0.012238
0.000000
0.005205
0.000000
0.019889
0.000000
0.000000
0.000000
0.016415
0.00000
0.00000
0.00000
Katz, B.A.
Luong, C.
Ho, J.D.
Somoza, J.R.
Gjerstad, E.
Tang, J.
Williams, S.R.
Verner, E.
Mackman, R.L.
Young, W.B.
Sprengeler, P.A.
Chan, H.
Mortara, K.
Janc, J.W.
McGrath, M.E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.0
113.04
90.0
81.71
50.28
66.20
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 H8 O7
192.124
CITRIC ACID
non-polymer
C21 H23 F N4 O2
382.431
2-{5-[AMINO(IMINIO)METHYL]-6-FLUORO-1H-BENZIMIDAZOL-2-YL}-6-[(2-METHYLCYCLOHEXYL)OXY]BENZENOLATE
CRA_11092
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
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 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
C
N
75
N
O
N
76
N
O
N
77
N
C
N
78
N
C
N
79
N
O
N
80
N
C
N
81
N
C
N
82
N
O
N
83
N
O
N
84
N
C
N
85
N
O
N
86
N
O
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
Y
95
N
C
Y
96
N
C
N
97
N
F
Y
98
N
C
Y
99
N
C
Y
100
N
C
Y
101
N
C
N
102
N
C
N
103
N
N
N
104
N
N
Y
105
N
N
Y
106
N
N
Y
107
N
C
Y
108
N
C
Y
109
N
C
Y
110
N
C
Y
111
N
C
Y
112
N
C
Y
113
N
C
N
114
N
O
N
115
N
O
N
116
S
C
N
117
N
C
N
118
N
C
N
119
N
C
N
120
N
C
N
121
S
C
N
122
N
C
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
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
N
N
147
R
C
N
148
N
C
N
149
N
O
N
150
N
C
N
151
N
S
N
152
N
O
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
N
N
161
S
C
N
162
N
C
N
163
N
O
N
164
N
C
N
165
N
C
N
166
N
C
N
167
N
O
N
168
N
N
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
N
N
181
S
C
N
182
N
C
N
183
N
O
N
184
N
C
N
185
N
C
N
186
N
C
N
187
N
O
N
188
N
O
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
H
N
199
N
N
N
200
N
C
N
201
N
C
N
202
N
O
N
203
N
O
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
N
N
210
S
C
N
211
N
C
N
212
N
O
N
213
N
C
Y
214
N
C
Y
215
N
N
Y
216
N
C
Y
217
N
C
Y
218
N
N
N
219
N
O
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
O
N
231
N
H
N
232
N
H
N
233
N
N
N
234
S
C
N
235
N
C
N
236
N
O
N
237
S
C
N
238
N
C
N
239
N
C
N
240
N
C
N
241
N
O
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
N
N
256
S
C
N
257
N
C
N
258
N
O
N
259
N
C
N
260
N
C
N
261
N
C
N
262
N
C
N
263
N
O
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
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
N
N
278
S
C
N
279
N
C
N
280
N
O
N
281
N
C
N
282
N
C
N
283
N
C
N
284
N
C
N
285
N
N
N
286
N
O
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
H
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
H
N
302
N
N
N
303
S
C
N
304
N
C
N
305
N
O
N
306
N
C
N
307
N
C
N
308
N
S
N
309
N
C
N
310
N
O
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
N
N
323
S
C
N
324
N
C
N
325
N
O
N
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
C
Y
331
N
C
Y
332
N
C
N
333
N
O
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
N
350
N
C
N
351
N
C
N
352
N
O
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
N
N
363
S
C
N
364
N
C
N
365
N
O
N
366
N
C
N
367
N
O
N
368
N
O
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
N
N
377
S
C
N
378
N
C
N
379
N
O
N
380
R
C
N
381
N
O
N
382
N
C
N
383
N
O
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
N
N
394
S
C
N
395
N
C
N
396
N
O
N
397
N
C
Y
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
N
Y
402
N
C
Y
403
N
C
Y
404
N
C
Y
405
N
C
Y
406
N
C
N
407
N
O
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
N
N
421
S
C
N
422
N
C
N
423
N
O
N
424
N
C
Y
425
N
C
Y
426
N
C
Y
427
N
C
Y
428
N
C
Y
429
N
C
Y
430
N
C
N
431
N
O
N
432
N
O
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
N
N
445
S
C
N
446
N
C
N
447
N
O
N
448
N
C
N
449
N
C
N
450
N
C
N
451
N
O
N
452
N
H
N
453
N
H
N
454
N
H
N
455
N
H
N
456
N
H
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
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
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
doub
N
85
N
sing
N
86
N
sing
N
87
N
doub
N
88
N
sing
N
89
N
sing
Y
90
N
doub
Y
91
N
sing
N
92
N
sing
N
93
N
sing
Y
94
N
sing
Y
95
N
doub
N
96
N
sing
Y
97
N
sing
Y
98
N
sing
Y
99
N
doub
Y
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
Y
108
N
sing
N
109
N
sing
Y
110
N
doub
Y
111
N
sing
Y
112
N
doub
Y
113
N
sing
Y
114
N
sing
N
115
N
sing
Y
116
N
doub
N
117
N
sing
Y
118
N
sing
N
119
N
sing
Y
120
N
doub
N
121
N
sing
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
sing
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
sing
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
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
doub
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
doub
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
doub
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
doub
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
doub
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
Y
214
N
sing
Y
215
N
doub
Y
216
N
doub
N
217
N
sing
Y
218
N
sing
N
219
N
sing
Y
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
doub
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
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
doub
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
doub
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
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
doub
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
doub
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
Y
322
N
doub
Y
323
N
sing
Y
324
N
sing
N
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
doub
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
doub
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
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
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
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
doub
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
Y
391
N
doub
Y
392
N
sing
Y
393
N
sing
N
394
N
sing
Y
395
N
doub
Y
396
N
sing
Y
397
N
sing
N
398
N
sing
Y
399
N
sing
Y
400
N
doub
N
401
N
sing
Y
402
N
doub
N
403
N
sing
Y
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
doub
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
Y
419
N
doub
Y
420
N
sing
Y
421
N
sing
N
422
N
sing
Y
423
N
doub
N
424
N
sing
Y
425
N
doub
N
426
N
sing
Y
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
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
doub
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
sing
N
449
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
344
527
547
10.1016/j.jmb.2004.09.032
15522303
Dissecting and designing inhibitor selectivity determinants at the S1 site using an artificial Ala190 protease (Ala190 uPA)
2004
10.2210/pdb1o5c/pdb
pdb_00001o5c
285
1
IMAGE PLATE
2002-02-01
RIGAKU RAXIS IV++
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
2708.183
Urokinase-type plasminogen activator
3.4.21.73
SHORT CHAIN
1
man
polymer
28419.428
Urokinase-type plasminogen activator
3.4.21.73
CATALYTIC DOMAIN
N145A/S190A
1
man
polymer
382.431
2-{5-[AMINO(IMINIO)METHYL]-6-FLUORO-1H-BENZIMIDAZOL-2-YL}-6-[(2-METHYLCYCLOHEXYL)OXY]BENZENOLATE
1
syn
non-polymer
192.124
CITRIC ACID
2
syn
non-polymer
18.015
water
205
nat
water
uPA, U-plasminogen activator
uPA, U-plasminogen activator
E.C.3.4.21.73
no
no
KPSSPPEELKFQCGQKTLRPRFK
KPSSPPEELKFQCGQKTLRPRFK
A
polypeptide(L)
no
no
IIGGEFTTIENQPWFAAIYRRHRGGSVTYVCGGSLMSPCWVISATHCFIDYPKKEDYIVYLGRSRLNSNTQGEMKFEVEN
LILHKDYSADTLAHHNDIALLKIRSKEGRCAQPSRTIQTICLPSMYNDPQFGTSCEITGFGKEASTDYLYPEQLKMTVVK
LISHRECQQPHYYGSEVTTKMLCAADPQWKTDACQGDSGGPLVCSLQGRMTLTGIVSWGRGCALKDKPGVYTRVSHFLPW
IRSHTKEENGLAL
IIGGEFTTIENQPWFAAIYRRHRGGSVTYVCGGSLMSPCWVISATHCFIDYPKKEDYIVYLGRSRLNSNTQGEMKFEVEN
LILHKDYSADTLAHHNDIALLKIRSKEGRCAQPSRTIQTICLPSMYNDPQFGTSCEITGFGKEASTDYLYPEQLKMTVVK
LISHRECQQPHYYGSEVTTKMLCAADPQWKTDACQGDSGGPLVCSLQGRMTLTGIVSWGRGCALKDKPGVYTRVSHFLPW
IRSHTKEENGLAL
B
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
human
Homo
Pichia
sample
PLAU
9606
Homo sapiens
4922
Pichia pastoris
PLASMID
PPIC9LMWUPA-ALA190
human
Homo
Pichia
sample
PLAU
9606
Homo sapiens
4922
Pichia pastoris
PLASMID
PPIC9LMWUPA-ALA190
1
2.01
38.81
VAPOR DIFFUSION
6.50
2-propanol, PEG 4000, pH 6.5, vapor diffusion at 298 K, pH 6.5, pH 6.50
298
database_2
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Data collection
1
0
2004-09-21
1
1
2008-04-26
1
2
2011-07-13
1
3
2021-10-27
1
4
2023-12-27
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
1gjc is the WT enzyme complexed with the same inhibitor (CRA-8696)
RCSB
Y
RCSB
2003-09-09
REL
REL
CR9
2-{5-[AMINO(IMINIO)METHYL]-6-FLUORO-1H-BENZIMIDAZOL-2-YL}-6-[(2-METHYLCYCLOHEXYL)OXY]BENZENOLATE
CIT
CITRIC ACID
HOH
water
CR9
246
3
CR9
CR9
251
B
CIT
1
4
CIT
CIT
1
B
CIT
2
4
CIT
CIT
2
B
HOH
467
5
HOH
HOH
467
A
HOH
679
5
HOH
HOH
679
A
HOH
715
5
HOH
HOH
715
A
HOH
1065
5
HOH
HOH
1065
A
HOH
1072
5
HOH
HOH
1072
A
HOH
1094
5
HOH
HOH
1094
A
HOH
1111
5
HOH
HOH
1111
A
HOH
1117
5
HOH
HOH
1117
A
HOH
4
5
HOH
HOH
252
B
HOH
5
5
HOH
HOH
253
B
HOH
6
5
HOH
HOH
254
B
HOH
21
5
HOH
HOH
255
B
HOH
22
5
HOH
HOH
256
B
HOH
24
5
HOH
HOH
257
B
HOH
27
5
HOH
HOH
258
B
HOH
35
5
HOH
HOH
259
B
HOH
36
5
HOH
HOH
260
B
HOH
37
5
HOH
HOH
261
B
HOH
45
5
HOH
HOH
262
B
HOH
46
5
HOH
HOH
263
B
HOH
47
5
HOH
HOH
264
B
HOH
50
5
HOH
HOH
265
B
HOH
51
5
HOH
HOH
266
B
HOH
54
5
HOH
HOH
267
B
HOH
56
5
HOH
HOH
268
B
HOH
58
5
HOH
HOH
269
B
HOH
59
5
HOH
HOH
270
B
HOH
68
5
HOH
HOH
271
B
HOH
69
5
HOH
HOH
272
B
HOH
73
5
HOH
HOH
273
B
HOH
75
5
HOH
HOH
274
B
HOH
77
5
HOH
HOH
275
B
HOH
97
5
HOH
HOH
276
B
HOH
99
5
HOH
HOH
277
B
HOH
100
5
HOH
HOH
278
B
HOH
102
5
HOH
HOH
279
B
HOH
120
5
HOH
HOH
280
B
HOH
126
5
HOH
HOH
281
B
HOH
138
5
HOH
HOH
282
B
HOH
139
5
HOH
HOH
283
B
HOH
140
5
HOH
HOH
284
B
HOH
150
5
HOH
HOH
285
B
HOH
172
5
HOH
HOH
286
B
HOH
223
5
HOH
HOH
287
B
HOH
281
5
HOH
HOH
288
B
HOH
285
5
HOH
HOH
289
B
HOH
293
5
HOH
HOH
290
B
HOH
315
5
HOH
HOH
291
B
HOH
316
5
HOH
HOH
292
B
HOH
319
5
HOH
HOH
293
B
HOH
329
5
HOH
HOH
294
B
HOH
342
5
HOH
HOH
295
B
HOH
355
5
HOH
HOH
296
B
HOH
373
5
HOH
HOH
297
B
HOH
376
5
HOH
HOH
298
B
HOH
377
5
HOH
HOH
299
B
HOH
383
5
HOH
HOH
300
B
HOH
399
5
HOH
HOH
301
B
HOH
401
5
HOH
HOH
302
B
HOH
412
5
HOH
HOH
303
B
HOH
415
5
HOH
HOH
304
B
HOH
418
5
HOH
HOH
305
B
HOH
456
5
HOH
HOH
306
B
HOH
460
5
HOH
HOH
307
B
HOH
468
5
HOH
HOH
308
B
HOH
471
5
HOH
HOH
309
B
HOH
473
5
HOH
HOH
310
B
HOH
497
5
HOH
HOH
311
B
HOH
515
5
HOH
HOH
312
B
HOH
524
5
HOH
HOH
313
B
HOH
532
5
HOH
HOH
314
B
HOH
555
5
HOH
HOH
315
B
HOH
572
5
HOH
HOH
316
B
HOH
579
5
HOH
HOH
317
B
HOH
585
5
HOH
HOH
318
B
HOH
592
5
HOH
HOH
319
B
HOH
596
5
HOH
HOH
320
B
HOH
597
5
HOH
HOH
321
B
HOH
598
5
HOH
HOH
322
B
HOH
599
5
HOH
HOH
323
B
HOH
602
5
HOH
HOH
324
B
HOH
603
5
HOH
HOH
325
B
HOH
605
5
HOH
HOH
326
B
HOH
610
5
HOH
HOH
327
B
HOH
628
5
HOH
HOH
328
B
HOH
633
5
HOH
HOH
329
B
HOH
635
5
HOH
HOH
330
B
HOH
636
5
HOH
HOH
331
B
HOH
639
5
HOH
HOH
332
B
HOH
647
5
HOH
HOH
333
B
HOH
649
5
HOH
HOH
334
B
HOH
650
5
HOH
HOH
335
B
HOH
661
5
HOH
HOH
336
B
HOH
662
5
HOH
HOH
337
B
HOH
677
5
HOH
HOH
338
B
HOH
678
5
HOH
HOH
339
B
HOH
701
5
HOH
HOH
340
B
HOH
718
5
HOH
HOH
341
B
HOH
748
5
HOH
HOH
342
B
HOH
753
5
HOH
HOH
343
B
HOH
754
5
HOH
HOH
344
B
HOH
758
5
HOH
HOH
345
B
HOH
766
5
HOH
HOH
346
B
HOH
781
5
HOH
HOH
347
B
HOH
807
5
HOH
HOH
348
B
HOH
851
5
HOH
HOH
349
B
HOH
852
5
HOH
HOH
350
B
HOH
893
5
HOH
HOH
351
B
HOH
904
5
HOH
HOH
352
B
HOH
911
5
HOH
HOH
353
B
HOH
914
5
HOH
HOH
354
B
HOH
931
5
HOH
HOH
355
B
HOH
934
5
HOH
HOH
356
B
HOH
946
5
HOH
HOH
357
B
HOH
953
5
HOH
HOH
358
B
HOH
960
5
HOH
HOH
359
B
HOH
965
5
HOH
HOH
360
B
HOH
969
5
HOH
HOH
361
B
HOH
970
5
HOH
HOH
362
B
HOH
982
5
HOH
HOH
363
B
HOH
983
5
HOH
HOH
364
B
HOH
989
5
HOH
HOH
365
B
HOH
990
5
HOH
HOH
366
B
HOH
992
5
HOH
HOH
367
B
HOH
1013
5
HOH
HOH
368
B
HOH
1018
5
HOH
HOH
369
B
HOH
1023
5
HOH
HOH
370
B
HOH
1047
5
HOH
HOH
371
B
HOH
1048
5
HOH
HOH
372
B
HOH
1049
5
HOH
HOH
373
B
HOH
1050
5
HOH
HOH
374
B
HOH
1051
5
HOH
HOH
375
B
HOH
1052
5
HOH
HOH
376
B
HOH
1053
5
HOH
HOH
377
B
HOH
1054
5
HOH
HOH
378
B
HOH
1055
5
HOH
HOH
379
B
HOH
1056
5
HOH
HOH
380
B
HOH
1057
5
HOH
HOH
381
B
HOH
1059
5
HOH
HOH
382
B
HOH
1061
5
HOH
HOH
383
B
HOH
1062
5
HOH
HOH
384
B
HOH
1069
5
HOH
HOH
385
B
HOH
1070
5
HOH
HOH
386
B
HOH
1073
5
HOH
HOH
387
B
HOH
1074
5
HOH
HOH
388
B
HOH
1075
5
HOH
HOH
389
B
HOH
1077
5
HOH
HOH
390
B
HOH
1080
5
HOH
HOH
391
B
HOH
1082
5
HOH
HOH
392
B
HOH
1087
5
HOH
HOH
393
B
HOH
1088
5
HOH
HOH
394
B
HOH
1090
5
HOH
HOH
395
B
HOH
1092
5
HOH
HOH
396
B
HOH
1096
5
HOH
HOH
397
B
HOH
1097
5
HOH
HOH
398
B
HOH
1099
5
HOH
HOH
399
B
HOH
1101
5
HOH
HOH
400
B
HOH
1102
5
HOH
HOH
401
B
HOH
1108
5
HOH
HOH
402
B
HOH
1109
5
HOH
HOH
403
B
HOH
1110
5
HOH
HOH
404
B
HOH
1116
5
HOH
HOH
405
B
HOH
1118
5
HOH
HOH
406
B
HOH
1124
5
HOH
HOH
407
B
HOH
1126
5
HOH
HOH
408
B
HOH
1130
5
HOH
HOH
409
B
HOH
1134
5
HOH
HOH
410
B
HOH
1135
5
HOH
HOH
411
B
HOH
1136
5
HOH
HOH
412
B
HOH
1140
5
HOH
HOH
413
B
HOH
1141
5
HOH
HOH
414
B
HOH
1142
5
HOH
HOH
415
B
HOH
1147
5
HOH
HOH
416
B
HOH
1149
5
HOH
HOH
417
B
HOH
1150
5
HOH
HOH
418
B
HOH
1158
5
HOH
HOH
419
B
HOH
1161
5
HOH
HOH
420
B
HOH
1167
5
HOH
HOH
421
B
HOH
1168
5
HOH
HOH
422
B
HOH
1170
5
HOH
HOH
423
B
HOH
1173
5
HOH
HOH
424
B
HOH
1174
5
HOH
HOH
425
B
HOH
1179
5
HOH
HOH
426
B
HOH
1181
5
HOH
HOH
427
B
HOH
1182
5
HOH
HOH
428
B
HOH
1186
5
HOH
HOH
429
B
HOH
1189
5
HOH
HOH
430
B
HOH
1193
5
HOH
HOH
431
B
HOH
1195
5
HOH
HOH
432
B
HOH
1221
5
HOH
HOH
433
B
HOH
1227
5
HOH
HOH
434
B
HOH
1231
5
HOH
HOH
435
B
HOH
1237
5
HOH
HOH
436
B
HOH
1238
5
HOH
HOH
437
B
HOH
1240
5
HOH
HOH
438
B
HOH
1243
5
HOH
HOH
439
B
HOH
1244
5
HOH
HOH
440
B
HOH
1251
5
HOH
HOH
441
B
HOH
1254
5
HOH
HOH
442
B
HOH
1259
5
HOH
HOH
443
B
HOH
1262
5
HOH
HOH
444
B
HOH
1265
5
HOH
HOH
445
B
HOH
1279
5
HOH
HOH
446
B
HOH
1280
5
HOH
HOH
447
B
HOH
1281
5
HOH
HOH
448
B
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
n
6
6
A
n
7
7
A
n
8
8
A
LEU
9
n
9
LEU
9
A
LYS
10
n
10
LYS
10
A
PHE
11
n
11
PHE
11
A
GLN
12
n
12
GLN
12
A
CYS
13
n
13
CYS
13
A
GLY
14
n
14
GLY
14
A
GLN
15
n
15
GLN
15
A
LYS
16
n
16
LYS
16
A
THR
17
n
17
THR
17
A
n
18
18
A
n
19
19
A
n
20
20
A
n
21
21
A
n
22
22
A
n
23
23
A
ILE
16
n
1
ILE
16
B
ILE
17
n
2
ILE
17
B
GLY
18
n
3
GLY
18
B
GLY
19
n
4
GLY
19
B
GLU
20
n
5
GLU
20
B
PHE
21
n
6
PHE
21
B
THR
22
n
7
THR
22
B
THR
23
n
8
THR
23
B
ILE
24
n
9
ILE
24
B
GLU
25
n
10
GLU
25
B
ASN
26
n
11
ASN
26
B
GLN
27
n
12
GLN
27
B
PRO
28
n
13
PRO
28
B
TRP
29
n
14
TRP
29
B
PHE
30
n
15
PHE
30
B
ALA
31
n
16
ALA
31
B
ALA
32
n
17
ALA
32
B
ILE
33
n
18
ILE
33
B
TYR
34
n
19
TYR
34
B
ARG
35
n
20
ARG
35
B
ARG
36
n
21
ARG
36
B
HIS
37
n
22
HIS
37
B
ARG
37
n
23
A
ARG
37
B
GLY
37
n
24
B
GLY
37
B
GLY
37
n
25
C
GLY
37
B
SER
37
n
26
D
SER
37
B
VAL
38
n
27
VAL
38
B
THR
39
n
28
THR
39
B
TYR
40
n
29
TYR
40
B
VAL
41
n
30
VAL
41
B
CYS
42
n
31
CYS
42
B
GLY
43
n
32
GLY
43
B
GLY
44
n
33
GLY
44
B
SER
45
n
34
SER
45
B
LEU
46
n
35
LEU
46
B
MET
47
n
36
MET
47
B
SER
48
n
37
SER
48
B
PRO
49
n
38
PRO
49
B
CYS
50
n
39
CYS
50
B
TRP
51
n
40
TRP
51
B
VAL
52
n
41
VAL
52
B
ILE
53
n
42
ILE
53
B
SER
54
n
43
SER
54
B
ALA
55
n
44
ALA
55
B
THR
56
n
45
THR
56
B
HIS
57
n
46
HIS
57
B
CYS
58
n
47
CYS
58
B
PHE
59
n
48
PHE
59
B
ILE
60
n
49
ILE
60
B
ASP
60
n
50
A
ASP
60
B
TYR
60
n
51
B
TYR
60
B
PRO
60
n
52
C
PRO
60
B
LYS
61
n
53
LYS
61
B
LYS
62
n
54
LYS
62
B
GLU
62
n
55
A
GLU
62
B
ASP
63
n
56
ASP
63
B
TYR
64
n
57
TYR
64
B
ILE
65
n
58
ILE
65
B
VAL
66
n
59
VAL
66
B
TYR
67
n
60
TYR
67
B
LEU
68
n
61
LEU
68
B
GLY
69
n
62
GLY
69
B
ARG
70
n
63
ARG
70
B
SER
71
n
64
SER
71
B
ARG
72
n
65
ARG
72
B
LEU
73
n
66
LEU
73
B
ASN
74
n
67
ASN
74
B
SER
75
n
68
SER
75
B
ASN
76
n
69
ASN
76
B
THR
77
n
70
THR
77
B
GLN
78
n
71
GLN
78
B
GLY
79
n
72
GLY
79
B
GLU
80
n
73
GLU
80
B
MET
81
n
74
MET
81
B
LYS
82
n
75
LYS
82
B
PHE
83
n
76
PHE
83
B
GLU
84
n
77
GLU
84
B
VAL
85
n
78
VAL
85
B
GLU
86
n
79
GLU
86
B
ASN
87
n
80
ASN
87
B
LEU
88
n
81
LEU
88
B
ILE
89
n
82
ILE
89
B
LEU
90
n
83
LEU
90
B
HIS
91
n
84
HIS
91
B
LYS
92
n
85
LYS
92
B
ASP
93
n
86
ASP
93
B
TYR
94
n
87
TYR
94
B
SER
95
n
88
SER
95
B
ALA
96
n
89
ALA
96
B
ASP
97
n
90
ASP
97
B
THR
97
n
91
A
THR
97
B
LEU
97
n
92
B
LEU
97
B
ALA
98
n
93
ALA
98
B
HIS
99
n
94
HIS
99
B
HIS
100
n
95
HIS
100
B
ASN
101
n
96
ASN
101
B
ASP
102
n
97
ASP
102
B
ILE
103
n
98
ILE
103
B
ALA
104
n
99
ALA
104
B
LEU
105
n
100
LEU
105
B
LEU
106
n
101
LEU
106
B
LYS
107
n
102
LYS
107
B
ILE
108
n
103
ILE
108
B
ARG
109
n
104
ARG
109
B
SER
110
n
105
SER
110
B
LYS
110
n
106
A
LYS
110
B
GLU
110
n
107
B
GLU
110
B
GLY
110
n
108
C
GLY
110
B
ARG
110
n
109
D
ARG
110
B
CYS
111
n
110
CYS
111
B
ALA
112
n
111
ALA
112
B
GLN
113
n
112
GLN
113
B
PRO
114
n
113
PRO
114
B
SER
115
n
114
SER
115
B
ARG
116
n
115
ARG
116
B
THR
117
n
116
THR
117
B
ILE
118
n
117
ILE
118
B
GLN
119
n
118
GLN
119
B
THR
120
n
119
THR
120
B
ILE
121
n
120
ILE
121
B
CYS
122
n
121
CYS
122
B
LEU
123
n
122
LEU
123
B
PRO
124
n
123
PRO
124
B
SER
125
n
124
SER
125
B
MET
126
n
125
MET
126
B
TYR
127
n
126
TYR
127
B
ASN
128
n
127
ASN
128
B
ASP
129
n
128
ASP
129
B
PRO
130
n
129
PRO
130
B
GLN
131
n
130
GLN
131
B
PHE
132
n
131
PHE
132
B
GLY
133
n
132
GLY
133
B
THR
134
n
133
THR
134
B
SER
135
n
134
SER
135
B
CYS
136
n
135
CYS
136
B
GLU
137
n
136
GLU
137
B
ILE
138
n
137
ILE
138
B
THR
139
n
138
THR
139
B
GLY
140
n
139
GLY
140
B
PHE
141
n
140
PHE
141
B
GLY
142
n
141
GLY
142
B
LYS
143
n
142
LYS
143
B
GLU
144
n
143
GLU
144
B
ALA
145
n
144
ALA
145
B
SER
146
n
145
SER
146
B
THR
147
n
146
THR
147
B
ASP
148
n
147
ASP
148
B
TYR
149
n
148
TYR
149
B
LEU
150
n
149
LEU
150
B
TYR
151
n
150
TYR
151
B
PRO
152
n
151
PRO
152
B
GLU
153
n
152
GLU
153
B
GLN
154
n
153
GLN
154
B
LEU
155
n
154
LEU
155
B
LYS
156
n
155
LYS
156
B
MET
157
n
156
MET
157
B
THR
158
n
157
THR
158
B
VAL
159
n
158
VAL
159
B
VAL
160
n
159
VAL
160
B
LYS
161
n
160
LYS
161
B
LEU
162
n
161
LEU
162
B
ILE
163
n
162
ILE
163
B
SER
164
n
163
SER
164
B
HIS
165
n
164
HIS
165
B
ARG
166
n
165
ARG
166
B
GLU
167
n
166
GLU
167
B
CYS
168
n
167
CYS
168
B
GLN
169
n
168
GLN
169
B
GLN
170
n
169
GLN
170
B
PRO
170
n
170
A
PRO
170
B
HIS
170
n
171
B
HIS
170
B
TYR
171
n
172
TYR
171
B
TYR
172
n
173
TYR
172
B
GLY
173
n
174
GLY
173
B
SER
174
n
175
SER
174
B
GLU
175
n
176
GLU
175
B
VAL
176
n
177
VAL
176
B
THR
177
n
178
THR
177
B
THR
178
n
179
THR
178
B
LYS
179
n
180
LYS
179
B
MET
180
n
181
MET
180
B
LEU
181
n
182
LEU
181
B
CYS
182
n
183
CYS
182
B
ALA
183
n
184
ALA
183
B
ALA
184
n
185
ALA
184
B
ASP
185
n
186
ASP
185
B
PRO
185
n
187
A
PRO
185
B
GLN
185
n
188
B
GLN
185
B
TRP
186
n
189
TRP
186
B
LYS
187
n
190
LYS
187
B
THR
188
n
191
THR
188
B
ASP
189
n
192
ASP
189
B
ALA
190
n
193
ALA
190
B
CYS
191
n
194
CYS
191
B
GLN
192
n
195
GLN
192
B
GLY
193
n
196
GLY
193
B
ASP
194
n
197
ASP
194
B
SER
195
n
198
SER
195
B
GLY
196
n
199
GLY
196
B
GLY
197
n
200
GLY
197
B
PRO
198
n
201
PRO
198
B
LEU
199
n
202
LEU
199
B
VAL
200
n
203
VAL
200
B
CYS
201
n
204
CYS
201
B
SER
202
n
205
SER
202
B
LEU
203
n
206
LEU
203
B
GLN
204
n
207
GLN
204
B
GLY
205
n
208
GLY
205
B
ARG
206
n
209
ARG
206
B
MET
207
n
210
MET
207
B
THR
208
n
211
THR
208
B
LEU
209
n
212
LEU
209
B
THR
210
n
213
THR
210
B
GLY
211
n
214
GLY
211
B
ILE
212
n
215
ILE
212
B
VAL
213
n
216
VAL
213
B
SER
214
n
217
SER
214
B
TRP
215
n
218
TRP
215
B
GLY
216
n
219
GLY
216
B
ARG
217
n
220
ARG
217
B
GLY
219
n
221
GLY
219
B
CYS
220
n
222
CYS
220
B
ALA
221
n
223
ALA
221
B
LEU
222
n
224
LEU
222
B
LYS
223
n
225
LYS
223
B
ASP
223
n
226
A
ASP
223
B
LYS
224
n
227
LYS
224
B
PRO
225
n
228
PRO
225
B
GLY
226
n
229
GLY
226
B
VAL
227
n
230
VAL
227
B
TYR
228
n
231
TYR
228
B
THR
229
n
232
THR
229
B
ARG
230
n
233
ARG
230
B
VAL
231
n
234
VAL
231
B
SER
232
n
235
SER
232
B
HIS
233
n
236
HIS
233
B
PHE
234
n
237
PHE
234
B
LEU
235
n
238
LEU
235
B
PRO
236
n
239
PRO
236
B
TRP
237
n
240
TRP
237
B
ILE
238
n
241
ILE
238
B
ARG
239
n
242
ARG
239
B
SER
240
n
243
SER
240
B
HIS
241
n
244
HIS
241
B
THR
242
n
245
THR
242
B
LYS
243
n
246
LYS
243
B
n
247
244
B
n
248
245
B
n
249
246
B
n
250
247
B
n
251
248
B
n
252
249
B
n
253
250
B
author_and_software_defined_assembly
PISA
2
dimeric
1620
-3
11940
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
B
N
GLU
20
B
N
GLU
5
B
O
MET
157
B
O
MET
156
B
N
LYS
161
B
N
LYS
160
B
O
ALA
184
B
O
ALA
185
B
N
LEU
181
B
N
LEU
182
B
O
TYR
228
B
O
TYR
231
B
O
VAL
227
B
O
VAL
230
B
N
TRP
215
B
N
TRP
218
B
O
THR
208
B
O
THR
211
B
N
CYS
201
B
N
CYS
204
B
O
VAL
200
B
O
VAL
203
B
N
GLU
137
B
N
GLU
136
B
N
CYS
136
B
N
CYS
135
B
O
VAL
160
B
O
VAL
159
B
N
ILE
33
B
N
ILE
18
B
O
VAL
41
B
O
VAL
30
B
N
SER
45
B
N
SER
34
B
O
ILE
53
B
O
ILE
42
B
N
VAL
52
B
N
VAL
41
B
O
LEU
106
B
O
LEU
101
B
O
LEU
105
B
O
LEU
100
B
N
ILE
89
B
N
ILE
82
B
O
PHE
83
B
O
PHE
76
B
N
VAL
66
B
N
VAL
59
B
O
ILE
65
B
O
ILE
58
B
N
TYR
34
B
N
TYR
19
B
N
SER
95
B
N
SER
88
B
O
HIS
100
B
O
HIS
95
1
A
LYS
1
A
LYS
1
1
Y
1
A
PRO
2
A
PRO
2
1
Y
1
A
SER
3
A
SER
3
1
Y
1
A
SER
4
A
SER
4
1
Y
1
A
PRO
5
A
PRO
5
1
Y
1
A
PRO
6
A
PRO
6
1
Y
1
A
GLU
7
A
GLU
7
1
Y
1
A
GLU
8
A
GLU
8
1
Y
1
A
LEU
18
A
LEU
18
1
Y
1
A
ARG
19
A
ARG
19
1
Y
1
A
PRO
20
A
PRO
20
1
Y
1
A
ARG
21
A
ARG
21
1
Y
1
A
PHE
22
A
PHE
22
1
Y
1
A
LYS
23
A
LYS
23
1
Y
1
B
GLU
244
B
GLU
247
1
Y
1
B
GLU
245
B
GLU
248
1
Y
1
B
ASN
246
B
ASN
249
1
Y
1
B
GLY
247
B
GLY
250
1
Y
1
B
LEU
248
B
LEU
251
1
Y
1
B
ALA
249
B
ALA
252
1
Y
1
B
LEU
250
B
LEU
253
1
Y
1
B
C1B
CR9
251
WRONG HAND
1
B
B
HN3
H2
CR9
HOH
251
300
1.25
1
B
B
HG
O6'
SER
CR9
195
251
1.26
A
1
B
B
OG
H2
SER
HOH
195
300
1.30
A
1
B
B
HG
HN3
SER
CR9
195
251
1.30
A
1
B
B
HZ1
HE1
LYS
TRP
92
237
1.30
1
B
B
OG
HN3
SER
CR9
195
251
1.44
A
1
B
B
HO7
O7
CIT
CIT
1
2
1.48
1
B
B
O
H1
SER
HOH
75
338
1.48
1
B
B
OE1
H1
GLN
HOH
204
408
1.50
1
B
B
O6'
H1
CR9
HOH
251
300
1.50
1
A
A
OE1
H1
GLN
HOH
15
1117
1.53
1
B
B
HE2
O6'
HIS
CR9
57
251
1.54
1
B
B
OG
H1
SER
HOH
146
335
1.58
1
B
B
O
H2
THR
HOH
147
371
1.58
B
1
B
B
O
H2
GLY
HOH
37
360
1.58
B
1
B
B
O
H1
LEU
HOH
97
393
1.59
1
B
B
OG
H1
SER
HOH
75
366
1.59
1
B
B
O7
O7
CIT
CIT
1
2
2.13
1
B
B
OG
O
SER
HOH
195
300
2.18
A
1
B
ARG
35
0.316
SIDE CHAIN
1
B
ARG
109
0.084
SIDE CHAIN
D
1
B
ARG
110
0.138
SIDE CHAIN
1
B
ARG
116
0.104
SIDE CHAIN
1
B
ARG
206
0.150
SIDE CHAIN
1
B
ARG
217
0.125
SIDE CHAIN
1
B
ARG
230
0.148
SIDE CHAIN
1
B
ARG
239
0.225
SIDE CHAIN
1
-7.24
1.00
110.10
102.86
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
29
29
29
N
1
8.87
0.90
109.00
117.87
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
29
29
29
N
1
9.06
1.10
130.40
139.46
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
29
29
29
N
1
-6.28
1.00
107.30
101.02
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
29
29
29
N
1
-5.17
0.50
120.30
115.13
B
B
B
NE
CZ
NH2
ARG
ARG
ARG
36
36
36
N
A
A
A
1
-3.14
0.50
120.30
117.16
B
B
B
NE
CZ
NH2
ARG
ARG
ARG
37
37
37
N
1
-6.93
1.00
110.10
103.17
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
51
51
51
N
1
8.34
0.90
109.00
117.34
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
51
51
51
N
1
9.82
1.10
130.40
140.22
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
51
51
51
N
1
-6.94
1.00
107.30
100.36
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
51
51
51
N
1
-3.47
0.50
120.30
116.83
B
B
B
NE
CZ
NH2
ARG
ARG
ARG
70
70
70
N
1
-3.71
0.50
120.30
116.59
B
B
B
NE
CZ
NH2
ARG
ARG
ARG
109
109
109
N
1
-7.61
1.00
110.10
102.49
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
186
186
186
N
1
9.17
0.90
109.00
118.17
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
186
186
186
N
1
7.91
1.10
130.40
138.31
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
186
186
186
N
1
-6.10
1.00
107.30
101.20
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
186
186
186
N
1
-17.93
2.70
111.00
93.07
B
B
B
N
CA
C
LEU
LEU
LEU
199
199
199
N
1
-16.36
2.70
111.00
94.64
B
B
B
N
CA
C
MET
MET
MET
207
207
207
N
1
-6.52
1.00
110.10
103.58
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
215
215
215
N
1
8.25
0.90
109.00
117.25
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
215
215
215
N
1
7.87
1.10
130.40
138.27
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
215
215
215
N
1
-7.03
1.00
110.10
103.07
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
237
237
237
N
1
8.82
0.90
109.00
117.82
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
237
237
237
N
1
9.28
1.10
130.40
139.68
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
237
237
237
N
1
-6.83
1.00
107.30
100.47
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
237
237
237
N
1
B
B
NE2
CD2
HIS
HIS
37
37
-0.069
0.011
1.373
1.304
N
1
B
B
CG
CD2
HIS
HIS
100
100
0.055
0.009
1.354
1.409
N
1
B
B
CG
CD2
HIS
HIS
165
165
0.061
0.009
1.354
1.415
N
1
B
B
CG
CD2
HIS
HIS
233
233
0.059
0.009
1.354
1.413
N
1
B
B
OD1
H1
ASN
HOH
76
259
1.58
1_555
2_656
1
B
VAL
41
-109.68
-72.89
1
B
SER
54
-147.93
-153.63
C
1
B
PRO
60
-81.91
43.43
1
B
ASP
93
107.73
7.83
B
1
B
LEU
97
122.68
-65.98
1
B
MET
126
-37.60
126.36
1
B
TYR
127
42.19
26.99
1
B
TYR
171
-110.26
-101.02
Only Leu_A9 to Thr_A17 are included for the A-chain.
Residues prior and after these residues are not visible (disordered).
Residues after Lys_B243 are not visible (disordered).
Residues simultaneously refined in two or more conformations are:
Ile_B16, Met_B47, Glu_B84, Glu_B86, Thr_B139, Gln_B192, Leu_B209,
Val_B213, Pro_B225, Leu_B235.
No energy terms are included among HOH_383, and OgSer195, and O6' of the
inhibitor. These atoms form a very short multi-centered hydrogen-bonding network.
HOH_597 makes short hydrogen bonds with the amidine nitrogens of the inhibitor.
Disordered waters are:
AHOH_603 which is close to BHOH_603;
No energy terms between citrate 1 and 2 are included because they are
hydrogen-bonded to one another via short hydrogen bonds
between carboxylate / hydroxyl groups.
0.219
0.191
0.193
1.63
7.0
2410
30598
24059
10
78.63
1
THROUGHOUT
1.00
FOURIER SYNTHESIS
X-PLOR force field
1.63
7.0
618
4790
87
0
4085
0.017
4.0
1.63
41.80
1O5C
31031
30503
0.0
0.073
1
8.0
2.4
98.3
0.4
1.63
1.70
3811
38.36
data collection
CrystalClear
1.3
data reduction
CrystalClear
1.3
refinement
X-PLOR
3.851
data scaling
CrystalClear
(MSC/RIGAKU)
model building
Quanta
Dissecting and Designing Inhibitor Selectivity Determinants at the S1 site Using an Artificial Ala190 Protease (Ala190 uPA)
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
5
N
N
5
N
N
B
THR
23
B
THR
8
HELX_P
B
GLN
27
B
GLN
12
5
1
5
B
ALA
55
B
ALA
44
HELX_P
B
PHE
59
B
PHE
48
5
2
5
B
LYS
61
B
LYS
53
HELX_P
B
GLU
62
B
GLU
55
5
3
3
A
B
SER
164
B
SER
163
HELX_P
B
GLN
169
B
GLN
168
1
4
6
B
TYR
172
B
TYR
173
HELX_P
B
VAL
176
B
VAL
177
5
5
5
B
PHE
234
B
PHE
237
HELX_P
B
THR
242
B
THR
245
1
6
9
disulf
2.004
A
CYS
13
A
SG
CYS
13
1_555
B
CYS
122
B
SG
CYS
121
1_555
disulf
2.023
B
CYS
42
B
SG
CYS
31
1_555
B
CYS
58
B
SG
CYS
47
1_555
disulf
2.018
B
CYS
50
B
SG
CYS
39
1_555
B
CYS
111
B
SG
CYS
110
1_555
disulf
2.011
B
CYS
136
B
SG
CYS
135
1_555
B
CYS
201
B
SG
CYS
204
1_555
disulf
2.020
B
CYS
168
B
SG
CYS
167
1_555
B
CYS
182
B
SG
CYS
183
1_555
disulf
2.039
B
CYS
191
B
SG
CYS
194
1_555
B
CYS
220
B
SG
CYS
222
1_555
BLOOD CLOTTING, hydrolase
Ala190 uPA, S1 site, selectivity, conserved water displacement hydrogen bond deficit, trypsin, thrombin, hepsin, factor VIIa, BLOOD CLOTTING, hydrolase
UROK_HUMAN
UNP
1
156
P00749
KPSSPPEELKFQCGQKTLRPRFK
UROK_HUMAN
UNP
2
179
P00749
IIGGEFTTIENQPWFAAIYRRHRGGSVTYVCGGSLMSPCWVISATHCFIDYPKKEDYIVYLGRSRLNSNTQGEMKFEVEN
LILHKDYSADTLAHHNDIALLKIRSKEGRCAQPSRTIQTICLPSMYNDPQFGTSCEITGFGKENSTDYLYPEQLKMTVVK
LISHRECQQPHYYGSEVTTKMLCAADPQWKTDSCQGDSGGPLVCSLQGRMTLTGIVSWGRGCALKDKPGVYTRVSHFLPW
IRSHTKEENGLAL
156
178
1O5C
1
23
P00749
A
1
1
23
179
431
1O5C
16
250
P00749
B
2
1
253
2
ASN
engineered mutation
ALA
145
1O5C
B
P00749
UNP
322
144
2
SER
engineered mutation
ALA
190
1O5C
B
P00749
UNP
371
193
8
7
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
B
GLU
20
B
GLU
5
B
PHE
21
B
PHE
6
B
LYS
156
B
LYS
155
B
ILE
163
B
ILE
162
B
MET
180
B
MET
181
B
ALA
184
B
ALA
185
B
GLY
226
B
GLY
229
B
ARG
230
B
ARG
233
B
ARG
206
B
ARG
209
B
TRP
215
B
TRP
218
B
PRO
198
B
PRO
201
B
LEU
203
B
LEU
206
B
SER
135
B
SER
134
B
GLY
140
B
GLY
139
B
LYS
156
B
LYS
155
B
ILE
163
B
ILE
162
B
PHE
30
B
PHE
15
B
ARG
36
B
ARG
21
B
VAL
38
B
VAL
27
B
SER
48
B
SER
37
B
TRP
51
B
TRP
40
B
SER
54
B
SER
43
B
ALA
104
B
ALA
99
B
ARG
109
B
ARG
104
B
MET
81
B
MET
74
B
LEU
90
B
LEU
83
B
TYR
64
B
TYR
57
B
LEU
68
B
LEU
61
B
PHE
30
B
PHE
15
B
ARG
36
B
ARG
21
B
SER
95
B
SER
88
B
ALA
96
B
ALA
89
B
HIS
99
B
HIS
94
B
HIS
100
B
HIS
95
BINDING SITE FOR RESIDUE CR9 B 251
B
CR9
251
Software
15
BINDING SITE FOR RESIDUE CIT B 1
B
CIT
1
Software
11
BINDING SITE FOR RESIDUE CIT B 2
B
CIT
2
Software
11
B
VAL
41
B
VAL
30
15
1_555
B
HIS
57
B
HIS
46
15
1_555
B
CYS
58
B
CYS
47
15
1_555
B
ALA
190
B
ALA
193
15
1_555
B
CYS
191
B
CYS
194
15
1_555
B
GLN
192
B
GLN
195
15
1_555
B
SER
195
B
SER
198
15
1_555
B
VAL
213
B
VAL
216
15
1_555
B
TRP
215
B
TRP
218
15
1_555
B
GLY
219
B
GLY
221
15
1_555
B
HOH
266
G
HOH
15
1_555
B
HOH
300
G
HOH
15
1_555
B
HOH
321
G
HOH
15
1_555
B
HOH
322
G
HOH
15
1_555
B
HOH
357
G
HOH
15
1_555
B
CIT
2
E
CIT
11
1_555
B
TYR
67
B
TYR
60
11
1_555
B
LYS
82
B
LYS
75
11
1_555
B
SER
164
B
SER
163
11
3_555
B
HIS
165
B
HIS
164
11
3_555
B
ARG
166
B
ARG
165
11
3_555
B
HOH
260
G
HOH
11
1_555
B
HOH
261
G
HOH
11
3_555
B
HOH
344
G
HOH
11
1_555
B
HOH
351
G
HOH
11
1_555
B
HOH
420
G
HOH
11
2_656
B
CIT
1
D
CIT
11
1_555
B
ARG
36
B
ARG
21
11
1_555
B
LYS
82
B
LYS
75
11
1_555
B
LYS
110
B
LYS
106
A
11
1_555
B
HIS
165
B
HIS
164
11
3_555
B
ARG
166
B
ARG
165
11
3_555
B
ARG
230
B
ARG
233
11
3_555
B
HOH
261
G
HOH
11
3_555
B
HOH
287
G
HOH
11
1_555
B
HOH
351
G
HOH
11
1_555
B
HOH
448
G
HOH
11
1_555
5
monoclinic
C 1 2 1