0.014017
0.000000
0.002682
0.000000
0.013881
0.000000
0.000000
0.000000
0.013957
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
100.83
90.0
71.34
72.04
72.95
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
Ca 2
40.078
CALCIUM ION
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
Na 1
22.990
SODIUM ION
non-polymer
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
C9 H11 N O6 S
261.252
n
O-SULFO-L-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
CA
Y
75
N
C
Y
76
N
C
N
77
N
F
Y
78
N
C
Y
79
N
C
Y
80
N
C
Y
81
N
C
N
82
N
C
N
83
N
N
N
84
N
N
Y
85
N
N
Y
86
N
N
Y
87
N
C
Y
88
N
C
Y
89
N
C
Y
90
N
C
Y
91
N
C
Y
92
N
C
Y
93
N
C
N
94
N
O
N
95
N
O
N
96
S
C
N
97
N
C
N
98
N
C
N
99
N
C
N
100
N
C
N
101
S
C
N
102
N
C
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
N
N
127
R
C
N
128
N
C
N
129
N
O
N
130
N
C
N
131
N
S
N
132
N
O
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
N
N
141
S
C
N
142
N
C
N
143
N
O
N
144
N
C
N
145
N
C
N
146
N
C
N
147
N
O
N
148
N
N
N
149
N
O
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
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
O
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
N
N
180
N
C
N
181
N
C
N
182
N
O
N
183
N
O
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
N
N
190
S
C
N
191
N
C
N
192
N
O
N
193
N
C
Y
194
N
C
Y
195
N
N
Y
196
N
C
Y
197
N
C
Y
198
N
N
N
199
N
O
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
H
N
208
N
H
N
209
N
H
N
210
N
O
N
211
N
H
N
212
N
H
N
213
N
N
N
214
S
C
N
215
N
C
N
216
N
O
N
217
S
C
N
218
N
C
N
219
N
C
N
220
N
C
N
221
N
O
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
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
N
N
236
S
C
N
237
N
C
N
238
N
O
N
239
N
C
N
240
N
C
N
241
N
C
N
242
N
C
N
243
N
O
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
N
N
258
S
C
N
259
N
C
N
260
N
O
N
261
N
C
N
262
N
C
N
263
N
C
N
264
N
C
N
265
N
N
N
266
N
O
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
H
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
N
N
283
S
C
N
284
N
C
N
285
N
O
N
286
N
C
N
287
N
C
N
288
N
S
N
289
N
C
N
290
N
O
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
NA
N
303
N
N
N
304
S
C
N
305
N
C
N
306
N
O
N
307
N
C
Y
308
N
C
Y
309
N
C
Y
310
N
C
Y
311
N
C
Y
312
N
C
Y
313
N
C
N
314
N
O
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
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
N
N
327
S
C
N
328
N
C
N
329
N
O
N
330
N
C
N
331
N
C
N
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
N
N
344
S
C
N
345
N
C
N
346
N
O
N
347
N
C
N
348
N
O
N
349
N
O
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
N
N
358
S
C
N
359
N
C
N
360
N
O
N
361
R
C
N
362
N
O
N
363
N
C
N
364
N
O
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
H
N
372
N
H
N
373
N
H
N
374
N
N
N
375
S
C
N
376
N
C
N
377
N
O
N
378
N
C
Y
379
N
C
Y
380
N
C
Y
381
N
C
Y
382
N
N
Y
383
N
C
Y
384
N
C
Y
385
N
C
Y
386
N
C
Y
387
N
C
N
388
N
O
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
N
N
402
S
C
N
403
N
C
N
404
N
O
N
405
N
C
Y
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
N
412
N
O
N
413
N
O
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
N
N
426
S
C
N
427
N
C
Y
428
N
C
Y
429
N
C
Y
430
N
C
Y
431
N
C
Y
432
N
C
Y
433
N
C
N
434
N
O
N
435
N
S
N
436
N
O
N
437
N
O
N
438
N
O
N
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
Y
70
N
doub
Y
71
N
sing
N
72
N
sing
N
73
N
sing
Y
74
N
sing
Y
75
N
doub
N
76
N
sing
Y
77
N
sing
Y
78
N
sing
Y
79
N
doub
Y
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
doub
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
Y
88
N
sing
N
89
N
sing
Y
90
N
doub
Y
91
N
sing
Y
92
N
doub
Y
93
N
sing
Y
94
N
sing
N
95
N
sing
Y
96
N
doub
N
97
N
sing
Y
98
N
sing
N
99
N
sing
Y
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
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
doub
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
doub
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
sing
N
151
N
doub
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
doub
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
doub
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
doub
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
doub
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
Y
194
N
sing
Y
195
N
doub
Y
196
N
doub
N
197
N
sing
Y
198
N
sing
N
199
N
sing
Y
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
doub
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
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
doub
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
sing
N
254
N
doub
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
doub
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
doub
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
Y
302
N
doub
Y
303
N
sing
Y
304
N
sing
N
305
N
sing
Y
306
N
doub
N
307
N
sing
Y
308
N
doub
N
309
N
sing
Y
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
doub
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
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
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
doub
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
sing
N
366
N
doub
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
Y
371
N
doub
Y
372
N
sing
Y
373
N
sing
N
374
N
sing
Y
375
N
doub
Y
376
N
sing
Y
377
N
sing
N
378
N
sing
Y
379
N
sing
Y
380
N
doub
N
381
N
sing
Y
382
N
doub
N
383
N
sing
Y
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
N
404
N
sing
Y
405
N
doub
N
406
N
sing
Y
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
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
Y
421
N
doub
Y
422
N
sing
Y
423
N
sing
N
424
N
sing
Y
425
N
doub
N
426
N
sing
Y
427
N
doub
N
428
N
sing
Y
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
doub
N
434
N
doub
N
435
N
sing
N
436
N
sing
N
437
N
doub
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
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/pdb1o5g/pdb
pdb_00001o5g
285
Crystal Cooler
1
IMAGE PLATE
2002-05-22
RIGAKU RAXIS IV++
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
4096.534
Prothrombin
3.4.21.5
LIGHT CHAIN, RESIDUES 328-363
1
nat
polymer
29780.219
Prothrombin
3.4.21.5
HEAVY CHAIN, RESIDUES 364-620
1
nat
polymer
1491.528
Hirudin IIIB'
1
syn
polymer
22.990
SODIUM ION
1
syn
non-polymer
40.078
CALCIUM ION
1
syn
non-polymer
382.431
2-{5-[AMINO(IMINIO)METHYL]-6-FLUORO-1H-BENZIMIDAZOL-2-YL}-6-[(2-METHYLCYCLOHEXYL)OXY]BENZENOLATE
1
syn
non-polymer
18.015
water
118
nat
water
Coagulation factor II
Coagulation factor II
E.C.3.4.21.5
E.C.3.4.21.5
no
no
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
L
polypeptide(L)
no
no
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
H
polypeptide(L)
no
yes
DFEEIPEE(TYS)LQ
DFEEIPEEYLQ
I
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
human
Homo
sample
9606
Homo sapiens
human
Homo
sample
9606
Homo sapiens
1
2.60
52.72
VAPOR DIFFUSION
7.50
2-propanol, PEG 4000, pH 6.5, vapor diffusion at 298 K, pH 7.50
298
atom_site
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Other
Other
Atomic model
Data collection
Database references
Derived calculations
1
0
2004-09-21
1
1
2008-04-26
1
2
2011-07-13
1
3
2012-12-12
1
4
2013-03-13
2
0
2023-11-15
_atom_site.auth_atom_id
_atom_site.label_atom_id
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr2_auth_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
the same protein complexed with a different inhibitor
RCSB
Y
RCSB
2003-09-09
REL
REL
NA
SODIUM ION
CA
CALCIUM ION
CR9
2-{5-[AMINO(IMINIO)METHYL]-6-FLUORO-1H-BENZIMIDAZOL-2-YL}-6-[(2-METHYLCYCLOHEXYL)OXY]BENZENOLATE
HOH
water
6421
Hirudo medicinalis
sample
NA
391
4
NA
NA
391
H
CA
392
5
CA
CA
392
H
CR9
246
6
CR9
CR9
393
H
HOH
439
7
HOH
HOH
439
L
HOH
440
7
HOH
HOH
440
L
HOH
449
7
HOH
HOH
449
L
HOH
485
7
HOH
HOH
485
L
HOH
534
7
HOH
HOH
534
L
HOH
599
7
HOH
HOH
599
L
HOH
700
7
HOH
HOH
700
L
HOH
739
7
HOH
HOH
739
L
HOH
1424
7
HOH
HOH
1424
L
HOH
393
7
HOH
HOH
394
H
HOH
394
7
HOH
HOH
395
H
HOH
395
7
HOH
HOH
396
H
HOH
401
7
HOH
HOH
397
H
HOH
402
7
HOH
HOH
398
H
HOH
403
7
HOH
HOH
399
H
HOH
404
7
HOH
HOH
400
H
HOH
405
7
HOH
HOH
401
H
HOH
406
7
HOH
HOH
402
H
HOH
407
7
HOH
HOH
403
H
HOH
408
7
HOH
HOH
404
H
HOH
410
7
HOH
HOH
405
H
HOH
411
7
HOH
HOH
406
H
HOH
412
7
HOH
HOH
407
H
HOH
413
7
HOH
HOH
408
H
HOH
414
7
HOH
HOH
409
H
HOH
415
7
HOH
HOH
410
H
HOH
416
7
HOH
HOH
411
H
HOH
417
7
HOH
HOH
412
H
HOH
418
7
HOH
HOH
413
H
HOH
419
7
HOH
HOH
414
H
HOH
420
7
HOH
HOH
415
H
HOH
421
7
HOH
HOH
416
H
HOH
423
7
HOH
HOH
417
H
HOH
425
7
HOH
HOH
418
H
HOH
426
7
HOH
HOH
419
H
HOH
427
7
HOH
HOH
420
H
HOH
428
7
HOH
HOH
421
H
HOH
430
7
HOH
HOH
422
H
HOH
431
7
HOH
HOH
423
H
HOH
432
7
HOH
HOH
424
H
HOH
435
7
HOH
HOH
425
H
HOH
437
7
HOH
HOH
426
H
HOH
438
7
HOH
HOH
427
H
HOH
442
7
HOH
HOH
428
H
HOH
443
7
HOH
HOH
429
H
HOH
444
7
HOH
HOH
430
H
HOH
445
7
HOH
HOH
431
H
HOH
446
7
HOH
HOH
432
H
HOH
447
7
HOH
HOH
433
H
HOH
450
7
HOH
HOH
434
H
HOH
451
7
HOH
HOH
435
H
HOH
453
7
HOH
HOH
436
H
HOH
455
7
HOH
HOH
437
H
HOH
456
7
HOH
HOH
438
H
HOH
458
7
HOH
HOH
439
H
HOH
461
7
HOH
HOH
440
H
HOH
467
7
HOH
HOH
441
H
HOH
471
7
HOH
HOH
442
H
HOH
473
7
HOH
HOH
443
H
HOH
476
7
HOH
HOH
444
H
HOH
477
7
HOH
HOH
445
H
HOH
479
7
HOH
HOH
446
H
HOH
481
7
HOH
HOH
447
H
HOH
483
7
HOH
HOH
448
H
HOH
486
7
HOH
HOH
449
H
HOH
488
7
HOH
HOH
450
H
HOH
489
7
HOH
HOH
451
H
HOH
490
7
HOH
HOH
452
H
HOH
491
7
HOH
HOH
453
H
HOH
494
7
HOH
HOH
454
H
HOH
495
7
HOH
HOH
455
H
HOH
496
7
HOH
HOH
456
H
HOH
498
7
HOH
HOH
457
H
HOH
500
7
HOH
HOH
458
H
HOH
503
7
HOH
HOH
459
H
HOH
504
7
HOH
HOH
460
H
HOH
507
7
HOH
HOH
461
H
HOH
515
7
HOH
HOH
462
H
HOH
518
7
HOH
HOH
463
H
HOH
527
7
HOH
HOH
464
H
HOH
530
7
HOH
HOH
465
H
HOH
542
7
HOH
HOH
466
H
HOH
547
7
HOH
HOH
467
H
HOH
551
7
HOH
HOH
468
H
HOH
553
7
HOH
HOH
469
H
HOH
557
7
HOH
HOH
470
H
HOH
561
7
HOH
HOH
471
H
HOH
568
7
HOH
HOH
472
H
HOH
577
7
HOH
HOH
473
H
HOH
609
7
HOH
HOH
474
H
HOH
619
7
HOH
HOH
475
H
HOH
620
7
HOH
HOH
476
H
HOH
667
7
HOH
HOH
477
H
HOH
674
7
HOH
HOH
478
H
HOH
747
7
HOH
HOH
479
H
HOH
766
7
HOH
HOH
480
H
HOH
897
7
HOH
HOH
481
H
HOH
1040
7
HOH
HOH
482
H
HOH
1123
7
HOH
HOH
483
H
HOH
1162
7
HOH
HOH
484
H
HOH
1210
7
HOH
HOH
485
H
HOH
1222
7
HOH
HOH
486
H
HOH
1248
7
HOH
HOH
487
H
HOH
1344
7
HOH
HOH
488
H
HOH
1350
7
HOH
HOH
489
H
HOH
1367
7
HOH
HOH
490
H
HOH
1406
7
HOH
HOH
491
H
HOH
1446
7
HOH
HOH
492
H
HOH
1462
7
HOH
HOH
493
H
HOH
1470
7
HOH
HOH
494
H
HOH
1475
7
HOH
HOH
495
H
HOH
1493
7
HOH
HOH
496
H
HOH
1501
7
HOH
HOH
497
H
HOH
1502
7
HOH
HOH
498
H
HOH
1533
7
HOH
HOH
499
H
HOH
1553
7
HOH
HOH
500
H
HOH
1562
7
HOH
HOH
501
H
HOH
520
7
HOH
HOH
520
I
THR
1
n
1
H
THR
1
L
PHE
1
n
2
G
PHE
1
L
GLY
1
n
3
F
GLY
1
L
SER
1
n
4
E
SER
1
L
GLY
1
n
5
D
GLY
1
L
GLU
1
n
6
C
GLU
1
L
ALA
1
n
7
B
ALA
1
L
ASP
1
n
8
A
ASP
1
L
CYS
1
n
9
CYS
1
L
GLY
2
n
10
GLY
2
L
LEU
3
n
11
LEU
3
L
ARG
4
n
12
ARG
4
L
PRO
5
n
13
PRO
5
L
LEU
6
n
14
LEU
6
L
PHE
7
n
15
PHE
7
L
GLU
8
n
16
GLU
8
L
LYS
9
n
17
LYS
9
L
LYS
10
n
18
LYS
10
L
SER
11
n
19
SER
11
L
LEU
12
n
20
LEU
12
L
GLU
13
n
21
GLU
13
L
ASP
14
n
22
ASP
14
L
LYS
14
n
23
A
LYS
14
L
THR
14
n
24
B
THR
14
L
GLU
14
n
25
C
GLU
14
L
ARG
14
n
26
D
ARG
14
L
GLU
14
n
27
E
GLU
14
L
LEU
14
n
28
F
LEU
14
L
LEU
14
n
29
G
LEU
14
L
GLU
14
n
30
H
GLU
14
L
SER
14
n
31
I
SER
14
L
TYR
14
n
32
J
TYR
14
L
ILE
14
n
33
K
ILE
14
L
n
34
15
L
n
35
16
L
n
36
17
L
ILE
16
n
1
ILE
16
H
VAL
17
n
2
VAL
17
H
GLU
18
n
3
GLU
18
H
GLY
19
n
4
GLY
19
H
SER
20
n
5
SER
20
H
ASP
21
n
6
ASP
21
H
ALA
22
n
7
ALA
22
H
GLU
23
n
8
GLU
23
H
ILE
24
n
9
ILE
24
H
GLY
25
n
10
GLY
25
H
MET
26
n
11
MET
26
H
SER
27
n
12
SER
27
H
PRO
28
n
13
PRO
28
H
TRP
29
n
14
TRP
29
H
GLN
30
n
15
GLN
30
H
VAL
31
n
16
VAL
31
H
MET
32
n
17
MET
32
H
LEU
33
n
18
LEU
33
H
PHE
34
n
19
PHE
34
H
ARG
35
n
20
ARG
35
H
LYS
36
n
21
LYS
36
H
SER
36
n
22
A
SER
36
H
PRO
37
n
23
PRO
37
H
GLN
38
n
24
GLN
38
H
GLU
39
n
25
GLU
39
H
LEU
40
n
26
LEU
40
H
LEU
41
n
27
LEU
41
H
CYS
42
n
28
CYS
42
H
GLY
43
n
29
GLY
43
H
ALA
44
n
30
ALA
44
H
SER
45
n
31
SER
45
H
LEU
46
n
32
LEU
46
H
ILE
47
n
33
ILE
47
H
SER
48
n
34
SER
48
H
ASP
49
n
35
ASP
49
H
ARG
50
n
36
ARG
50
H
TRP
51
n
37
TRP
51
H
VAL
52
n
38
VAL
52
H
LEU
53
n
39
LEU
53
H
THR
54
n
40
THR
54
H
ALA
55
n
41
ALA
55
H
ALA
56
n
42
ALA
56
H
HIS
57
n
43
HIS
57
H
CYS
58
n
44
CYS
58
H
LEU
59
n
45
LEU
59
H
LEU
60
n
46
LEU
60
H
TYR
60
n
47
A
TYR
60
H
PRO
60
n
48
B
PRO
60
H
PRO
60
n
49
C
PRO
60
H
TRP
60
n
50
D
TRP
60
H
ASP
60
n
51
E
ASP
60
H
LYS
60
n
52
F
LYS
60
H
ASN
60
n
53
G
ASN
60
H
PHE
60
n
54
H
PHE
60
H
THR
60
n
55
I
THR
60
H
GLU
61
n
56
GLU
61
H
ASN
62
n
57
ASN
62
H
ASP
63
n
58
ASP
63
H
LEU
64
n
59
LEU
64
H
LEU
65
n
60
LEU
65
H
VAL
66
n
61
VAL
66
H
ARG
67
n
62
ARG
67
H
ILE
68
n
63
ILE
68
H
GLY
69
n
64
GLY
69
H
LYS
70
n
65
LYS
70
H
HIS
71
n
66
HIS
71
H
SER
72
n
67
SER
72
H
ARG
73
n
68
ARG
73
H
THR
74
n
69
THR
74
H
ARG
75
n
70
ARG
75
H
TYR
76
n
71
TYR
76
H
GLU
77
n
72
GLU
77
H
ARG
77
n
73
A
ARG
77
H
ASN
78
n
74
ASN
78
H
ILE
79
n
75
ILE
79
H
GLU
80
n
76
GLU
80
H
LYS
81
n
77
LYS
81
H
ILE
82
n
78
ILE
82
H
SER
83
n
79
SER
83
H
MET
84
n
80
MET
84
H
LEU
85
n
81
LEU
85
H
GLU
86
n
82
GLU
86
H
LYS
87
n
83
LYS
87
H
ILE
88
n
84
ILE
88
H
TYR
89
n
85
TYR
89
H
ILE
90
n
86
ILE
90
H
HIS
91
n
87
HIS
91
H
PRO
92
n
88
PRO
92
H
ARG
93
n
89
ARG
93
H
TYR
94
n
90
TYR
94
H
ASN
95
n
91
ASN
95
H
TRP
96
n
92
TRP
96
H
ARG
97
n
93
ARG
97
H
GLU
97
n
94
A
GLU
97
H
ASN
98
n
95
ASN
98
H
LEU
99
n
96
LEU
99
H
ASP
100
n
97
ASP
100
H
ARG
101
n
98
ARG
101
H
ASP
102
n
99
ASP
102
H
ILE
103
n
100
ILE
103
H
ALA
104
n
101
ALA
104
H
LEU
105
n
102
LEU
105
H
MET
106
n
103
MET
106
H
LYS
107
n
104
LYS
107
H
LEU
108
n
105
LEU
108
H
LYS
109
n
106
LYS
109
H
LYS
110
n
107
LYS
110
H
PRO
111
n
108
PRO
111
H
VAL
112
n
109
VAL
112
H
ALA
113
n
110
ALA
113
H
PHE
114
n
111
PHE
114
H
SER
115
n
112
SER
115
H
ASP
116
n
113
ASP
116
H
TYR
117
n
114
TYR
117
H
ILE
118
n
115
ILE
118
H
HIS
119
n
116
HIS
119
H
PRO
120
n
117
PRO
120
H
VAL
121
n
118
VAL
121
H
CYS
122
n
119
CYS
122
H
LEU
123
n
120
LEU
123
H
PRO
124
n
121
PRO
124
H
ASP
125
n
122
ASP
125
H
ARG
126
n
123
ARG
126
H
GLU
127
n
124
GLU
127
H
THR
128
n
125
THR
128
H
ALA
129
n
126
ALA
129
H
ALA
129
n
127
A
ALA
129
H
SER
129
n
128
B
SER
129
H
LEU
129
n
129
C
LEU
129
H
LEU
130
n
130
LEU
130
H
GLN
131
n
131
GLN
131
H
ALA
132
n
132
ALA
132
H
GLY
133
n
133
GLY
133
H
TYR
134
n
134
TYR
134
H
LYS
135
n
135
LYS
135
H
GLY
136
n
136
GLY
136
H
ARG
137
n
137
ARG
137
H
VAL
138
n
138
VAL
138
H
THR
139
n
139
THR
139
H
GLY
140
n
140
GLY
140
H
TRP
141
n
141
TRP
141
H
GLY
142
n
142
GLY
142
H
ASN
143
n
143
ASN
143
H
LEU
144
n
144
LEU
144
H
LYS
145
n
145
LYS
145
H
GLU
146
n
146
GLU
146
H
THR
147
n
147
THR
147
H
n
148
A
147
H
n
149
B
147
H
n
150
C
147
H
n
151
D
147
H
n
152
E
147
H
n
153
F
147
H
n
154
G
147
H
GLY
150
n
155
GLY
150
H
GLN
151
n
156
GLN
151
H
PRO
152
n
157
PRO
152
H
SER
153
n
158
SER
153
H
VAL
154
n
159
VAL
154
H
LEU
155
n
160
LEU
155
H
GLN
156
n
161
GLN
156
H
VAL
157
n
162
VAL
157
H
VAL
158
n
163
VAL
158
H
ASN
159
n
164
ASN
159
H
LEU
160
n
165
LEU
160
H
PRO
161
n
166
PRO
161
H
ILE
162
n
167
ILE
162
H
VAL
163
n
168
VAL
163
H
GLU
164
n
169
GLU
164
H
ARG
165
n
170
ARG
165
H
PRO
166
n
171
PRO
166
H
VAL
167
n
172
VAL
167
H
CYS
168
n
173
CYS
168
H
LYS
169
n
174
LYS
169
H
ASP
170
n
175
ASP
170
H
SER
171
n
176
SER
171
H
THR
172
n
177
THR
172
H
ARG
173
n
178
ARG
173
H
ILE
174
n
179
ILE
174
H
ARG
175
n
180
ARG
175
H
ILE
176
n
181
ILE
176
H
THR
177
n
182
THR
177
H
ASP
178
n
183
ASP
178
H
ASN
179
n
184
ASN
179
H
MET
180
n
185
MET
180
H
PHE
181
n
186
PHE
181
H
CYS
182
n
187
CYS
182
H
ALA
183
n
188
ALA
183
H
GLY
184
n
189
GLY
184
H
TYR
184
n
190
A
TYR
184
H
LYS
185
n
191
LYS
185
H
PRO
186
n
192
PRO
186
H
ASP
186
n
193
A
ASP
186
H
GLU
186
n
194
B
GLU
186
H
GLY
186
n
195
C
GLY
186
H
LYS
186
n
196
D
LYS
186
H
ARG
187
n
197
ARG
187
H
GLY
188
n
198
GLY
188
H
ASP
189
n
199
ASP
189
H
ALA
190
n
200
ALA
190
H
CYS
191
n
201
CYS
191
H
GLU
192
n
202
GLU
192
H
GLY
193
n
203
GLY
193
H
ASP
194
n
204
ASP
194
H
SER
195
n
205
SER
195
H
GLY
196
n
206
GLY
196
H
GLY
197
n
207
GLY
197
H
PRO
198
n
208
PRO
198
H
PHE
199
n
209
PHE
199
H
VAL
200
n
210
VAL
200
H
MET
201
n
211
MET
201
H
LYS
202
n
212
LYS
202
H
SER
203
n
213
SER
203
H
PRO
204
n
214
PRO
204
H
PHE
204
n
215
A
PHE
204
H
ASN
204
n
216
B
ASN
204
H
ASN
205
n
217
ASN
205
H
ARG
206
n
218
ARG
206
H
TRP
207
n
219
TRP
207
H
TYR
208
n
220
TYR
208
H
GLN
209
n
221
GLN
209
H
MET
210
n
222
MET
210
H
GLY
211
n
223
GLY
211
H
ILE
212
n
224
ILE
212
H
VAL
213
n
225
VAL
213
H
SER
214
n
226
SER
214
H
TRP
215
n
227
TRP
215
H
GLY
216
n
228
GLY
216
H
GLU
217
n
229
GLU
217
H
GLY
219
n
230
GLY
219
H
CYS
220
n
231
CYS
220
H
ASP
221
n
232
ASP
221
H
ARG
221
n
233
A
ARG
221
H
ASP
222
n
234
ASP
222
H
GLY
223
n
235
GLY
223
H
LYS
224
n
236
LYS
224
H
TYR
225
n
237
TYR
225
H
GLY
226
n
238
GLY
226
H
PHE
227
n
239
PHE
227
H
TYR
228
n
240
TYR
228
H
THR
229
n
241
THR
229
H
HIS
230
n
242
HIS
230
H
VAL
231
n
243
VAL
231
H
PHE
232
n
244
PHE
232
H
ARG
233
n
245
ARG
233
H
LEU
234
n
246
LEU
234
H
LYS
235
n
247
LYS
235
H
LYS
236
n
248
LYS
236
H
TRP
237
n
249
TRP
237
H
ILE
238
n
250
ILE
238
H
GLN
239
n
251
GLN
239
H
LYS
240
n
252
LYS
240
H
VAL
241
n
253
VAL
241
H
ILE
242
n
254
ILE
242
H
ASP
243
n
255
ASP
243
H
GLN
244
n
256
GLN
244
H
PHE
245
n
257
PHE
245
H
n
258
246
H
n
259
247
H
ASP
55
n
1
ASP
55
I
PHE
56
n
2
PHE
56
I
GLU
57
n
3
GLU
57
I
GLU
58
n
4
GLU
58
I
ILE
59
n
5
ILE
59
I
PRO
60
n
6
PRO
60
I
GLU
61
n
7
GLU
61
I
GLU
62
n
8
GLU
62
I
STY
63
n
9
TYS
63
I
LEU
64
n
10
LEU
64
I
GLN
65
n
11
GLN
65
I
author_and_software_defined_assembly
PISA
3
trimeric
5050
-30
12740
A
H
PHE
204
B
O
PHE
215
1_555
H
CA
392
E
CA
CA
1_555
H
HOH
424
H
O
HOH
1_555
172.1
A
H
PHE
204
B
O
PHE
215
1_555
H
CA
392
E
CA
CA
1_555
H
HOH
477
H
O
HOH
1_555
81.3
H
HOH
424
H
O
HOH
1_555
H
CA
392
E
CA
CA
1_555
H
HOH
477
H
O
HOH
1_555
104.2
A
H
PHE
204
B
O
PHE
215
1_555
H
CA
392
E
CA
CA
1_555
H
HOH
484
H
O
HOH
1_555
81.2
H
HOH
424
H
O
HOH
1_555
H
CA
392
E
CA
CA
1_555
H
HOH
484
H
O
HOH
1_555
92.5
H
HOH
477
H
O
HOH
1_555
H
CA
392
E
CA
CA
1_555
H
HOH
484
H
O
HOH
1_555
96.7
A
H
ARG
221
B
O
ARG
233
1_555
H
NA
391
D
NA
NA
1_555
H
LYS
224
B
O
LYS
236
1_555
96.9
A
H
ARG
221
B
O
ARG
233
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
411
H
O
HOH
1_555
161.3
H
LYS
224
B
O
LYS
236
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
411
H
O
HOH
1_555
69.0
A
H
ARG
221
B
O
ARG
233
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
414
H
O
HOH
1_555
88.3
H
LYS
224
B
O
LYS
236
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
414
H
O
HOH
1_555
90.4
H
HOH
411
H
O
HOH
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
414
H
O
HOH
1_555
79.9
A
H
ARG
221
B
O
ARG
233
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
431
H
O
HOH
1_555
89.8
H
LYS
224
B
O
LYS
236
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
431
H
O
HOH
1_555
166.7
H
HOH
411
H
O
HOH
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
431
H
O
HOH
1_555
101.8
H
HOH
414
H
O
HOH
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
431
H
O
HOH
1_555
78.3
A
H
ARG
221
B
O
ARG
233
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
433
H
O
HOH
1_555
89.8
H
LYS
224
B
O
LYS
236
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
433
H
O
HOH
1_555
82.9
H
HOH
411
H
O
HOH
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
433
H
O
HOH
1_555
100.1
H
HOH
414
H
O
HOH
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
433
H
O
HOH
1_555
172.7
H
HOH
431
H
O
HOH
1_555
H
NA
391
D
NA
NA
1_555
H
HOH
433
H
O
HOH
1_555
108.7
I
TYS
63
O-SULFO-L-TYROSINE
C
TYS
9
TYR
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
H
N
SER
20
B
N
SER
5
H
O
VAL
157
B
O
VAL
162
H
O
LEU
160
B
O
LEU
165
H
N
GLY
136
B
N
GLY
136
H
N
ARG
137
B
N
ARG
137
H
O
VAL
200
B
O
VAL
210
H
N
MET
201
B
N
MET
211
H
O
TYR
208
B
O
TYR
220
H
N
TRP
215
B
N
TRP
227
H
O
PHE
227
B
O
PHE
239
H
O
TYR
228
B
O
TYR
240
H
N
PHE
181
B
N
PHE
186
H
O
LYS
81
B
O
LYS
77
H
N
ILE
68
B
N
ILE
63
H
O
LEU
65
B
O
LEU
60
H
N
PHE
34
B
N
PHE
19
H
N
LEU
33
B
N
LEU
18
H
O
LEU
41
B
O
LEU
27
H
N
SER
45
B
N
SER
31
H
O
LEU
53
B
O
LEU
39
H
N
THR
54
B
N
THR
40
H
O
ALA
104
B
O
ALA
101
H
O
LYS
107
B
O
LYS
104
H
N
LYS
87
B
N
LYS
83
A
H
N
TYR
60
B
N
TYR
47
F
H
O
LYS
60
B
O
LYS
52
1
H
HOH
394
H
HOH
1
H
HOH
395
H
HOH
1
H
HOH
396
H
HOH
1
L
ASP
15
A
ASP
34
1
Y
1
L
GLY
16
A
GLY
35
1
Y
1
L
ARG
17
A
ARG
36
1
Y
A
1
H
TRP
147
B
TRP
148
1
Y
B
1
H
THR
147
B
THR
149
1
Y
C
1
H
ALA
147
B
ALA
150
1
Y
D
1
H
ASN
147
B
ASN
151
1
Y
E
1
H
VAL
147
B
VAL
152
1
Y
F
1
H
GLY
147
B
GLY
153
1
Y
G
1
H
LYS
147
B
LYS
154
1
Y
1
H
GLY
246
B
GLY
258
1
Y
1
H
GLU
247
B
GLU
259
1
Y
1
H
C6B
CR9
393
WRONG HAND
1
H
H
HG
HN3
SER
CR9
195
393
1.07
1
H
H
OG
H2
SER
HOH
195
445
1.20
1
H
H
HG
O6'
SER
CR9
195
393
1.20
1
H
H
OG
HN3
SER
CR9
195
393
1.38
1
H
H
O6'
H1
CR9
HOH
393
445
1.45
1
H
H
OG1
H2
THR
HOH
74
451
1.52
1
H
H
O
H1
LYS
HOH
110
481
1.53
1
H
H
O
H2
ALA
HOH
113
473
1.57
1
H
H
F2
H1
CR9
HOH
393
475
1.57
1
H
H
OH
H2
TYR
HOH
225
491
1.57
1
H
H
O
H1
VAL
HOH
163
413
1.58
1
H
H
OG
O
SER
HOH
195
445
2.03
D
1
L
ARG
14
0.099
SIDE CHAIN
1
H
ARG
35
0.078
SIDE CHAIN
1
H
ARG
50
0.099
SIDE CHAIN
1
H
ARG
67
0.191
SIDE CHAIN
1
H
ARG
75
0.146
SIDE CHAIN
1
H
ARG
93
0.259
SIDE CHAIN
1
H
ARG
126
0.230
SIDE CHAIN
1
H
ARG
173
0.208
SIDE CHAIN
1
H
ARG
187
0.188
SIDE CHAIN
A
1
H
ARG
221
0.110
SIDE CHAIN
1
H
ARG
233
0.156
SIDE CHAIN
F
F
F
1
-22.26
2.50
113.10
90.84
L
L
L
N
CA
C
GLY
GLY
GLY
1
1
1
N
1
-3.57
0.50
120.30
116.73
L
L
L
NE
CZ
NH2
ARG
ARG
ARG
4
4
4
N
1
-3.56
0.50
120.30
116.74
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
35
35
35
N
A
A
A
1
-5.13
0.50
120.30
115.17
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
77
77
77
N
1
-3.05
0.50
120.30
117.25
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
97
97
97
N
1
-4.34
0.50
120.30
115.96
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
101
101
101
N
1
8.16
1.10
114.20
122.36
H
H
H
CA
CB
SG
CYS
CYS
CYS
122
122
122
N
1
-3.76
0.60
121.00
117.24
H
H
H
CB
CG
CD2
TYR
TYR
TYR
134
134
134
N
1
-3.12
0.50
120.30
117.18
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
173
173
173
N
1
7.43
1.10
114.20
121.63
H
H
H
CA
CB
SG
CYS
CYS
CYS
182
182
182
N
1
-4.09
0.50
120.30
116.21
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
187
187
187
N
1
-19.12
2.70
111.00
91.88
H
H
H
N
CA
C
PHE
PHE
PHE
199
199
199
N
1
-4.19
0.50
120.30
116.11
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
206
206
206
N
1
H
H
NE2
CD2
HIS
HIS
91
91
-0.086
0.011
1.373
1.287
N
1
H
H
NE2
CD2
HIS
HIS
230
230
-0.067
0.011
1.373
1.306
N
E
1
L
SER
1
-124.76
-65.44
C
1
L
GLU
1
-72.01
30.24
B
1
L
ALA
1
67.86
-44.91
1
L
PHE
7
-126.24
-88.95
A
1
H
TYR
60
-152.21
78.12
G
1
H
ASN
60
-161.30
82.89
1
H
HIS
71
-131.25
-55.46
1
H
ASN
78
71.20
-4.54
A
1
H
ASP
186
-95.57
52.19
1
H
SER
195
-39.95
140.60
Asp_H21, Met_H84, His_H119, Val_H157 were simultaneously refined in two conformations.
Residues after Ile_L16K (light chain) have weak or no density, and are
not included in the model.
Density is absent for the last two residues of the heavy chain, which
are not included in the model.
No density was observed for Thr147, Trp148, Thr149, Ala149A, Asn149B, Val149C,
Gly149D, and Lys149E in the autolysis loop, and these residues are not
included in the model.
In the non-active site peptide inhibitor (acetylhirudin)
the tyrosine hydroxyl is sulfonated.
HOH477, OgSer195 and O6' and N3 of the inhibitor make a 3-centered short
hydrogen bond array.
Disordered waters include:
HOH_395 is close to a symmetry related equivalent of itself.
AHOH_393 is close to BHOH_393.
AHOH_394 is close to a symmetry related equivalent of itself.
BHOH_395 is close to a symmetry related equivalent of itself.
HOH_393, HOH_394, and HOH_395 form a cluster of density
Density for these "waters" is greater than for real waters,
so occupancies were refined.
AHOH_674 is close to BHOH_674.
0.238
0.208
0.21
1.75
7.0
2688
36036
26771
10
74.29
1
THROUGHOUT
1.10
FOURIER SYNTHESIS
X-PLOR force field
1.75
7.0
118
2540
30
0
2392
0.018
3.6
1.75
27.69
1O5G
36636
35940
0.00
0.068
1
7.1
3.0
98.10
0.418
1.75
1.83
1.0
4480
1
39.06
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
5
N
N
6
N
N
7
N
N
7
N
N
7
N
N
L
PHE
7
A
PHE
15
HELX_P
L
SER
11
A
SER
19
5
1
5
L
THR
14
A
THR
24
HELX_P
L
TYR
14
A
TYR
32
1
2
9
B
J
H
ALA
55
B
ALA
41
HELX_P
H
CYS
58
B
CYS
44
5
3
4
H
PRO
60
B
PRO
48
HELX_P
H
ASP
60
B
ASP
51
5
4
4
B
E
H
THR
60
B
THR
55
HELX_P
H
ASN
62
B
ASN
57
5
5
3
I
H
ASP
125
B
ASP
122
HELX_P
H
LEU
130
B
LEU
130
1
6
9
H
GLU
164
B
GLU
169
HELX_P
H
ASP
170
B
ASP
175
1
7
7
H
LYS
185
B
LYS
191
HELX_P
H
GLY
186
B
GLY
195
5
8
5
C
H
VAL
231
B
VAL
243
HELX_P
H
ASP
243
B
ASP
255
1
9
13
I
PRO
60
C
PRO
6
HELX_P
I
LEU
64
C
LEU
10
5
10
5
disulf
2.012
L
CYS
1
A
SG
CYS
9
1_555
H
CYS
122
B
SG
CYS
119
1_555
disulf
2.031
H
CYS
42
B
SG
CYS
28
1_555
H
CYS
58
B
SG
CYS
44
1_555
disulf
2.024
H
CYS
168
B
SG
CYS
173
1_555
H
CYS
182
B
SG
CYS
187
1_555
disulf
2.029
H
CYS
191
B
SG
CYS
201
1_555
H
CYS
220
B
SG
CYS
231
1_555
covale
1.306
both
I
GLU
62
C
C
GLU
8
1_555
I
TYS
63
C
N
TYS
9
1_555
covale
1.293
both
I
TYS
63
C
C
TYS
9
1_555
I
LEU
64
C
N
LEU
10
1_555
metalc
2.434
A
H
PHE
204
B
O
PHE
215
1_555
H
CA
392
E
CA
CA
1_555
metalc
2.477
A
H
ARG
221
B
O
ARG
233
1_555
H
NA
391
D
NA
NA
1_555
metalc
2.484
H
LYS
224
B
O
LYS
236
1_555
H
NA
391
D
NA
NA
1_555
metalc
2.668
H
NA
391
D
NA
NA
1_555
H
HOH
411
H
O
HOH
1_555
metalc
2.962
H
NA
391
D
NA
NA
1_555
H
HOH
414
H
O
HOH
1_555
metalc
2.589
H
NA
391
D
NA
NA
1_555
H
HOH
431
H
O
HOH
1_555
metalc
2.540
H
NA
391
D
NA
NA
1_555
H
HOH
433
H
O
HOH
1_555
metalc
2.396
H
CA
392
E
CA
CA
1_555
H
HOH
424
H
O
HOH
1_555
metalc
2.440
H
CA
392
E
CA
CA
1_555
H
HOH
477
H
O
HOH
1_555
metalc
2.399
H
CA
392
E
CA
CA
1_555
H
HOH
484
H
O
HOH
1_555
BLOOD CLOTTING,HYDROLASE/INHIBITOR
Ala190 uPA, S1 site, selectivity, conserved water displacement hydrogen bond deficit, trypsin, thrombin, hepsin, factor VIIa, BLOOD CLOTTING, hydrolase, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, HYDROLASE-INHIBITOR complex
H
SER
36
B
SER
22
A
1
H
PRO
37
B
PRO
23
-14.20
THRB_HUMAN
UNP
1
328
P00734
THRB_HUMAN
UNP
2
364
P00734
ITHK_HIRME
UNP
3
55
P28511
328
363
1O5G
1
17
P00734
H
L
1
1
36
364
622
1O5G
16
247
P00734
H
2
1
259
55
65
1O5G
55
65
P28511
I
3
1
11
3
TYR
modified residue
TYS
63
1O5G
I
P28511
UNP
63
9
7
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
H
SER
20
B
SER
5
H
ASP
21
B
ASP
6
H
GLN
156
B
GLN
161
H
PRO
161
B
PRO
166
H
LYS
135
B
LYS
135
H
GLY
140
B
GLY
140
H
PRO
198
B
PRO
208
H
LYS
202
B
LYS
212
H
TRP
207
B
TRP
219
H
TRP
215
B
TRP
227
H
GLY
226
B
GLY
238
H
HIS
230
B
HIS
242
H
MET
180
B
MET
185
H
ALA
183
B
ALA
188
H
LYS
81
B
LYS
77
H
SER
83
B
SER
79
H
LEU
64
B
LEU
59
H
ILE
68
B
ILE
63
H
GLN
30
B
GLN
15
H
ARG
35
B
ARG
20
H
GLU
39
B
GLU
25
H
LEU
46
B
LEU
32
H
TRP
51
B
TRP
37
H
THR
54
B
THR
40
H
ALA
104
B
ALA
101
H
LEU
108
B
LEU
105
H
LEU
85
B
LEU
81
H
ILE
90
B
ILE
86
H
LEU
60
B
LEU
46
H
TYR
60
B
TYR
47
A
H
LYS
60
B
LYS
52
H
ASN
60
B
ASN
53
F
G
BINDING SITE FOR RESIDUE NA H 391
H
NA
391
Software
6
BINDING SITE FOR RESIDUE CA H 392
H
CA
392
Software
6
BINDING SITE FOR RESIDUE CR9 H 393
H
CR9
393
Software
14
BINDING SITE FOR CHAIN I OF HIRUDIN IIIB'
Software
17
H
ARG
221
B
ARG
233
A
6
1_555
H
LYS
224
B
LYS
236
6
1_555
H
HOH
411
H
HOH
6
1_555
H
HOH
414
H
HOH
6
1_555
H
HOH
431
H
HOH
6
1_555
H
HOH
433
H
HOH
6
1_555
H
LYS
169
B
LYS
174
6
4_556
H
THR
172
B
THR
177
6
4_556
H
PHE
204
B
PHE
215
A
6
1_555
H
HOH
424
H
HOH
6
1_555
H
HOH
477
H
HOH
6
1_555
H
HOH
484
H
HOH
6
1_555
H
LEU
41
B
LEU
27
14
1_555
H
HIS
57
B
HIS
43
14
1_555
H
CYS
58
B
CYS
44
14
1_555
H
LYS
60
B
LYS
52
F
14
1_555
H
ASP
189
B
ASP
199
14
1_555
H
ALA
190
B
ALA
200
14
1_555
H
GLU
192
B
GLU
202
14
1_555
H
SER
195
B
SER
205
14
1_555
H
VAL
213
B
VAL
225
14
1_555
H
GLY
219
B
GLY
230
14
1_555
H
GLY
226
B
GLY
238
14
1_555
H
HOH
445
H
HOH
14
1_555
H
HOH
475
H
HOH
14
1_555
H
HOH
476
H
HOH
14
1_555
H
PHE
34
B
PHE
19
17
1_555
H
LYS
36
B
LYS
21
17
1_555
H
GLN
38
B
GLN
24
17
1_555
H
LEU
40
B
LEU
26
17
1_555
H
LEU
65
B
LEU
60
17
1_555
H
ARG
67
B
ARG
62
17
1_555
H
ARG
73
B
ARG
68
17
1_555
H
THR
74
B
THR
69
17
1_555
H
ARG
75
B
ARG
70
17
1_555
H
ARG
75
B
ARG
70
17
2_555
H
TYR
76
B
TYR
71
17
1_555
H
LYS
81
B
LYS
77
17
1_555
H
ILE
82
B
ILE
78
17
1_555
H
MET
84
B
MET
80
17
1_555
H
HOH
442
H
HOH
17
1_555
H
HOH
487
H
HOH
17
2_555
I
HOH
520
I
HOH
17
1_555
5
monoclinic
C 1 2 1