ALA
250
n
145
ALA
250
B
ILE
251
n
146
ILE
251
B
GLY
252
n
147
GLY
252
B
ALA
253
n
148
ALA
253
B
VAL
254
n
149
VAL
254
B
PRO
255
n
150
PRO
255
B
LEU
256
n
151
LEU
256
B
ILE
257
n
152
ILE
257
B
GLN
258
n
153
GLN
258
B
GLY
259
n
154
GLY
259
B
GLU
260
n
155
GLU
260
B
TYR
261
n
156
TYR
261
B
MET
262
n
157
MET
262
B
ILE
263
n
158
ILE
263
B
PRO
264
n
159
PRO
264
B
CYS
265
n
160
CYS
265
B
GLU
266
n
161
GLU
266
B
LYS
267
n
162
LYS
267
B
VAL
268
n
163
VAL
268
B
SER
269
n
164
SER
269
B
THR
270
n
165
THR
270
B
LEU
271
n
166
LEU
271
B
PRO
272
n
167
PRO
272
B
ALA
273
n
168
ALA
273
B
ILE
274
n
169
ILE
274
B
THR
275
n
170
THR
275
B
LEU
276
n
171
LEU
276
B
LYS
277
n
172
LYS
277
B
LEU
278
n
173
LEU
278
B
GLY
279
n
174
GLY
279
B
GLY
280
n
175
GLY
280
B
LYS
281
n
176
LYS
281
B
GLY
282
n
177
GLY
282
B
TYR
283
n
178
TYR
283
B
LYS
284
n
179
LYS
284
B
LEU
285
n
180
LEU
285
B
SER
286
n
181
SER
286
B
PRO
287
n
182
PRO
287
B
GLU
288
n
183
GLU
288
B
ASP
289
n
184
ASP
289
B
TYR
290
n
185
TYR
290
B
THR
291
n
186
THR
291
B
LEU
292
n
187
LEU
292
B
LYS
293
n
188
LYS
293
B
VAL
294
n
189
VAL
294
B
SER
295
n
190
SER
295
B
GLN
296
n
191
GLN
296
B
ALA
297
n
192
ALA
297
B
GLY
298
n
193
GLY
298
B
LYS
299
n
194
LYS
299
B
THR
300
n
195
THR
300
B
LEU
301
n
196
LEU
301
B
CYS
302
n
197
CYS
302
B
LEU
303
n
198
LEU
303
B
SER
304
n
199
SER
304
B
GLY
305
n
200
GLY
305
B
PHE
306
n
201
PHE
306
B
MET
307
n
202
MET
307
B
GLY
308
n
203
GLY
308
B
MET
309
n
204
MET
309
B
ASP
310
n
205
ASP
310
B
ILE
311
n
206
ILE
311
B
PRO
312
n
207
PRO
312
B
PRO
313
n
208
PRO
313
B
PRO
314
n
209
PRO
314
B
SER
315
n
210
SER
315
B
GLY
316
n
211
GLY
316
B
PRO
317
n
212
PRO
317
B
LEU
318
n
213
LEU
318
B
TRP
319
n
214
TRP
319
B
ILE
320
n
215
ILE
320
B
LEU
321
n
216
LEU
321
B
GLY
322
n
217
GLY
322
B
ASP
323
n
218
ASP
323
B
VAL
324
n
219
VAL
324
B
PHE
325
n
220
PHE
325
B
ILE
326
n
221
ILE
326
B
GLY
327
n
222
GLY
327
B
ARG
328
n
223
ARG
328
B
TYR
329
n
224
TYR
329
B
TYR
330
n
225
TYR
330
B
THR
331
n
226
THR
331
B
VAL
332
n
227
VAL
332
B
PHE
333
n
228
PHE
333
B
ASP
334
n
229
ASP
334
B
ARG
335
n
230
ARG
335
B
ASP
336
n
231
ASP
336
B
ASN
337
n
232
ASN
337
B
ASN
338
n
233
ASN
338
B
ARG
339
n
234
ARG
339
B
VAL
340
n
235
VAL
340
B
GLY
341
n
236
GLY
341
B
PHE
342
n
237
PHE
342
B
ALA
343
n
238
ALA
343
B
GLU
344
n
239
GLU
344
B
ALA
345
n
240
ALA
345
B
ALA
346
n
241
ALA
346
B
IVA
1
n
1
IVA
1
I
VAL
2
n
2
VAL
2
I
VAL
3
n
3
VAL
3
I
STA
4
n
4
STA
4
I
ALA
5
n
5
ALA
5
I
STA
6
n
6
STA
6
I
GLY
1
n
1
GLY
1
C
PRO
2
n
2
PRO
2
C
ILE
3
n
3
ILE
3
C
PRO
4
n
4
PRO
4
C
GLU
5
n
5
GLU
5
C
VAL
6
n
6
VAL
6
C
LEU
7
n
7
LEU
7
C
LYS
8
n
8
LYS
8
C
ASN
9
n
9
ASN
9
C
TYR
10
n
10
TYR
10
C
MET
11
n
11
MET
11
C
ASP
12
n
12
ASP
12
C
ALA
13
n
13
ALA
13
C
GLN
14
n
14
GLN
14
C
TYR
15
n
15
TYR
15
C
TYR
16
n
16
TYR
16
C
GLY
17
n
17
GLY
17
C
GLU
18
n
18
GLU
18
C
ILE
19
n
19
ILE
19
C
GLY
20
n
20
GLY
20
C
ILE
21
n
21
ILE
21
C
GLY
22
n
22
GLY
22
C
THR
23
n
23
THR
23
C
PRO
24
n
24
PRO
24
C
PRO
25
n
25
PRO
25
C
GLN
26
n
26
GLN
26
C
CYS
27
n
27
CYS
27
C
PHE
28
n
28
PHE
28
C
THR
29
n
29
THR
29
C
VAL
30
n
30
VAL
30
C
VAL
31
n
31
VAL
31
C
PHE
32
n
32
PHE
32
C
ASP
33
n
33
ASP
33
C
THR
34
n
34
THR
34
C
GLY
35
n
35
GLY
35
C
SER
36
n
36
SER
36
C
SER
37
n
37
SER
37
C
ASN
38
n
38
ASN
38
C
LEU
39
n
39
LEU
39
C
TRP
40
n
40
TRP
40
C
VAL
41
n
41
VAL
41
C
PRO
42
n
42
PRO
42
C
SER
43
n
43
SER
43
C
ILE
44
n
44
ILE
44
C
HIS
45
n
45
HIS
45
C
CYS
46
n
46
CYS
46
C
LYS
47
n
47
LYS
47
C
LEU
48
n
48
LEU
48
C
LEU
49
n
49
LEU
49
C
ASP
50
n
50
ASP
50
C
ILE
51
n
51
ILE
51
C
ALA
52
n
52
ALA
52
C
CYS
53
n
53
CYS
53
C
TRP
54
n
54
TRP
54
C
ILE
55
n
55
ILE
55
C
HIS
56
n
56
HIS
56
C
HIS
57
n
57
HIS
57
C
LYS
58
n
58
LYS
58
C
TYR
59
n
59
TYR
59
C
ASN
60
n
60
ASN
60
C
SER
61
n
61
SER
61
C
ASP
62
n
62
ASP
62
C
LYS
63
n
63
LYS
63
C
SER
64
n
64
SER
64
C
SER
65
n
65
SER
65
C
THR
66
n
66
THR
66
C
TYR
67
n
67
TYR
67
C
VAL
68
n
68
VAL
68
C
LYS
69
n
69
LYS
69
C
ASN
70
n
70
ASN
70
C
GLY
71
n
71
GLY
71
C
THR
72
n
72
THR
72
C
SER
73
n
73
SER
73
C
PHE
74
n
74
PHE
74
C
ASP
75
n
75
ASP
75
C
ILE
76
n
76
ILE
76
C
HIS
77
n
77
HIS
77
C
TYR
78
n
78
TYR
78
C
GLY
79
n
79
GLY
79
C
SER
80
n
80
SER
80
C
GLY
81
n
81
GLY
81
C
SER
82
n
82
SER
82
C
LEU
83
n
83
LEU
83
C
SER
84
n
84
SER
84
C
GLY
85
n
85
GLY
85
C
TYR
86
n
86
TYR
86
C
LEU
87
n
87
LEU
87
C
SER
88
n
88
SER
88
C
GLN
89
n
89
GLN
89
C
ASP
90
n
90
ASP
90
C
THR
91
n
91
THR
91
C
VAL
92
n
92
VAL
92
C
SER
93
n
93
SER
93
C
VAL
94
n
94
VAL
94
C
PRO
95
n
95
PRO
95
C
CYS
96
n
96
CYS
96
C
GLN
97
n
97
GLN
97
C
GLY
106
n
1
GLY
106
D
GLY
107
n
2
GLY
107
D
VAL
108
n
3
VAL
108
D
LYS
109
n
4
LYS
109
D
VAL
110
n
5
VAL
110
D
GLU
111
n
6
GLU
111
D
ARG
112
n
7
ARG
112
D
GLN
113
n
8
GLN
113
D
VAL
114
n
9
VAL
114
D
PHE
115
n
10
PHE
115
D
GLY
116
n
11
GLY
116
D
GLU
117
n
12
GLU
117
D
ALA
118
n
13
ALA
118
D
THR
119
n
14
THR
119
D
LYS
120
n
15
LYS
120
D
GLN
121
n
16
GLN
121
D
PRO
122
n
17
PRO
122
D
GLY
123
n
18
GLY
123
D
ILE
124
n
19
ILE
124
D
THR
125
n
20
THR
125
D
PHE
126
n
21
PHE
126
D
ILE
127
n
22
ILE
127
D
ALA
128
n
23
ALA
128
D
ALA
129
n
24
ALA
129
D
LYS
130
n
25
LYS
130
D
PHE
131
n
26
PHE
131
D
ASP
132
n
27
ASP
132
D
GLY
133
n
28
GLY
133
D
ILE
134
n
29
ILE
134
D
LEU
135
n
30
LEU
135
D
GLY
136
n
31
GLY
136
D
MET
137
n
32
MET
137
D
ALA
138
n
33
ALA
138
D
TYR
139
n
34
TYR
139
D
PRO
140
n
35
PRO
140
D
ARG
141
n
36
ARG
141
D
ILE
142
n
37
ILE
142
D
SER
143
n
38
SER
143
D
VAL
144
n
39
VAL
144
D
ASN
145
n
40
ASN
145
D
ASN
146
n
41
ASN
146
D
VAL
147
n
42
VAL
147
D
LEU
148
n
43
LEU
148
D
PRO
149
n
44
PRO
149
D
VAL
150
n
45
VAL
150
D
PHE
151
n
46
PHE
151
D
ASP
152
n
47
ASP
152
D
ASN
153
n
48
ASN
153
D
LEU
154
n
49
LEU
154
D
MET
155
n
50
MET
155
D
GLN
156
n
51
GLN
156
D
GLN
157
n
52
GLN
157
D
LYS
158
n
53
LYS
158
D
LEU
159
n
54
LEU
159
D
VAL
160
n
55
VAL
160
D
ASP
161
n
56
ASP
161
D
GLN
162
n
57
GLN
162
D
ASN
163
n
58
ASN
163
D
ILE
164
n
59
ILE
164
D
PHE
165
n
60
PHE
165
D
SER
166
n
61
SER
166
D
PHE
167
n
62
PHE
167
D
TYR
168
n
63
TYR
168
D
LEU
169
n
64
LEU
169
D
SER
170
n
65
SER
170
D
ARG
171
n
66
ARG
171
D
ASP
172
n
67
ASP
172
D
PRO
173
n
68
PRO
173
D
ASP
174
n
69
ASP
174
D
ALA
175
n
70
ALA
175
D
GLN
176
n
71
GLN
176
D
PRO
177
n
72
PRO
177
D
GLY
178
n
73
GLY
178
D
GLY
179
n
74
GLY
179
D
GLU
180
n
75
GLU
180
D
LEU
181
n
76
LEU
181
D
MET
182
n
77
MET
182
D
LEU
183
n
78
LEU
183
D
GLY
184
n
79
GLY
184
D
GLY
185
n
80
GLY
185
D
THR
186
n
81
THR
186
D
ASP
187
n
82
ASP
187
D
SER
188
n
83
SER
188
D
LYS
189
n
84
LYS
189
D
TYR
190
n
85
TYR
190
D
TYR
191
n
86
TYR
191
D
LYS
192
n
87
LYS
192
D
GLY
193
n
88
GLY
193
D
SER
194
n
89
SER
194
D
LEU
195
n
90
LEU
195
D
SER
196
n
91
SER
196
D
TYR
197
n
92
TYR
197
D
LEU
198
n
93
LEU
198
D
ASN
199
n
94
ASN
199
D
VAL
200
n
95
VAL
200
D
THR
201
n
96
THR
201
D
ARG
202
n
97
ARG
202
D
LYS
203
n
98
LYS
203
D
ALA
204
n
99
ALA
204
D
TYR
205
n
100
TYR
205
D
TRP
206
n
101
TRP
206
D
GLN
207
n
102
GLN
207
D
VAL
208
n
103
VAL
208
D
HIS
209
n
104
HIS
209
D
LEU
210
n
105
LEU
210
D
ASP
211
n
106
ASP
211
D
GLN
212
n
107
GLN
212
D
VAL
213
n
108
VAL
213
D
GLU
214
n
109
GLU
214
D
VAL
215
n
110
VAL
215
D
ALA
216
n
111
ALA
216
D
SER
217
n
112
SER
217
D
GLY
218
n
113
GLY
218
D
LEU
219
n
114
LEU
219
D
THR
220
n
115
THR
220
D
LEU
221
n
116
LEU
221
D
CYS
222
n
117
CYS
222
D
LYS
223
n
118
LYS
223
D
GLU
224
n
119
GLU
224
D
GLY
225
n
120
GLY
225
D
CYS
226
n
121
CYS
226
D
GLU
227
n
122
GLU
227
D
ALA
228
n
123
ALA
228
D
ILE
229
n
124
ILE
229
D
VAL
230
n
125
VAL
230
D
ASP
231
n
126
ASP
231
D
THR
232
n
127
THR
232
D
GLY
233
n
128
GLY
233
D
THR
234
n
129
THR
234
D
SER
235
n
130
SER
235
D
LEU
236
n
131
LEU
236
D
MET
237
n
132
MET
237
D
VAL
238
n
133
VAL
238
D
GLY
239
n
134
GLY
239
D
PRO
240
n
135
PRO
240
D
VAL
241
n
136
VAL
241
D
ASP
242
n
137
ASP
242
D
GLU
243
n
138
GLU
243
D
VAL
244
n
139
VAL
244
D
ARG
245
n
140
ARG
245
D
GLU
246
n
141
GLU
246
D
LEU
247
n
142
LEU
247
D
GLN
248
n
143
GLN
248
D
LYS
249
n
144
LYS
249
D
ALA
250
n
145
ALA
250
D
ILE
251
n
146
ILE
251
D
GLY
252
n
147
GLY
252
D
ALA
253
n
148
ALA
253
D
VAL
254
n
149
VAL
254
D
PRO
255
n
150
PRO
255
D
LEU
256
n
151
LEU
256
D
ILE
257
n
152
ILE
257
D
GLN
258
n
153
GLN
258
D
GLY
259
n
154
GLY
259
D
GLU
260
n
155
GLU
260
D
TYR
261
n
156
TYR
261
D
MET
262
n
157
MET
262
D
ILE
263
n
158
ILE
263
D
PRO
264
n
159
PRO
264
D
CYS
265
n
160
CYS
265
D
GLU
266
n
161
GLU
266
D
LYS
267
n
162
LYS
267
D
VAL
268
n
163
VAL
268
D
SER
269
n
164
SER
269
D
THR
270
n
165
THR
270
D
LEU
271
n
166
LEU
271
D
PRO
272
n
167
PRO
272
D
ALA
273
n
168
ALA
273
D
ILE
274
n
169
ILE
274
D
THR
275
n
170
THR
275
D
LEU
276
n
171
LEU
276
D
LYS
277
n
172
LYS
277
D
LEU
278
n
173
LEU
278
D
GLY
279
n
174
GLY
279
D
GLY
280
n
175
GLY
280
D
LYS
281
n
176
LYS
281
D
GLY
282
n
177
GLY
282
D
TYR
283
n
178
TYR
283
D
LYS
284
n
179
LYS
284
D
LEU
285
n
180
LEU
285
D
SER
286
n
181
SER
286
D
PRO
287
n
182
PRO
287
D
GLU
288
n
183
GLU
288
D
ASP
289
n
184
ASP
289
D
TYR
290
n
185
TYR
290
D
THR
291
n
186
THR
291
D
LEU
292
n
187
LEU
292
D
LYS
293
n
188
LYS
293
D
VAL
294
n
189
VAL
294
D
SER
295
n
190
SER
295
D
GLN
296
n
191
GLN
296
D
ALA
297
n
192
ALA
297
D
GLY
298
n
193
GLY
298
D
LYS
299
n
194
LYS
299
D
THR
300
n
195
THR
300
D
LEU
301
n
196
LEU
301
D
CYS
302
n
197
CYS
302
D
LEU
303
n
198
LEU
303
D
SER
304
n
199
SER
304
D
GLY
305
n
200
GLY
305
D
PHE
306
n
201
PHE
306
D
MET
307
n
202
MET
307
D
GLY
308
n
203
GLY
308
D
MET
309
n
204
MET
309
D
ASP
310
n
205
ASP
310
D
ILE
311
n
206
ILE
311
D
PRO
312
n
207
PRO
312
D
PRO
313
n
208
PRO
313
D
PRO
314
n
209
PRO
314
D
SER
315
n
210
SER
315
D
GLY
316
n
211
GLY
316
D
PRO
317
n
212
PRO
317
D
LEU
318
n
213
LEU
318
D
TRP
319
n
214
TRP
319
D
ILE
320
n
215
ILE
320
D
LEU
321
n
216
LEU
321
D
GLY
322
n
217
GLY
322
D
ASP
323
n
218
ASP
323
D
VAL
324
n
219
VAL
324
D
PHE
325
n
220
PHE
325
D
ILE
326
n
221
ILE
326
D
GLY
327
n
222
GLY
327
D
ARG
328
n
223
ARG
328
D
TYR
329
n
224
TYR
329
D
TYR
330
n
225
TYR
330
D
THR
331
n
226
THR
331
D
VAL
332
n
227
VAL
332
D
PHE
333
n
228
PHE
333
D
ASP
334
n
229
ASP
334
D
ARG
335
n
230
ARG
335
D
ASP
336
n
231
ASP
336
D
ASN
337
n
232
ASN
337
D
ASN
338
n
233
ASN
338
D
ARG
339
n
234
ARG
339
D
VAL
340
n
235
VAL
340
D
GLY
341
n
236
GLY
341
D
PHE
342
n
237
PHE
342
D
ALA
343
n
238
ALA
343
D
GLU
344
n
239
GLU
344
D
ALA
345
n
240
ALA
345
D
ALA
346
n
241
ALA
346
D
IVA
1
n
1
IVA
1
J
VAL
2
n
2
VAL
2
J
VAL
3
n
3
VAL
3
J
STA
4
n
4
STA
4
J
ALA
5
n
5
ALA
5
J
STA
6
n
6
STA
6
J
software_defined_assembly
PISA
6
hexameric
software_defined_assembly
PQS
3
trimeric
software_defined_assembly
PQS
3
trimeric
20830
-94
26050
A
ASN
70
GLYCOSYLATION SITE
A
ASN
70
ASN
B
ASN
199
GLYCOSYLATION SITE
B
ASN
94
ASN
C
ASN
70
GLYCOSYLATION SITE
D
ASN
70
ASN
D
ASN
199
GLYCOSYLATION SITE
E
ASN
94
ASN
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
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_664
-y+1,x-y+1,z-1/3
crystal symmetry operation
62.9500000000
109.0325983365
-34.7000000000
1
A
CG
GLN
97
A
CG
GLN
97
1
Y
1
A
CD
GLN
97
A
CD
GLN
97
1
Y
1
A
OE1
GLN
97
A
OE1
GLN
97
1
Y
1
A
NE2
GLN
97
A
NE2
GLN
97
1
Y
1
C
CG
GLN
97
D
CG
GLN
97
1
Y
1
C
CD
GLN
97
D
CD
GLN
97
1
Y
1
C
OE1
GLN
97
D
OE1
GLN
97
1
Y
1
C
NE2
GLN
97
D
NE2
GLN
97
1
Y
1
I
STA
4
31.75
1
J
STA
4
27.81
1
A
A
GLY
PRO
1
2
-33.56
1
I
I
STA
ALA
4
5
-115.61
1
D
D
PRO
PRO
312
313
149.72
1
J
J
STA
ALA
4
5
-119.65
1
6.26
0.80
106.30
112.56
A
A
A
CD1
CG
CD2
TRP
TRP
TRP
40
40
40
N
1
-5.83
0.80
107.30
101.47
A
A
A
CE2
CD2
CG
TRP
TRP
TRP
40
40
40
N
1
6.02
0.80
106.30
112.32
A
A
A
CD1
CG
CD2
TRP
TRP
TRP
54
54
54
N
1
-3.60
0.60
121.00
117.40
A
A
A
CB
CG
CD2
TYR
TYR
TYR
67
67
67
N
1
5.44
0.80
106.30
111.74
B
B
B
CD1
CG
CD2
TRP
TRP
TRP
206
206
206
N
1
-4.96
0.80
107.30
102.34
B
B
B
CE2
CD2
CG
TRP
TRP
TRP
206
206
206
N
1
6.22
0.80
106.30
112.52
B
B
B
CD1
CG
CD2
TRP
TRP
TRP
319
319
319
N
1
-5.99
0.80
107.30
101.31
B
B
B
CE2
CD2
CG
TRP
TRP
TRP
319
319
319
N
1
5.54
0.90
133.90
139.44
B
B
B
CG
CD2
CE3
TRP
TRP
TRP
319
319
319
N
1
3.29
0.50
120.30
123.59
B
B
B
NE
CZ
NH1
ARG
ARG
ARG
335
335
335
N
1
7.00
0.80
106.30
113.30
C
C
C
CD1
CG
CD2
TRP
TRP
TRP
40
40
40
N
1
-10.13
1.30
127.00
116.87
C
C
C
CB
CG
CD1
TRP
TRP
TRP
40
40
40
N
1
-6.74
0.80
107.30
100.56
C
C
C
CE2
CD2
CG
TRP
TRP
TRP
40
40
40
N
1
7.72
0.90
133.90
141.62
C
C
C
CG
CD2
CE3
TRP
TRP
TRP
40
40
40
N
1
-4.41
0.60
121.00
116.59
C
C
C
CB
CG
CD2
TYR
TYR
TYR
59
59
59
N
1
3.46
0.50
120.30
123.76
D
D
D
NE
CZ
NH1
ARG
ARG
ARG
112
112
112
N
1
-3.71
0.50
120.30
116.59
D
D
D
NE
CZ
NH2
ARG
ARG
ARG
112
112
112
N
1
5.34
0.80
106.30
111.64
D
D
D
CD1
CG
CD2
TRP
TRP
TRP
206
206
206
N
1
-5.30
0.80
107.30
102.00
D
D
D
CE2
CD2
CG
TRP
TRP
TRP
206
206
206
N
1
-19.94
2.70
111.00
91.06
D
D
D
N
CA
C
LEU
LEU
LEU
256
256
256
N
1
6.27
0.80
106.30
112.57
D
D
D
CD1
CG
CD2
TRP
TRP
TRP
319
319
319
N
1
-5.82
0.80
107.30
101.48
D
D
D
CE2
CD2
CG
TRP
TRP
TRP
319
319
319
N
1
3.27
0.50
120.30
123.57
D
D
D
NE
CZ
NH1
ARG
ARG
ARG
328
328
328
N
1
3.35
0.50
120.30
123.65
D
D
D
NE
CZ
NH1
ARG
ARG
ARG
339
339
339
N
1
-3.34
0.50
120.30
116.96
D
D
D
NE
CZ
NH2
ARG
ARG
ARG
339
339
339
N
1
A
A
NE2
CD2
HIS
HIS
45
45
-0.067
0.011
1.373
1.306
N
1
A
A
NE2
CD2
HIS
HIS
57
57
-0.068
0.011
1.373
1.305
N
1
A
A
NE2
CD2
HIS
HIS
77
77
-0.071
0.011
1.373
1.302
N
1
B
B
NE2
CD2
HIS
HIS
209
209
-0.073
0.011
1.373
1.300
N
1
C
C
NE2
CD2
HIS
HIS
45
45
-0.068
0.011
1.373
1.305
N
1
A
ASP
12
57.96
2.17
1
A
ASN
70
-141.56
-53.57
1
A
PRO
95
-65.65
-165.03
1
B
ASP
174
-116.12
58.73
1
B
THR
201
-89.23
-74.97
1
B
ALA
204
-135.79
-65.16
1
B
GLN
212
179.97
155.91
1
B
CYS
222
39.62
55.87
1
B
LEU
256
-106.41
-90.59
1
B
GLN
258
29.08
77.53
1
B
GLN
296
-128.41
-73.09
1
B
ALA
297
-92.39
-64.68
1
B
LYS
299
61.55
166.56
1
B
THR
300
61.55
-19.05
1
I
VAL
2
82.53
113.63
1
C
THR
34
-66.16
0.18
1
C
ASN
70
-152.11
-50.55
1
C
PRO
95
-76.12
-166.59
1
D
ALA
204
-129.77
-71.86
1
D
GLU
224
117.48
-3.38
1
D
LEU
256
-113.40
-110.32
1
D
SER
269
-52.26
-10.00
1
D
TYR
290
-97.95
31.85
1
D
ALA
297
68.87
-77.62
1
D
THR
300
-56.91
97.58
1
J
VAL
2
121.03
113.26
THERE ARE TWO N-LINKED OLIGOSACCHARIDES ATTACHED AT
RESIDUES ASN 70 AND ASN 199 OF EACH MOLECULE. FOUR SUGARS
WERE INCLUDED FOR REFINEMENT AT ASN 70 AND A SINGLE
N-LINKED NAG AT ASN 199. THE SUGARS ARE LINKED AS FOLLOWS:
ASN A 70 -- NAG A 1 -- NAG A 2 -- MAN A 3 -- MAN A 8
ASN B 199 -- NAG B 1
ASN C 70 -- NAG C 1 -- NAG C 2 -- MAN C 3 -- MAN C 8
ASN D 199 -- NAG D 1
0.179
0.179
2.5
1
2.5
44
5454
128
0
5282
0.012
3.2
model building
X-PLOR
3.0
refinement
X-PLOR
3.0
phasing
X-PLOR
3.0
CRYSTAL STRUCTURES OF NATIVE AND INHIBITED FORMS OF HUMAN CATHEPSIN D: IMPLICATIONS FOR LYSOSOMAL TARGETING AND DRUG DESIGN
1
N
N
2
N
N
3
N
N
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
5
N
N
5
N
N
6
N
N
6
N
N
6
N
N
6
N
N
THE TRANSFORMATION PRESENTED ON *MTRIX* RECORDS BELOW WILL
YIELD APPROXIMATE COORDINATES FOR CHAINS *A* AND *B* WHEN
APPLIED TO CHAINS *C* AND *D*, RESPECTIVELY.
A
LYS
47
A
LYS
47
HELX_P
A
ILE
55
A
ILE
55
1
A11
9
B
ILE
124
B
ILE
19
HELX_P
B
ALA
129
B
ALA
24
1
A21
6
B
PRO
149
B
PRO
44
HELX_P
B
LEU
159
B
LEU
54
1
A31
11
B
PRO
240
B
PRO
135
HELX_P
B
GLY
252
B
GLY
147
1
A41
13
B
PRO
264
B
PRO
159
HELX_P
B
LEU
271
B
LEU
166
1
A51
8
B
SER
286
B
SER
181
HELX_P
B
THR
291
B
THR
186
1
A61
6
B
GLY
322
B
GLY
217
HELX_P
B
GLY
327
B
GLY
222
1
A71
6
C
LYS
47
D
LYS
47
HELX_P
C
ILE
55
D
ILE
55
1
A12
9
D
ILE
124
E
ILE
19
HELX_P
D
ALA
129
E
ALA
24
1
A22
6
D
PRO
149
E
PRO
44
HELX_P
D
LEU
159
E
LEU
54
1
A32
11
D
PRO
240
E
PRO
135
HELX_P
D
GLY
252
E
GLY
147
1
A42
13
D
PRO
264
E
PRO
159
HELX_P
D
LEU
271
E
LEU
166
1
A52
8
D
SER
286
E
SER
181
HELX_P
D
THR
291
E
THR
186
1
A62
6
D
GLY
322
E
GLY
217
HELX_P
D
GLY
327
E
GLY
222
1
A72
6
disulf
2.032
A
CYS
27
A
SG
CYS
27
1_555
A
CYS
96
A
SG
CYS
96
1_555
disulf
2.033
A
CYS
46
A
SG
CYS
46
1_555
A
CYS
53
A
SG
CYS
53
1_555
disulf
2.001
B
CYS
222
B
SG
CYS
117
1_555
B
CYS
226
B
SG
CYS
121
1_555
disulf
2.035
B
CYS
265
B
SG
CYS
160
1_555
B
CYS
302
B
SG
CYS
197
1_555
disulf
2.018
C
CYS
27
D
SG
CYS
27
1_555
C
CYS
96
D
SG
CYS
96
1_555
disulf
1.987
C
CYS
46
D
SG
CYS
46
1_555
C
CYS
53
D
SG
CYS
53
1_555
disulf
2.020
D
CYS
222
E
SG
CYS
117
1_555
D
CYS
226
E
SG
CYS
121
1_555
disulf
2.024
D
CYS
265
E
SG
CYS
160
1_555
D
CYS
302
E
SG
CYS
197
1_555
covale
1.485
one
N-Glycosylation
A
ASN
70
A
ND2
ASN
70
1_555
E
NAG
1
G
C1
NAG
1_555
covale
1.487
one
N-Glycosylation
B
NAG
1
I
C1
NAG
1_555
B
ASN
199
B
ND2
ASN
94
1_555
covale
1.342
both
I
IVA
1
C
C
IVA
1
1_555
I
VAL
2
C
N
VAL
2
1_555
covale
1.316
both
I
VAL
3
C
C
VAL
3
1_555
I
STA
4
C
N
STA
4
1_555
covale
1.328
both
I
STA
4
C
C
STA
4
1_555
I
ALA
5
C
N
ALA
5
1_555
covale
1.335
both
I
ALA
5
C
C
ALA
5
1_555
I
STA
6
C
N
STA
6
1_555
covale
1.462
one
N-Glycosylation
C
ASN
70
D
ND2
ASN
70
1_555
F
NAG
1
H
C1
NAG
1_555
covale
1.483
one
N-Glycosylation
D
NAG
1
J
C1
NAG
1_555
D
ASN
199
E
ND2
ASN
94
1_555
covale
1.341
both
J
IVA
1
F
C
IVA
1
1_555
J
VAL
2
F
N
VAL
2
1_555
covale
1.322
both
J
VAL
3
F
C
VAL
3
1_555
J
STA
4
F
N
STA
4
1_555
covale
1.340
both
J
STA
4
F
C
STA
4
1_555
J
ALA
5
F
N
ALA
5
1_555
covale
1.333
both
J
ALA
5
F
C
ALA
5
1_555
J
STA
6
F
N
STA
6
1_555
covale
1.439
both
E
NAG
1
G
O4
NAG
1_555
E
NAG
2
G
C1
NAG
1_555
covale
1.407
both
E
NAG
2
G
O4
NAG
1_555
E
BMA
3
G
C1
BMA
1_555
covale
1.458
both
E
BMA
3
G
O6
BMA
1_555
E
MAN
4
G
C1
MAN
1_555
covale
1.463
both
F
NAG
1
H
O4
NAG
1_555
F
NAG
2
H
C1
NAG
1_555
covale
1.448
both
F
NAG
2
H
O4
NAG
1_555
F
BMA
3
H
C1
BMA
1_555
covale
1.417
both
F
BMA
3
H
O6
BMA
1_555
F
MAN
4
H
C1
MAN
1_555
HYDROLASE/HYDROLASE INHIBITOR
LYSOSOMAL ASPARTIC PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX
A
THR
23
A
THR
23
1
A
PRO
24
A
PRO
24
-3.00
A
VAL
94
A
VAL
94
1
A
PRO
95
A
PRO
95
-6.94
B
GLN
176
B
GLN
71
1
B
PRO
177
B
PRO
72
-23.69
B
PRO
313
B
PRO
208
1
B
PRO
314
B
PRO
209
10.09
B
GLY
316
B
GLY
211
1
B
PRO
317
B
PRO
212
8.40
C
GLY
1
D
GLY
1
1
C
PRO
2
D
PRO
2
-1.44
C
THR
23
D
THR
23
1
C
PRO
24
D
PRO
24
-11.14
C
VAL
94
D
VAL
94
1
C
PRO
95
D
PRO
95
-17.72
D
GLN
176
E
GLN
71
1
D
PRO
177
E
PRO
72
-11.29
D
PRO
313
E
PRO
208
1
D
PRO
314
E
PRO
209
14.65
D
GLY
316
E
GLY
211
1
D
PRO
317
E
PRO
212
-12.99
given
0.735300
0.674700
-0.064150
0.608800
-0.699200
-0.374800
-0.297800
0.236600
-0.924900
-9.57840
129.91299
10.65180
CATD_HUMAN
UNP
1
1
P07339
MQPSSLLPLALCLLAAPASALVRIPLHKFTSIRRTMSEVGGSVEDLIAKGPVSKYSQAVPAVTEGPIPEVLKNYMDAQYY
GEIGIGTPPQCFTVVFDTGSSNLWVPSIHCKLLDIACWIHHKYNSDKSSTYVKNGTSFDIHYGSGSLSGYLSQDTVSVPC
QSASSASALGGVKVERQVFGEATKQPGITFIAAKFDGILGMAYPRISVNNVLPVFDNLMQQKLVDQNIFSFYLSRDPDAQ
PGGELMLGGTDSKYYKGSLSYLNVTRKAYWQVHLDQVEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPL
IQGEYMIPCEKVSTLPAITLKLGGKGYKLSPEDYTLKVSQAGKTLCLSGFMGMDIPPPSGPLWILGDVFIGRYYTVFDRD
NNRVGFAEAARL
CATD_HUMAN
UNP
2
1
P07339
MQPSSLLPLALCLLAAPASALVRIPLHKFTSIRRTMSEVGGSVEDLIAKGPVSKYSQAVPAVTEGPIPEVLKNYMDAQYY
GEIGIGTPPQCFTVVFDTGSSNLWVPSIHCKLLDIACWIHHKYNSDKSSTYVKNGTSFDIHYGSGSLSGYLSQDTVSVPC
QSASSASALGGVKVERQVFGEATKQPGITFIAAKFDGILGMAYPRISVNNVLPVFDNLMQQKLVDQNIFSFYLSRDPDAQ
PGGELMLGGTDSKYYKGSLSYLNVTRKAYWQVHLDQVEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPL
IQGEYMIPCEKVSTLPAITLKLGGKGYKLSPEDYTLKVSQAGKTLCLSGFMGMDIPPPSGPLWILGDVFIGRYYTVFDRD
NNRVGFAEAARL
1LYB
PDB
3
1LYB
XVVXAX
65
161
1LYB
1
97
P07339
A
1
1
97
170
410
1LYB
106
346
P07339
B
2
1
241
65
161
1LYB
1
97
P07339
C
1
1
97
170
410
1LYB
106
346
P07339
D
2
1
241
1
6
1LYB
1
6
1LYB
I
3
1
6
1
6
1LYB
1
6
1LYB
J
3
1
6
6
4
9
9
7
7
6
4
9
9
7
7
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
A
ILE
3
A
ILE
3
A
LEU
7
A
LEU
7
B
GLY
178
B
GLY
73
B
GLY
184
B
GLY
79
B
ILE
164
B
ILE
59
B
SER
170
B
SER
65
B
TYR
330
B
TYR
225
B
ASP
334
B
ASP
229
B
ASN
337
B
ASN
232
B
ALA
346
B
ALA
241
B
TYR
190
B
TYR
85
B
VAL
200
B
VAL
95
B
VAL
254
B
VAL
149
B
LEU
256
B
LEU
151
B
GLU
260
B
GLU
155
B
ILE
263
B
ILE
158
B
LEU
301
B
LEU
196
B
SER
304
B
SER
199
B
GLN
296
B
GLN
191
B
GLY
298
B
GLY
193
A
VAL
68
A
VAL
68
A
TYR
78
A
TYR
78
A
GLY
81
A
GLY
81
A
ASP
90
A
ASP
90
B
GLN
113
B
GLN
8
B
LYS
120
B
LYS
15
A
ASN
38
A
ASN
38
A
SER
43
A
SER
43
B
PHE
131
B
PHE
26
B
MET
137
B
MET
32
A
GLN
26
A
GLN
26
A
ASP
33
A
ASP
33
A
GLN
14
A
GLN
14
A
GLY
22
A
GLY
22
A
LYS
8
A
LYS
8
A
TYR
10
A
TYR
10
B
VAL
110
B
VAL
5
B
ARG
112
B
ARG
7
A
VAL
68
A
VAL
68
A
TYR
78
A
TYR
78
A
GLY
81
A
GLY
81
A
ASP
90
A
ASP
90
B
GLN
113
B
GLN
8
B
LYS
120
B
LYS
15
A
ASN
38
A
ASN
38
A
SER
43
A
SER
43
B
PHE
131
B
PHE
26
B
MET
137
B
MET
32
A
GLN
26
A
GLN
26
A
ASP
33
A
ASP
33
A
GLN
14
A
GLN
14
A
GLY
22
A
GLY
22
A
THR
91
A
THR
91
A
CYS
96
A
CYS
96
B
VAL
110
B
VAL
5
B
ARG
112
B
ARG
7
B
LYS
281
B
LYS
176
B
LEU
285
B
LEU
180
B
ALA
273
B
ALA
168
B
LEU
278
B
LEU
173
B
TRP
206
B
TRP
101
B
ALA
216
B
ALA
111
B
LEU
219
B
LEU
114
B
LEU
221
B
LEU
116
B
LEU
219
B
LEU
114
B
LYS
223
B
LYS
118
B
THR
234
B
THR
129
B
GLY
239
B
GLY
134
B
GLY
305
B
GLY
200
B
MET
309
B
MET
204
B
LYS
281
B
LYS
176
B
LEU
285
B
LEU
180
B
ALA
273
B
ALA
168
B
LEU
278
B
LEU
173
B
TRP
206
B
TRP
101
B
ALA
216
B
ALA
111
B
CYS
226
B
CYS
121
B
ASP
231
B
ASP
126
B
LEU
219
B
LEU
114
B
LYS
223
B
LYS
118
B
THR
234
B
THR
129
B
GLY
239
B
GLY
134
B
GLY
305
B
GLY
200
B
MET
309
B
MET
204
C
ILE
3
D
ILE
3
C
LEU
7
D
LEU
7
D
GLY
178
E
GLY
73
D
GLY
184
E
GLY
79
D
ILE
164
E
ILE
59
D
SER
170
E
SER
65
D
TYR
330
E
TYR
225
D
ASP
334
E
ASP
229
D
ASN
337
E
ASN
232
D
ALA
346
E
ALA
241
D
TYR
190
E
TYR
85
D
VAL
200
E
VAL
95
D
VAL
254
E
VAL
149
D
LEU
256
E
LEU
151
D
GLU
260
E
GLU
155
D
ILE
263
E
ILE
158
D
LEU
301
E
LEU
196
D
SER
304
E
SER
199
D
GLN
296
E
GLN
191
D
GLY
298
E
GLY
193
C
VAL
68
D
VAL
68
C
TYR
78
D
TYR
78
C
GLY
81
D
GLY
81
C
ASP
90
D
ASP
90
D
GLN
113
E
GLN
8
D
LYS
120
E
LYS
15
C
ASN
38
D
ASN
38
C
SER
43
D
SER
43
D
PHE
131
E
PHE
26
D
MET
137
E
MET
32
C
GLN
26
D
GLN
26
C
ASP
33
D
ASP
33
C
GLN
14
D
GLN
14
C
GLY
22
D
GLY
22
C
LYS
8
D
LYS
8
C
TYR
10
D
TYR
10
D
VAL
110
E
VAL
5
D
ARG
112
E
ARG
7
C
VAL
68
D
VAL
68
C
TYR
78
D
TYR
78
C
GLY
81
D
GLY
81
C
ASP
90
D
ASP
90
D
GLN
113
E
GLN
8
D
LYS
120
E
LYS
15
C
ASN
38
D
ASN
38
C
SER
43
D
SER
43
D
PHE
131
E
PHE
26
D
MET
137
E
MET
32
C
GLN
26
D
GLN
26
C
ASP
33
D
ASP
33
C
GLN
14
D
GLN
14
C
GLY
22
D
GLY
22
C
THR
91
D
THR
91
C
CYS
96
D
CYS
96
D
VAL
110
E
VAL
5
D
ARG
112
E
ARG
7
D
LYS
281
E
LYS
176
D
LEU
285
E
LEU
180
D
ALA
273
E
ALA
168
D
LEU
278
E
LEU
173
D
TRP
206
E
TRP
101
D
ALA
216
E
ALA
111
D
LEU
219
E
LEU
114
D
LEU
221
E
LEU
116
D
LEU
219
E
LEU
114
D
LYS
223
E
LYS
118
D
THR
234
E
THR
129
D
GLY
239
E
GLY
134
D
GLY
305
E
GLY
200
D
MET
309
E
MET
204
D
LYS
281
E
LYS
176
D
LEU
285
E
LEU
180
D
ALA
273
E
ALA
168
D
LEU
278
E
LEU
173
D
TRP
206
E
TRP
101
D
ALA
216
E
ALA
111
D
CYS
226
E
CYS
121
D
ASP
231
E
ASP
126
D
LEU
219
E
LEU
114
D
LYS
223
E
LYS
118
D
THR
234
E
THR
129
D
GLY
239
E
GLY
134
D
GLY
305
E
GLY
200
D
MET
309
E
MET
204
170
P 65