0.014124
0.000000
0.002541
0.000000
0.013889
0.000000
0.000000
0.000000
0.013938
0.00000
0.00000
0.00000
Slon-Usakiewicz, J.J.
Sivaraman, J.
Li, Y.
Cygler, M.
Konishi, Y.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
100.20
90.00
70.800
72.000
72.900
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C10 H14 O3 S
214.281
4-TERT-BUTYLBENZENESULFONIC ACID
non-polymer
C6 H11 N O2
129.157
6-CARBOXYPIPERIDINE
D-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C12 H25 N O2
215.332
12-AMINO-DODECANOIC ACID
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
C7 H9 N O2 S
171.217
n
BETA(2-THIENYL)ALANINE
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
C
N
76
N
C
N
77
N
C
Y
78
N
C
Y
79
N
C
Y
80
N
C
Y
81
N
C
Y
82
N
C
Y
83
N
C
N
84
N
S
N
85
N
O
N
86
N
O
N
87
N
O
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
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
N
N
103
N
C
N
104
N
C
N
105
N
C
N
106
N
C
N
107
R
C
N
108
N
C
N
109
N
O
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
O
N
121
N
H
N
122
N
N
N
123
R
C
N
124
N
C
N
125
N
O
N
126
N
C
N
127
N
S
N
128
N
O
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
N
N
137
N
C
N
138
N
C
N
139
N
C
N
140
N
C
N
141
N
C
N
142
N
C
N
143
N
C
N
144
N
C
N
145
N
C
N
146
N
C
N
147
N
C
N
148
N
C
N
149
N
O
N
150
N
O
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
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
N
N
177
S
C
N
178
N
C
N
179
N
O
N
180
N
C
N
181
N
C
N
182
N
C
N
183
N
O
N
184
N
N
N
185
N
O
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
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
N
N
197
S
C
N
198
N
C
N
199
N
O
N
200
N
C
N
201
N
C
N
202
N
C
N
203
N
O
N
204
N
O
N
205
N
O
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
N
N
216
N
C
N
217
N
C
N
218
N
O
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
N
N
226
S
C
N
227
N
C
N
228
N
O
N
229
N
C
Y
230
N
C
Y
231
N
N
Y
232
N
C
Y
233
N
C
Y
234
N
N
N
235
N
O
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
O
N
247
N
H
N
248
N
H
N
249
N
N
N
250
S
C
N
251
N
C
N
252
N
O
N
253
S
C
N
254
N
C
N
255
N
C
N
256
N
C
N
257
N
O
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
N
N
N
272
S
C
N
273
N
C
N
274
N
O
N
275
N
C
N
276
N
C
N
277
N
C
N
278
N
C
N
279
N
O
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
N
N
294
S
C
N
295
N
C
N
296
N
O
N
297
N
C
N
298
N
C
N
299
N
C
N
300
N
C
N
301
N
N
N
302
N
O
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
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
N
N
319
S
C
N
320
N
C
N
321
N
O
N
322
N
C
N
323
N
C
N
324
N
S
N
325
N
C
N
326
N
O
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
N
N
339
S
C
N
340
N
C
N
341
N
O
N
342
N
C
Y
343
N
C
Y
344
N
C
Y
345
N
C
Y
346
N
C
Y
347
N
C
Y
348
N
C
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
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
N
N
362
S
C
N
363
N
C
N
364
N
O
N
365
N
C
N
366
N
C
N
367
N
C
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
H
N
377
N
H
N
378
N
N
N
379
S
C
N
380
N
C
N
381
N
O
N
382
N
C
N
383
N
O
N
384
N
O
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
N
N
393
S
C
N
394
N
C
N
395
N
O
N
396
R
C
N
397
N
O
N
398
N
C
N
399
N
O
N
400
N
H
N
401
N
H
N
402
N
H
N
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
N
N
410
S
C
N
411
N
C
N
412
N
O
N
413
N
O
N
414
N
C
Y
415
N
C
Y
416
N
C
Y
417
N
C
Y
418
N
C
Y
419
N
S
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
N
N
430
S
C
N
431
N
C
N
432
N
O
N
433
N
C
Y
434
N
C
Y
435
N
C
Y
436
N
C
Y
437
N
N
Y
438
N
C
Y
439
N
C
Y
440
N
C
Y
441
N
C
Y
442
N
C
N
443
N
O
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
H
N
454
N
H
N
455
N
H
N
456
N
N
N
457
S
C
N
458
N
C
N
459
N
O
N
460
N
C
Y
461
N
C
Y
462
N
C
Y
463
N
C
Y
464
N
C
Y
465
N
C
Y
466
N
C
N
467
N
O
N
468
N
O
N
469
N
H
N
470
N
H
N
471
N
H
N
472
N
H
N
473
N
H
N
474
N
H
N
475
N
H
N
476
N
H
N
477
N
H
N
478
N
H
N
479
N
H
N
480
N
N
N
481
S
C
N
482
N
C
N
483
N
O
N
484
N
C
N
485
N
C
N
486
N
C
N
487
N
O
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
H
N
497
N
H
N
498
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
Y
83
N
doub
Y
84
N
sing
N
85
N
sing
Y
86
N
sing
N
87
N
sing
Y
88
N
doub
N
89
N
sing
Y
90
N
sing
N
91
N
sing
Y
92
N
doub
N
93
N
sing
N
94
N
doub
N
95
N
doub
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
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
doub
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
doub
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
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
doub
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
doub
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
doub
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
doub
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
doub
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
sing
N
213
N
doub
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
doub
N
223
N
sing
N
224
N
sing
N
225
N
sing
N
226
N
sing
Y
227
N
sing
Y
228
N
doub
Y
229
N
doub
N
230
N
sing
Y
231
N
sing
N
232
N
sing
Y
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
doub
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
doub
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
doub
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
doub
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
doub
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
Y
335
N
doub
Y
336
N
sing
Y
337
N
sing
N
338
N
sing
Y
339
N
doub
N
340
N
sing
Y
341
N
doub
N
342
N
sing
Y
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
doub
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
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
doub
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
doub
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
Y
405
N
doub
Y
406
N
sing
Y
407
N
sing
N
408
N
sing
Y
409
N
doub
N
410
N
sing
Y
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
doub
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
Y
424
N
doub
Y
425
N
sing
Y
426
N
sing
N
427
N
sing
Y
428
N
doub
Y
429
N
sing
Y
430
N
sing
N
431
N
sing
Y
432
N
sing
Y
433
N
doub
N
434
N
sing
Y
435
N
doub
N
436
N
sing
Y
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
doub
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
451
N
sing
Y
452
N
doub
Y
453
N
sing
Y
454
N
sing
N
455
N
sing
Y
456
N
doub
N
457
N
sing
Y
458
N
doub
N
459
N
sing
Y
460
N
sing
N
461
N
sing
N
462
N
sing
N
463
N
sing
N
464
N
sing
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
N
470
N
sing
N
471
N
doub
N
472
N
sing
N
473
N
sing
N
474
N
sing
N
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
US
Biochemistry
BICHAW
0033
0006-2960
39
2384
2391
10.1021/bi992419b
10694407
Design of P1' and P3' residues of trivalent thrombin inhibitors and their crystal structures.
2000
10.2210/pdb1eoj/pdb
pdb_00001eoj
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
298.0
1
IMAGE PLATE
1996-03-18
RIGAKU RAXIS IIC
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RU300
33208.094
ALPHA THROMBIN
3.4.21.5
1
nat
polymer
1877.203
THROMBIN INHIBITOR P798
1
syn
polymer
18.015
water
160
nat
water
no
no
GGADCGLRPLFEKKSLEDKTERELLESYIDGRIVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYP
PWDKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAAS
LLQAGYKGRVTGWGNLKETWTANVGKGQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGP
FVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQF
GGADCGLRPLFEKKSLEDKTERELLESYIDGRIVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYP
PWDKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAAS
LLQAGYKGRVTGWGNLKETWTANVGKGQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGP
FVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQF
A
polypeptide(L)
no
yes
(BBS)R(CPI)(TIH)(DOA)DYEPIPEEA
XRXAXDYEPIPEEA
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
n
n
n
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
1
2.62
53.04
VAPOR DIFFUSION, HANGING DROP
5.5
PEG 4000, Potassium sulfate, citric acid pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
291
software
atom_site
chem_comp_atom
chem_comp_bond
database_2
pdbx_validate_main_chain_plane
pdbx_validate_rmsd_angle
pdbx_validate_torsion
struct_conn
struct_ref_seq_dif
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Refinement description
Atomic model
Data collection
Database references
Derived calculations
1
0
2000-05-03
1
1
2008-04-27
1
2
2011-07-13
1
3
2017-10-04
2
0
2023-11-15
_atom_site.auth_atom_id
_atom_site.label_atom_id
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
Thrombin - hirutonin-2 complex
RCSB
Y
RCSB
2000-03-23
REL
REL
HOH
water
This sequence was chemically synthesized
sample
HOH
246
3
HOH
HOH
246
A
HOH
247
3
HOH
HOH
247
A
HOH
248
3
HOH
HOH
248
A
HOH
249
3
HOH
HOH
249
A
HOH
250
3
HOH
HOH
250
A
HOH
251
3
HOH
HOH
251
A
HOH
252
3
HOH
HOH
252
A
HOH
253
3
HOH
HOH
253
A
HOH
254
3
HOH
HOH
254
A
HOH
255
3
HOH
HOH
255
A
HOH
256
3
HOH
HOH
256
A
HOH
257
3
HOH
HOH
257
A
HOH
258
3
HOH
HOH
258
A
HOH
259
3
HOH
HOH
259
A
HOH
260
3
HOH
HOH
260
A
HOH
261
3
HOH
HOH
261
A
HOH
262
3
HOH
HOH
262
A
HOH
263
3
HOH
HOH
263
A
HOH
264
3
HOH
HOH
264
A
HOH
265
3
HOH
HOH
265
A
HOH
266
3
HOH
HOH
266
A
HOH
267
3
HOH
HOH
267
A
HOH
268
3
HOH
HOH
268
A
HOH
269
3
HOH
HOH
269
A
HOH
270
3
HOH
HOH
270
A
HOH
271
3
HOH
HOH
271
A
HOH
272
3
HOH
HOH
272
A
HOH
273
3
HOH
HOH
273
A
HOH
274
3
HOH
HOH
274
A
HOH
275
3
HOH
HOH
275
A
HOH
276
3
HOH
HOH
276
A
HOH
277
3
HOH
HOH
277
A
HOH
278
3
HOH
HOH
278
A
HOH
279
3
HOH
HOH
279
A
HOH
280
3
HOH
HOH
280
A
HOH
281
3
HOH
HOH
281
A
HOH
282
3
HOH
HOH
282
A
HOH
283
3
HOH
HOH
283
A
HOH
284
3
HOH
HOH
284
A
HOH
285
3
HOH
HOH
285
A
HOH
286
3
HOH
HOH
286
A
HOH
287
3
HOH
HOH
287
A
HOH
288
3
HOH
HOH
288
A
HOH
289
3
HOH
HOH
289
A
HOH
290
3
HOH
HOH
290
A
HOH
291
3
HOH
HOH
291
A
HOH
292
3
HOH
HOH
292
A
HOH
293
3
HOH
HOH
293
A
HOH
294
3
HOH
HOH
294
A
HOH
295
3
HOH
HOH
295
A
HOH
296
3
HOH
HOH
296
A
HOH
297
3
HOH
HOH
297
A
HOH
298
3
HOH
HOH
298
A
HOH
299
3
HOH
HOH
299
A
HOH
300
3
HOH
HOH
300
A
HOH
301
3
HOH
HOH
301
A
HOH
302
3
HOH
HOH
302
A
HOH
303
3
HOH
HOH
303
A
HOH
304
3
HOH
HOH
304
A
HOH
305
3
HOH
HOH
305
A
HOH
306
3
HOH
HOH
306
A
HOH
307
3
HOH
HOH
307
A
HOH
308
3
HOH
HOH
308
A
HOH
309
3
HOH
HOH
309
A
HOH
310
3
HOH
HOH
310
A
HOH
311
3
HOH
HOH
311
A
HOH
312
3
HOH
HOH
312
A
HOH
313
3
HOH
HOH
313
A
HOH
314
3
HOH
HOH
314
A
HOH
315
3
HOH
HOH
315
A
HOH
316
3
HOH
HOH
316
A
HOH
317
3
HOH
HOH
317
A
HOH
318
3
HOH
HOH
318
A
HOH
319
3
HOH
HOH
319
A
HOH
320
3
HOH
HOH
320
A
HOH
321
3
HOH
HOH
321
A
HOH
322
3
HOH
HOH
322
A
HOH
323
3
HOH
HOH
323
A
HOH
324
3
HOH
HOH
324
A
HOH
325
3
HOH
HOH
325
A
HOH
326
3
HOH
HOH
326
A
HOH
327
3
HOH
HOH
327
A
HOH
328
3
HOH
HOH
328
A
HOH
329
3
HOH
HOH
329
A
HOH
330
3
HOH
HOH
330
A
HOH
331
3
HOH
HOH
331
A
HOH
332
3
HOH
HOH
332
A
HOH
333
3
HOH
HOH
333
A
HOH
334
3
HOH
HOH
334
A
HOH
335
3
HOH
HOH
335
A
HOH
336
3
HOH
HOH
336
A
HOH
337
3
HOH
HOH
337
A
HOH
338
3
HOH
HOH
338
A
HOH
339
3
HOH
HOH
339
A
HOH
340
3
HOH
HOH
340
A
HOH
341
3
HOH
HOH
341
A
HOH
342
3
HOH
HOH
342
A
HOH
343
3
HOH
HOH
343
A
HOH
344
3
HOH
HOH
344
A
HOH
345
3
HOH
HOH
345
A
HOH
346
3
HOH
HOH
346
A
HOH
347
3
HOH
HOH
347
A
HOH
348
3
HOH
HOH
348
A
HOH
349
3
HOH
HOH
349
A
HOH
350
3
HOH
HOH
350
A
HOH
351
3
HOH
HOH
351
A
HOH
352
3
HOH
HOH
352
A
HOH
353
3
HOH
HOH
353
A
HOH
354
3
HOH
HOH
354
A
HOH
355
3
HOH
HOH
355
A
HOH
356
3
HOH
HOH
356
A
HOH
357
3
HOH
HOH
357
A
HOH
358
3
HOH
HOH
358
A
HOH
359
3
HOH
HOH
359
A
HOH
360
3
HOH
HOH
360
A
HOH
361
3
HOH
HOH
361
A
HOH
362
3
HOH
HOH
362
A
HOH
363
3
HOH
HOH
363
A
HOH
364
3
HOH
HOH
364
A
HOH
365
3
HOH
HOH
365
A
HOH
366
3
HOH
HOH
366
A
HOH
367
3
HOH
HOH
367
A
HOH
368
3
HOH
HOH
368
A
HOH
369
3
HOH
HOH
369
A
HOH
370
3
HOH
HOH
370
A
HOH
371
3
HOH
HOH
371
A
HOH
372
3
HOH
HOH
372
A
HOH
373
3
HOH
HOH
373
A
HOH
374
3
HOH
HOH
374
A
HOH
375
3
HOH
HOH
375
A
HOH
376
3
HOH
HOH
376
A
HOH
377
3
HOH
HOH
377
A
HOH
378
3
HOH
HOH
378
A
HOH
379
3
HOH
HOH
379
A
HOH
380
3
HOH
HOH
380
A
HOH
381
3
HOH
HOH
381
A
HOH
382
3
HOH
HOH
382
A
HOH
383
3
HOH
HOH
383
A
HOH
384
3
HOH
HOH
384
A
HOH
385
3
HOH
HOH
385
A
HOH
386
3
HOH
HOH
386
A
HOH
387
3
HOH
HOH
387
A
HOH
388
3
HOH
HOH
388
A
HOH
389
3
HOH
HOH
389
A
HOH
390
3
HOH
HOH
390
A
HOH
391
3
HOH
HOH
391
A
HOH
392
3
HOH
HOH
392
A
HOH
393
3
HOH
HOH
393
A
HOH
394
3
HOH
HOH
394
A
HOH
395
3
HOH
HOH
395
A
HOH
396
3
HOH
HOH
396
A
HOH
397
3
HOH
HOH
397
A
HOH
398
3
HOH
HOH
398
A
HOH
40
3
HOH
HOH
40
B
HOH
47
3
HOH
HOH
47
B
HOH
49
3
HOH
HOH
49
B
HOH
71
3
HOH
HOH
71
B
HOH
89
3
HOH
HOH
89
B
HOH
142
3
HOH
HOH
142
B
HOH
158
3
HOH
HOH
158
B
GLY
1
n
1
D
GLY
1
A
GLY
1
n
2
C
GLY
1
A
ALA
1
n
3
B
ALA
1
A
ASP
1
n
4
A
ASP
1
A
CYS
1
n
5
CYS
1
A
GLY
2
n
6
GLY
2
A
LEU
3
n
7
LEU
3
A
ARG
4
n
8
ARG
4
A
PRO
5
n
9
PRO
5
A
LEU
6
n
10
LEU
6
A
PHE
7
n
11
PHE
7
A
GLU
8
n
12
GLU
8
A
LYS
9
n
13
LYS
9
A
LYS
10
n
14
LYS
10
A
SER
11
n
15
SER
11
A
LEU
12
n
16
LEU
12
A
GLU
13
n
17
GLU
13
A
ASP
14
n
18
ASP
14
A
LYS
14
n
19
A
LYS
14
A
THR
14
n
20
B
THR
14
A
GLU
14
n
21
C
GLU
14
A
ARG
14
n
22
D
ARG
14
A
GLU
14
n
23
E
GLU
14
A
LEU
14
n
24
F
LEU
14
A
LEU
14
n
25
G
LEU
14
A
GLU
14
n
26
H
GLU
14
A
SER
14
n
27
I
SER
14
A
TYR
14
n
28
J
TYR
14
A
ILE
14
n
29
K
ILE
14
A
n
30
L
14
A
n
31
M
14
A
n
32
N
14
A
ILE
16
n
33
ILE
16
A
VAL
17
n
34
VAL
17
A
GLU
18
n
35
GLU
18
A
GLY
19
n
36
GLY
19
A
SER
20
n
37
SER
20
A
ASP
21
n
38
ASP
21
A
ALA
22
n
39
ALA
22
A
GLU
23
n
40
GLU
23
A
ILE
24
n
41
ILE
24
A
GLY
25
n
42
GLY
25
A
MET
26
n
43
MET
26
A
SER
27
n
44
SER
27
A
PRO
28
n
45
PRO
28
A
TRP
29
n
46
TRP
29
A
GLN
30
n
47
GLN
30
A
VAL
31
n
48
VAL
31
A
MET
32
n
49
MET
32
A
LEU
33
n
50
LEU
33
A
PHE
34
n
51
PHE
34
A
ARG
35
n
52
ARG
35
A
LYS
36
n
53
LYS
36
A
SER
36
n
54
A
SER
36
A
PRO
37
n
55
PRO
37
A
GLN
38
n
56
GLN
38
A
GLU
39
n
57
GLU
39
A
LEU
40
n
58
LEU
40
A
LEU
41
n
59
LEU
41
A
CYS
42
n
60
CYS
42
A
GLY
43
n
61
GLY
43
A
ALA
44
n
62
ALA
44
A
SER
45
n
63
SER
45
A
LEU
46
n
64
LEU
46
A
ILE
47
n
65
ILE
47
A
SER
48
n
66
SER
48
A
ASP
49
n
67
ASP
49
A
ARG
50
n
68
ARG
50
A
TRP
51
n
69
TRP
51
A
VAL
52
n
70
VAL
52
A
LEU
53
n
71
LEU
53
A
THR
54
n
72
THR
54
A
ALA
55
n
73
ALA
55
A
ALA
56
n
74
ALA
56
A
HIS
57
n
75
HIS
57
A
CYS
58
n
76
CYS
58
A
LEU
59
n
77
LEU
59
A
LEU
60
n
78
LEU
60
A
TYR
60
n
79
A
TYR
60
A
PRO
60
n
80
B
PRO
60
A
PRO
60
n
81
C
PRO
60
A
TRP
60
n
82
D
TRP
60
A
ASP
60
n
83
E
ASP
60
A
LYS
60
n
84
F
LYS
60
A
ASN
60
n
85
G
ASN
60
A
PHE
60
n
86
H
PHE
60
A
THR
60
n
87
I
THR
60
A
GLU
61
n
88
GLU
61
A
ASN
62
n
89
ASN
62
A
ASP
63
n
90
ASP
63
A
LEU
64
n
91
LEU
64
A
LEU
65
n
92
LEU
65
A
VAL
66
n
93
VAL
66
A
ARG
67
n
94
ARG
67
A
ILE
68
n
95
ILE
68
A
GLY
69
n
96
GLY
69
A
LYS
70
n
97
LYS
70
A
HIS
71
n
98
HIS
71
A
SER
72
n
99
SER
72
A
ARG
73
n
100
ARG
73
A
THR
74
n
101
THR
74
A
ARG
75
n
102
ARG
75
A
TYR
76
n
103
TYR
76
A
GLU
77
n
104
GLU
77
A
ARG
77
n
105
A
ARG
77
A
ASN
78
n
106
ASN
78
A
ILE
79
n
107
ILE
79
A
GLU
80
n
108
GLU
80
A
LYS
81
n
109
LYS
81
A
ILE
82
n
110
ILE
82
A
SER
83
n
111
SER
83
A
MET
84
n
112
MET
84
A
LEU
85
n
113
LEU
85
A
GLU
86
n
114
GLU
86
A
LYS
87
n
115
LYS
87
A
ILE
88
n
116
ILE
88
A
TYR
89
n
117
TYR
89
A
ILE
90
n
118
ILE
90
A
HIS
91
n
119
HIS
91
A
PRO
92
n
120
PRO
92
A
ARG
93
n
121
ARG
93
A
TYR
94
n
122
TYR
94
A
ASN
95
n
123
ASN
95
A
TRP
96
n
124
TRP
96
A
ARG
97
n
125
ARG
97
A
GLU
97
n
126
A
GLU
97
A
ASN
98
n
127
ASN
98
A
LEU
99
n
128
LEU
99
A
ASP
100
n
129
ASP
100
A
ARG
101
n
130
ARG
101
A
ASP
102
n
131
ASP
102
A
ILE
103
n
132
ILE
103
A
ALA
104
n
133
ALA
104
A
LEU
105
n
134
LEU
105
A
MET
106
n
135
MET
106
A
LYS
107
n
136
LYS
107
A
LEU
108
n
137
LEU
108
A
LYS
109
n
138
LYS
109
A
LYS
110
n
139
LYS
110
A
PRO
111
n
140
PRO
111
A
VAL
112
n
141
VAL
112
A
ALA
113
n
142
ALA
113
A
PHE
114
n
143
PHE
114
A
SER
115
n
144
SER
115
A
ASP
116
n
145
ASP
116
A
TYR
117
n
146
TYR
117
A
ILE
118
n
147
ILE
118
A
HIS
119
n
148
HIS
119
A
PRO
120
n
149
PRO
120
A
VAL
121
n
150
VAL
121
A
CYS
122
n
151
CYS
122
A
LEU
123
n
152
LEU
123
A
PRO
124
n
153
PRO
124
A
ASP
125
n
154
ASP
125
A
ARG
126
n
155
ARG
126
A
GLU
127
n
156
GLU
127
A
THR
128
n
157
THR
128
A
ALA
129
n
158
ALA
129
A
ALA
129
n
159
A
ALA
129
A
SER
129
n
160
B
SER
129
A
LEU
129
n
161
C
LEU
129
A
LEU
130
n
162
LEU
130
A
GLN
131
n
163
GLN
131
A
ALA
132
n
164
ALA
132
A
GLY
133
n
165
GLY
133
A
TYR
134
n
166
TYR
134
A
LYS
135
n
167
LYS
135
A
GLY
136
n
168
GLY
136
A
ARG
137
n
169
ARG
137
A
VAL
138
n
170
VAL
138
A
THR
139
n
171
THR
139
A
GLY
140
n
172
GLY
140
A
TRP
141
n
173
TRP
141
A
GLY
142
n
174
GLY
142
A
ASN
143
n
175
ASN
143
A
LEU
144
n
176
LEU
144
A
LYS
145
n
177
LYS
145
A
GLU
146
n
178
GLU
146
A
n
179
A
146
A
n
180
B
146
A
n
181
C
146
A
n
182
D
146
A
n
183
E
146
A
n
184
F
146
A
n
185
G
146
A
n
186
H
146
A
GLY
150
n
187
GLY
150
A
GLN
151
n
188
GLN
151
A
PRO
152
n
189
PRO
152
A
SER
153
n
190
SER
153
A
VAL
154
n
191
VAL
154
A
LEU
155
n
192
LEU
155
A
GLN
156
n
193
GLN
156
A
VAL
157
n
194
VAL
157
A
VAL
158
n
195
VAL
158
A
ASN
159
n
196
ASN
159
A
LEU
160
n
197
LEU
160
A
PRO
161
n
198
PRO
161
A
ILE
162
n
199
ILE
162
A
VAL
163
n
200
VAL
163
A
GLU
164
n
201
GLU
164
A
ARG
165
n
202
ARG
165
A
PRO
166
n
203
PRO
166
A
VAL
167
n
204
VAL
167
A
CYS
168
n
205
CYS
168
A
LYS
169
n
206
LYS
169
A
ASP
170
n
207
ASP
170
A
SER
171
n
208
SER
171
A
THR
172
n
209
THR
172
A
ARG
173
n
210
ARG
173
A
ILE
174
n
211
ILE
174
A
ARG
175
n
212
ARG
175
A
ILE
176
n
213
ILE
176
A
THR
177
n
214
THR
177
A
ASP
178
n
215
ASP
178
A
ASN
179
n
216
ASN
179
A
MET
180
n
217
MET
180
A
PHE
181
n
218
PHE
181
A
CYS
182
n
219
CYS
182
A
ALA
183
n
220
ALA
183
A
GLY
184
n
221
GLY
184
A
TYR
184
n
222
A
TYR
184
A
LYS
185
n
223
LYS
185
A
PRO
186
n
224
PRO
186
A
ASP
186
n
225
A
ASP
186
A
GLU
186
n
226
B
GLU
186
A
GLY
186
n
227
C
GLY
186
A
LYS
186
n
228
D
LYS
186
A
ARG
187
n
229
ARG
187
A
GLY
188
n
230
GLY
188
A
ASP
189
n
231
ASP
189
A
ALA
190
n
232
ALA
190
A
CYS
191
n
233
CYS
191
A
GLU
192
n
234
GLU
192
A
GLY
193
n
235
GLY
193
A
ASP
194
n
236
ASP
194
A
SER
195
n
237
SER
195
A
GLY
196
n
238
GLY
196
A
GLY
197
n
239
GLY
197
A
PRO
198
n
240
PRO
198
A
PHE
199
n
241
PHE
199
A
VAL
200
n
242
VAL
200
A
MET
201
n
243
MET
201
A
LYS
202
n
244
LYS
202
A
SER
203
n
245
SER
203
A
PRO
204
n
246
PRO
204
A
PHE
204
n
247
A
PHE
204
A
ASN
204
n
248
B
ASN
204
A
ASN
205
n
249
ASN
205
A
ARG
206
n
250
ARG
206
A
TRP
207
n
251
TRP
207
A
TYR
208
n
252
TYR
208
A
GLN
209
n
253
GLN
209
A
MET
210
n
254
MET
210
A
GLY
211
n
255
GLY
211
A
ILE
212
n
256
ILE
212
A
VAL
213
n
257
VAL
213
A
SER
214
n
258
SER
214
A
TRP
215
n
259
TRP
215
A
GLY
216
n
260
GLY
216
A
GLU
217
n
261
GLU
217
A
GLY
219
n
262
GLY
219
A
CYS
220
n
263
CYS
220
A
ASP
221
n
264
ASP
221
A
ARG
221
n
265
A
ARG
221
A
ASP
222
n
266
ASP
222
A
GLY
223
n
267
GLY
223
A
LYS
224
n
268
LYS
224
A
TYR
225
n
269
TYR
225
A
GLY
226
n
270
GLY
226
A
PHE
227
n
271
PHE
227
A
TYR
228
n
272
TYR
228
A
THR
229
n
273
THR
229
A
HIS
230
n
274
HIS
230
A
VAL
231
n
275
VAL
231
A
PHE
232
n
276
PHE
232
A
ARG
233
n
277
ARG
233
A
LEU
234
n
278
LEU
234
A
LYS
235
n
279
LYS
235
A
LYS
236
n
280
LYS
236
A
TRP
237
n
281
TRP
237
A
ILE
238
n
282
ILE
238
A
GLN
239
n
283
GLN
239
A
LYS
240
n
284
LYS
240
A
VAL
241
n
285
VAL
241
A
ILE
242
n
286
ILE
242
A
ASP
243
n
287
ASP
243
A
GLN
244
n
288
GLN
244
A
PHE
245
n
289
PHE
245
A
BBS
1
n
1
BBS
1
B
ARG
2
n
2
ARG
2
B
CPI
3
n
3
CPI
3
B
TIH
4
n
4
TIH
4
B
DOA
5
n
5
DOA
5
B
ASP
6
n
6
ASP
6
B
TYR
7
n
7
TYR
7
B
GLU
8
n
8
GLU
8
B
PRO
9
n
9
PRO
9
B
ILE
10
n
10
ILE
10
B
PRO
11
n
11
PRO
11
B
GLU
12
n
12
GLU
12
B
GLU
13
n
13
GLU
13
B
ALA
14
n
14
ALA
14
B
author_defined_assembly
2
dimeric
B
TIH
4
BETA(2-THIENYL)ALANINE
B
TIH
4
ALA
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
O
SER
20
A
O
SER
37
A
N
VAL
157
A
N
VAL
194
A
O
LEU
160
A
O
LEU
197
A
N
GLY
136
A
N
GLY
168
A
N
THR
139
A
N
THR
171
A
O
PRO
198
A
O
PRO
240
A
O
MET
201
A
O
MET
243
A
N
TYR
208
A
N
TYR
252
A
O
TRP
215
A
O
TRP
259
A
N
PHE
227
A
N
PHE
271
A
N
TYR
228
A
N
TYR
272
A
O
PHE
181
A
O
PHE
218
A
N
ARG
35
A
N
ARG
52
A
O
GLU
39
A
O
GLU
57
A
O
SER
45
A
O
SER
63
A
N
LEU
53
A
N
LEU
71
A
N
THR
54
A
N
THR
72
A
O
ALA
104
A
O
ALA
133
A
O
LYS
107
A
O
LYS
136
A
N
GLU
86
A
N
GLU
114
A
N
LEU
85
A
N
LEU
113
A
O
LEU
64
A
O
LEU
91
A
N
ARG
67
A
N
ARG
94
A
O
MET
32
A
O
MET
49
A
A
N
TYR
60
A
N
TYR
79
F
A
O
LYS
60
A
O
LYS
84
L
1
A
ASP
14
A
ASP
30
1
Y
M
1
A
GLY
14
A
GLY
31
1
Y
N
1
A
ARG
14
A
ARG
32
1
Y
A
1
A
THR
146
A
THR
179
1
Y
B
1
A
TRP
146
A
TRP
180
1
Y
C
1
A
THR
146
A
THR
181
1
Y
D
1
A
ALA
146
A
ALA
182
1
Y
E
1
A
ASN
146
A
ASN
183
1
Y
F
1
A
VAL
146
A
VAL
184
1
Y
G
1
A
GLY
146
A
GLY
185
1
Y
H
1
A
LYS
146
A
LYS
186
1
Y
A
1
-11.20
1.50
119.30
108.10
A
A
A
C
N
CA
SER
PRO
PRO
36
37
37
Y
1
4.72
0.50
120.30
125.02
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
75
75
75
N
1
B
B
N
CA
ARG
ARG
2
2
0.125
0.020
1.459
1.584
N
1
A
PHE
7
-127.32
-85.01
A
1
A
SER
36
-59.72
-104.29
1
A
GLN
38
-47.17
93.87
G
1
A
ASN
60
-160.34
87.49
1
A
HIS
71
-135.98
-50.43
1
A
ASN
78
74.86
-1.68
A
1
A
GLU
97
-123.65
-67.96
1
A
SER
115
-164.28
-167.12
1
A
SER
214
-102.72
-85.94
1
B
CPI
3
104.64
156.89
0.233
0.187
2.1
8.0
2006
20427
18421
95.8
Random
1
2.0
1.0
Engh & Huber
2.1
8.0
160
2540
0
0
2380
0.009
1.718
24.372
2.1
45.0
1EOJ
70010
20426
0.3
0.05
1
18.0
3
95.8
0.13
2.10
2.17
1530
1
2
73.0
data scaling
SCALEPACK
model building
X-PLOR
refinement
X-PLOR
3.843
phasing
X-PLOR
Design of P1' and P3' residues of trivalent thrombin inhibitors and their crystal structures
1
N
N
2
N
N
3
N
N
3
N
N
A
PHE
7
A
PHE
11
HELX_P
A
SER
11
A
SER
15
5
1
5
A
ALA
55
A
ALA
73
HELX_P
A
CYS
58
A
CYS
76
5
3
4
A
ASP
125
A
ASP
154
HELX_P
A
LEU
130
A
LEU
162
1
6
9
A
GLU
164
A
GLU
201
HELX_P
A
ASP
170
A
ASP
207
1
7
7
A
LEU
234
A
LEU
278
HELX_P
A
PHE
245
A
PHE
289
1
9
12
disulf
2.026
A
CYS
1
A
SG
CYS
5
1_555
A
CYS
122
A
SG
CYS
151
1_555
disulf
2.026
A
CYS
42
A
SG
CYS
60
1_555
A
CYS
58
A
SG
CYS
76
1_555
disulf
2.025
A
CYS
168
A
SG
CYS
205
1_555
A
CYS
182
A
SG
CYS
219
1_555
disulf
2.029
A
CYS
191
A
SG
CYS
233
1_555
A
CYS
220
A
SG
CYS
263
1_555
covale
1.553
both
B
BBS
1
B
S
BBS
1
1_555
B
ARG
2
B
N
ARG
2
1_555
covale
1.341
both
B
CPI
3
B
C
CPI
3
1_555
B
TIH
4
B
N
TIH
4
1_555
covale
1.332
both
B
TIH
4
B
C
TIH
4
1_555
B
DOA
5
B
N
DOA
5
1_555
covale
1.328
both
B
DOA
5
B
C
DOA
5
1_555
B
ASP
6
B
N
ASP
6
1_555
HYDROLASE/HYDROLASE INHIBITOR
thrombin inhibitors, serine protease, HYDROLASE-HYDROLASE INHIBITOR complex
B
ARG
2
B
ARG
2
1
B
CPI
3
B
CPI
3
-0.86
THRB_HUMAN
UNP
1
P00734
1EOJ
PDB
2
1EOJ
332
620
1EOJ
1
245
P00734
D
A
1
1
289
1
14
1EOJ
1
14
1EOJ
B
2
1
14
1
GLU
conflict
GLY
1
1EOJ
C
A
P00734
UNP
333
2
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
A
SER
20
A
SER
37
A
ASP
21
A
ASP
38
A
GLN
156
A
GLN
193
A
PRO
161
A
PRO
198
A
LYS
135
A
LYS
167
A
GLY
140
A
GLY
172
A
PRO
198
A
PRO
240
A
LYS
202
A
LYS
244
A
TRP
207
A
TRP
251
A
TRP
215
A
TRP
259
A
GLY
226
A
GLY
270
A
HIS
230
A
HIS
274
A
MET
180
A
MET
217
A
ALA
183
A
ALA
220
A
GLN
30
A
GLN
47
A
ARG
35
A
ARG
52
A
GLU
39
A
GLU
57
A
LEU
46
A
LEU
64
A
TRP
51
A
TRP
69
A
THR
54
A
THR
72
A
ALA
104
A
ALA
133
A
LEU
108
A
LEU
137
A
LYS
81
A
LYS
109
A
ILE
90
A
ILE
118
A
LEU
64
A
LEU
91
A
ILE
68
A
ILE
95
A
GLN
30
A
GLN
47
A
ARG
35
A
ARG
52
A
LEU
60
A
LEU
78
A
TYR
60
A
TYR
79
A
A
LYS
60
A
LYS
84
A
ASN
60
A
ASN
85
F
G
BINDING SITE FOR CHAIN B OF THROMBIN INHIBITOR P798
Software
28
A
GLN
38
A
GLN
56
28
1_555
A
GLU
39
A
GLU
57
28
1_555
A
LEU
40
A
LEU
58
28
1_555
A
LEU
41
A
LEU
59
28
1_555
A
HIS
57
A
HIS
75
28
1_555
A
TRP
60
A
TRP
82
D
28
1_555
A
LYS
60
A
LYS
84
F
28
1_555
A
ARG
73
A
ARG
100
28
1_555
A
THR
74
A
THR
101
28
1_555
A
ARG
75
A
ARG
102
28
2_555
A
TYR
76
A
TYR
103
28
1_555
A
ILE
82
A
ILE
110
28
1_555
A
GLU
97
A
GLU
126
A
28
1_555
A
LEU
99
A
LEU
128
28
1_555
A
ASP
189
A
ASP
231
28
1_555
A
ALA
190
A
ALA
232
28
1_555
A
GLU
192
A
GLU
234
28
1_555
A
SER
195
A
SER
237
28
1_555
A
SER
214
A
SER
258
28
1_555
A
TRP
215
A
TRP
259
28
1_555
A
GLY
216
A
GLY
260
28
1_555
A
GLY
219
A
GLY
262
28
1_555
A
HOH
272
C
HOH
28
1_555
A
HOH
282
C
HOH
28
1_555
A
HOH
374
C
HOH
28
1_555
B
HOH
47
D
HOH
28
1_555
B
HOH
49
D
HOH
28
1_555
B
HOH
89
D
HOH
28
1_555
5
C 1 2 1