0.014184
0.000000
0.002655
0.000000
0.014025
0.000000
0.000000
0.000000
0.013956
0.00000
0.00000
0.00000
Baum, B.
Heine, A.
Klebe, G.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
100.60
90.00
70.500
71.300
72.900
C16 H22 Cl N3 O2
323.818
1-[(2R)-2-aminobutanoyl]-N-(3-chlorobenzyl)-L-prolinamide
peptide-like
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
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
R
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
C
N
7
N
N
N
8
S
C
N
9
N
C
N
10
N
O
N
11
N
C
N
12
N
C
N
13
N
C
N
14
N
N
N
15
N
C
Y
16
N
C
Y
17
N
C
Y
18
N
C
Y
19
N
C
Y
20
N
C
Y
21
N
C
N
22
N
CL
N
23
N
H
N
24
N
H
N
25
N
H
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
H
N
42
N
H
N
43
N
H
N
44
N
H
N
45
N
N
N
46
S
C
N
47
N
C
N
48
N
O
N
49
N
C
N
50
N
O
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
C
N
65
N
N
N
66
N
C
N
67
N
N
N
68
N
N
N
69
N
O
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
H
N
79
N
H
N
80
N
H
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
N
N
86
S
C
N
87
N
C
N
88
N
O
N
89
N
C
N
90
N
C
N
91
N
O
N
92
N
N
N
93
N
O
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
S
C
N
104
N
C
N
105
N
O
N
106
N
C
N
107
N
C
N
108
N
O
N
109
N
O
N
110
N
O
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
N
N
119
R
C
N
120
N
C
N
121
N
O
N
122
N
C
N
123
N
S
N
124
N
O
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
N
N
133
S
C
N
134
N
C
N
135
N
O
N
136
N
C
N
137
N
C
N
138
N
C
N
139
N
O
N
140
N
N
N
141
N
O
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
N
N
153
S
C
N
154
N
C
N
155
N
O
N
156
N
C
N
157
N
C
N
158
N
C
N
159
N
O
N
160
N
O
N
161
N
O
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
N
N
172
N
C
N
173
N
C
N
174
N
O
N
175
N
O
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
N
N
182
S
C
N
183
N
C
N
184
N
O
N
185
N
C
Y
186
N
C
Y
187
N
N
Y
188
N
C
Y
189
N
C
Y
190
N
N
N
191
N
O
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
H
N
200
N
H
N
201
N
H
N
202
N
O
N
203
N
H
N
204
N
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
S
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
O
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
N
N
228
S
C
N
229
N
C
N
230
N
O
N
231
N
C
N
232
N
C
N
233
N
C
N
234
N
C
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
H
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
N
C
N
254
N
C
N
255
N
C
N
256
N
C
N
257
N
N
N
258
N
O
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
H
N
272
N
H
N
273
N
H
N
274
N
N
N
275
S
C
N
276
N
C
N
277
N
O
N
278
N
C
N
279
N
C
N
280
N
S
N
281
N
C
N
282
N
O
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
NA
N
295
N
N
N
296
S
C
N
297
N
C
N
298
N
O
N
299
N
C
Y
300
N
C
Y
301
N
C
Y
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
N
306
N
O
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
C
N
325
N
O
N
326
N
H
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
N
N
336
S
C
N
337
N
C
N
338
N
O
N
339
N
C
N
340
N
O
N
341
N
O
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
N
N
350
S
C
N
351
N
C
N
352
N
O
N
353
R
C
N
354
N
O
N
355
N
C
N
356
N
O
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
N
N
367
S
C
N
368
N
C
N
369
N
O
N
370
N
C
Y
371
N
C
Y
372
N
C
Y
373
N
C
Y
374
N
N
Y
375
N
C
Y
376
N
C
Y
377
N
C
Y
378
N
C
Y
379
N
C
N
380
N
O
N
381
N
H
N
382
N
H
N
383
N
H
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
C
Y
402
N
C
Y
403
N
C
N
404
N
O
N
405
N
O
N
406
N
H
N
407
N
H
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
N
N
418
S
C
N
419
N
C
Y
420
N
C
Y
421
N
C
Y
422
N
C
Y
423
N
C
Y
424
N
C
Y
425
N
C
N
426
N
O
N
427
N
S
N
428
N
O
N
429
N
O
N
430
N
O
N
431
N
C
N
432
N
O
N
433
N
O
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
H
N
445
N
N
N
446
S
C
N
447
N
C
N
448
N
O
N
449
N
C
N
450
N
C
N
451
N
C
N
452
N
O
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
463
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
Y
14
N
doub
Y
15
N
sing
Y
16
N
sing
Y
17
N
doub
N
18
N
doub
N
19
N
sing
N
20
N
sing
Y
21
N
sing
Y
22
N
doub
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
sing
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
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
doub
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
sing
N
62
N
sing
N
63
N
sing
N
64
N
doub
N
65
N
sing
N
66
N
sing
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
doub
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
doub
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
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
doub
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
doub
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
doub
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
doub
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
doub
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
doub
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
doub
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
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
doub
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
Y
185
N
sing
Y
186
N
doub
Y
187
N
doub
N
188
N
sing
Y
189
N
sing
N
190
N
sing
Y
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
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
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
doub
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
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
sing
N
267
N
sing
N
268
N
sing
N
269
N
doub
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
doub
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
Y
293
N
doub
Y
294
N
sing
Y
295
N
sing
N
296
N
sing
Y
297
N
doub
N
298
N
sing
Y
299
N
doub
N
300
N
sing
Y
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
doub
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
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
doub
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
Y
362
N
doub
Y
363
N
sing
Y
364
N
sing
N
365
N
sing
Y
366
N
doub
Y
367
N
sing
Y
368
N
sing
N
369
N
sing
Y
370
N
sing
Y
371
N
doub
N
372
N
sing
Y
373
N
doub
N
374
N
sing
Y
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
doub
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
Y
390
N
doub
Y
391
N
sing
Y
392
N
sing
N
393
N
sing
Y
394
N
doub
N
395
N
sing
Y
396
N
doub
N
397
N
sing
Y
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
Y
412
N
doub
Y
413
N
sing
Y
414
N
sing
N
415
N
sing
Y
416
N
doub
N
417
N
sing
Y
418
N
doub
N
419
N
sing
Y
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
doub
N
425
N
doub
N
426
N
sing
N
427
N
sing
N
428
N
doub
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
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
sing
N
447
N
sing
N
448
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
391
552
564
10.1016/j.jmb.2009.06.016
19520086
Think twice: understanding the high potency of bis(phenyl)methane inhibitors of thrombin
2009
10.2210/pdb2zfp/pdb
pdb_00002zfp
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
110
1
xenocs mirrors
IMAGE PLATE
2007-12-06
RIGAKU RAXIS IV
focussing mirrors
SINGLE WAVELENGTH
M
x-ray
1
1.54178
1.0
1.54178
ROTATING ANODE
RIGAKU RUH3R
4096.534
Thrombin light chain
3.4.21.5
1
nat
polymer
29780.219
Thrombin heavy chain
3.4.21.5
1
nat
polymer
1420.451
Hirudin variant-1
UNP Residues 54-64
1
syn
polymer
22.990
SODIUM ION
2
syn
non-polymer
323.818
1-[(2R)-2-aminobutanoyl]-N-(3-chlorobenzyl)-L-prolinamide
1
syn
non-polymer
18.015
water
142
nat
water
COAGULATION FACTOR II
COAGULATION FACTOR II
lepirudin
no
no
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
L
polypeptide(L)
no
no
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
H
polypeptide(L)
no
yes
GDFEEIPEE(TYS)L
GDFEEIPEEYL
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
sample
9606
Homo sapiens
blood plasma
Human
sample
9606
Homo sapiens
blood plasma
1
2.55
51.79
VAPOR DIFFUSION, HANGING DROP
7.5
Phosphate Buffer, Sodium Chloride, PEG 8000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
277
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_sheet
struct_site
chem_comp_atom
chem_comp_bond
repository
Initial release
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Non-polymer description
Other
Data collection
Database references
Derived calculations
Refinement description
Data collection
1
0
2008-12-16
1
1
2011-07-13
1
2
2012-01-18
1
3
2012-12-12
1
4
2023-11-01
1
5
2023-11-15
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_sheet.number_strands
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_chem_comp_atom.atom_id
_chem_comp_bond.atom_id_2
PDBJ
Y
PDBJ
2008-01-08
REL
REL
NA
SODIUM ION
19U
1-[(2R)-2-aminobutanoyl]-N-(3-chlorobenzyl)-L-prolinamide
HOH
water
Synthetic Fragment of Hirudin from Hirudo Medicinalis
sample
1H8D
PDB entry 1H8D
PDB
experimental model
Thrombin inhibitor
1-[(2R)-2-aminobutanoyl]-N-(3-chlorobenzyl)-L-prolinamide
Peptide-like
NA
802
4
NA
NA
802
H
NA
803
4
NA
NA
803
H
19U
801
5
19U
19U
801
H
HOH
1003
6
HOH
HOH
1003
L
HOH
1004
6
HOH
HOH
1004
L
HOH
1021
6
HOH
HOH
1021
L
HOH
1025
6
HOH
HOH
1025
L
HOH
1026
6
HOH
HOH
1026
L
HOH
1028
6
HOH
HOH
1028
L
HOH
1044
6
HOH
HOH
1044
L
HOH
1059
6
HOH
HOH
1059
L
HOH
1060
6
HOH
HOH
1060
L
HOH
1084
6
HOH
HOH
1084
L
HOH
1095
6
HOH
HOH
1095
L
HOH
1113
6
HOH
HOH
1113
L
HOH
1116
6
HOH
HOH
1116
L
HOH
1117
6
HOH
HOH
1117
L
HOH
1130
6
HOH
HOH
1130
L
HOH
1132
6
HOH
HOH
1132
L
HOH
1137
6
HOH
HOH
1137
L
HOH
1141
6
HOH
HOH
1141
L
HOH
1001
6
HOH
HOH
1001
H
HOH
1002
6
HOH
HOH
1002
H
HOH
1005
6
HOH
HOH
1005
H
HOH
1006
6
HOH
HOH
1006
H
HOH
1007
6
HOH
HOH
1007
H
HOH
1008
6
HOH
HOH
1008
H
HOH
1009
6
HOH
HOH
1009
H
HOH
1010
6
HOH
HOH
1010
H
HOH
1011
6
HOH
HOH
1011
H
HOH
1012
6
HOH
HOH
1012
H
HOH
1013
6
HOH
HOH
1013
H
HOH
1014
6
HOH
HOH
1014
H
HOH
1015
6
HOH
HOH
1015
H
HOH
1016
6
HOH
HOH
1016
H
HOH
1017
6
HOH
HOH
1017
H
HOH
1018
6
HOH
HOH
1018
H
HOH
1019
6
HOH
HOH
1019
H
HOH
1020
6
HOH
HOH
1020
H
HOH
1022
6
HOH
HOH
1022
H
HOH
1023
6
HOH
HOH
1023
H
HOH
1024
6
HOH
HOH
1024
H
HOH
1027
6
HOH
HOH
1027
H
HOH
1029
6
HOH
HOH
1029
H
HOH
1030
6
HOH
HOH
1030
H
HOH
1031
6
HOH
HOH
1031
H
HOH
1032
6
HOH
HOH
1032
H
HOH
1033
6
HOH
HOH
1033
H
HOH
1034
6
HOH
HOH
1034
H
HOH
1035
6
HOH
HOH
1035
H
HOH
1036
6
HOH
HOH
1036
H
HOH
1037
6
HOH
HOH
1037
H
HOH
1038
6
HOH
HOH
1038
H
HOH
1039
6
HOH
HOH
1039
H
HOH
1040
6
HOH
HOH
1040
H
HOH
1041
6
HOH
HOH
1041
H
HOH
1042
6
HOH
HOH
1042
H
HOH
1043
6
HOH
HOH
1043
H
HOH
1045
6
HOH
HOH
1045
H
HOH
1046
6
HOH
HOH
1046
H
HOH
1047
6
HOH
HOH
1047
H
HOH
1048
6
HOH
HOH
1048
H
HOH
1049
6
HOH
HOH
1049
H
HOH
1050
6
HOH
HOH
1050
H
HOH
1051
6
HOH
HOH
1051
H
HOH
1052
6
HOH
HOH
1052
H
HOH
1053
6
HOH
HOH
1053
H
HOH
1054
6
HOH
HOH
1054
H
HOH
1055
6
HOH
HOH
1055
H
HOH
1056
6
HOH
HOH
1056
H
HOH
1057
6
HOH
HOH
1057
H
HOH
1058
6
HOH
HOH
1058
H
HOH
1061
6
HOH
HOH
1061
H
HOH
1062
6
HOH
HOH
1062
H
HOH
1063
6
HOH
HOH
1063
H
HOH
1064
6
HOH
HOH
1064
H
HOH
1065
6
HOH
HOH
1065
H
HOH
1066
6
HOH
HOH
1066
H
HOH
1067
6
HOH
HOH
1067
H
HOH
1068
6
HOH
HOH
1068
H
HOH
1069
6
HOH
HOH
1069
H
HOH
1070
6
HOH
HOH
1070
H
HOH
1071
6
HOH
HOH
1071
H
HOH
1072
6
HOH
HOH
1072
H
HOH
1074
6
HOH
HOH
1074
H
HOH
1075
6
HOH
HOH
1075
H
HOH
1076
6
HOH
HOH
1076
H
HOH
1077
6
HOH
HOH
1077
H
HOH
1078
6
HOH
HOH
1078
H
HOH
1079
6
HOH
HOH
1079
H
HOH
1080
6
HOH
HOH
1080
H
HOH
1081
6
HOH
HOH
1081
H
HOH
1082
6
HOH
HOH
1082
H
HOH
1083
6
HOH
HOH
1083
H
HOH
1085
6
HOH
HOH
1085
H
HOH
1086
6
HOH
HOH
1086
H
HOH
1087
6
HOH
HOH
1087
H
HOH
1088
6
HOH
HOH
1088
H
HOH
1089
6
HOH
HOH
1089
H
HOH
1090
6
HOH
HOH
1090
H
HOH
1091
6
HOH
HOH
1091
H
HOH
1092
6
HOH
HOH
1092
H
HOH
1093
6
HOH
HOH
1093
H
HOH
1094
6
HOH
HOH
1094
H
HOH
1096
6
HOH
HOH
1096
H
HOH
1097
6
HOH
HOH
1097
H
HOH
1098
6
HOH
HOH
1098
H
HOH
1099
6
HOH
HOH
1099
H
HOH
1100
6
HOH
HOH
1100
H
HOH
1101
6
HOH
HOH
1101
H
HOH
1102
6
HOH
HOH
1102
H
HOH
1103
6
HOH
HOH
1103
H
HOH
1104
6
HOH
HOH
1104
H
HOH
1105
6
HOH
HOH
1105
H
HOH
1106
6
HOH
HOH
1106
H
HOH
1107
6
HOH
HOH
1107
H
HOH
1109
6
HOH
HOH
1109
H
HOH
1110
6
HOH
HOH
1110
H
HOH
1111
6
HOH
HOH
1111
H
HOH
1112
6
HOH
HOH
1112
H
HOH
1114
6
HOH
HOH
1114
H
HOH
1115
6
HOH
HOH
1115
H
HOH
1118
6
HOH
HOH
1118
H
HOH
1119
6
HOH
HOH
1119
H
HOH
1120
6
HOH
HOH
1120
H
HOH
1121
6
HOH
HOH
1121
H
HOH
1123
6
HOH
HOH
1123
H
HOH
1124
6
HOH
HOH
1124
H
HOH
1125
6
HOH
HOH
1125
H
HOH
1126
6
HOH
HOH
1126
H
HOH
1127
6
HOH
HOH
1127
H
HOH
1128
6
HOH
HOH
1128
H
HOH
1129
6
HOH
HOH
1129
H
HOH
1131
6
HOH
HOH
1131
H
HOH
1133
6
HOH
HOH
1133
H
HOH
1134
6
HOH
HOH
1134
H
HOH
1135
6
HOH
HOH
1135
H
HOH
1136
6
HOH
HOH
1136
H
HOH
1138
6
HOH
HOH
1138
H
HOH
1139
6
HOH
HOH
1139
H
HOH
1140
6
HOH
HOH
1140
H
HOH
1142
6
HOH
HOH
1142
H
HOH
1073
6
HOH
HOH
1073
I
HOH
1108
6
HOH
HOH
1108
I
HOH
1122
6
HOH
HOH
1122
I
n
1
H
1
L
n
2
G
1
L
n
3
F
1
L
n
4
E
1
L
n
5
D
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
L
14
L
n
35
M
14
L
n
36
N
14
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
148
H
n
149
149
H
n
150
A
149
H
n
151
B
149
H
n
152
C
149
H
n
153
D
149
H
n
154
E
149
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
GLY
246
n
258
GLY
246
H
n
259
247
H
n
1
54
I
ASP
55
n
2
ASP
55
I
PHE
56
n
3
PHE
56
I
GLU
57
n
4
GLU
57
I
GLU
58
n
5
GLU
58
I
ILE
59
n
6
ILE
59
I
PRO
60
n
7
PRO
60
I
GLU
61
n
8
GLU
61
I
GLU
62
n
9
GLU
62
I
TYS
63
n
10
TYS
63
I
LEU
64
n
11
LEU
64
I
0.1696
0.1965
0.1577
0.18
0.2698
0.309
516
709
4.7
4.8
10955
author_and_software_defined_assembly
PISA
3
trimeric
3680
-34
12530
I
TYS
63
O-SULFO-L-TYROSINE
C
TYS
10
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
1
H
HOH
1033
H
HOH
1
H
HOH
1061
H
HOH
1
H
CG
ARG
50
B
CG
ARG
36
1
Y
1
H
CD
ARG
50
B
CD
ARG
36
1
Y
1
H
NE
ARG
50
B
NE
ARG
36
1
Y
1
H
CZ
ARG
50
B
CZ
ARG
36
1
Y
1
H
NH1
ARG
50
B
NH1
ARG
36
1
Y
1
H
NH2
ARG
50
B
NH2
ARG
36
1
Y
1
H
CG
ARG
75
B
CG
ARG
70
1
Y
1
H
CD
ARG
75
B
CD
ARG
70
1
Y
1
H
NE
ARG
75
B
NE
ARG
70
1
Y
1
H
CZ
ARG
75
B
CZ
ARG
70
1
Y
1
H
NH1
ARG
75
B
NH1
ARG
70
1
Y
1
H
NH2
ARG
75
B
NH2
ARG
70
1
Y
A
1
H
CG
ASP
186
B
CG
ASP
193
1
Y
A
1
H
OD1
ASP
186
B
OD1
ASP
193
1
Y
A
1
H
OD2
ASP
186
B
OD2
ASP
193
1
Y
1
H
CG
LYS
236
B
CG
LYS
248
1
Y
1
H
CD
LYS
236
B
CD
LYS
248
1
Y
1
H
CE
LYS
236
B
CE
LYS
248
1
Y
1
H
NZ
LYS
236
B
NZ
LYS
248
1
Y
1
I
CG
GLU
61
C
CG
GLU
8
1
Y
1
I
CD
GLU
61
C
CD
GLU
8
1
Y
1
I
OE1
GLU
61
C
OE1
GLU
8
1
Y
1
I
OE2
GLU
61
C
OE2
GLU
8
1
Y
H
1
L
THR
1
A
THR
1
1
Y
G
1
L
PHE
1
A
PHE
2
1
Y
F
1
L
GLY
1
A
GLY
3
1
Y
E
1
L
SER
1
A
SER
4
1
Y
D
1
L
GLY
1
A
GLY
5
1
Y
L
1
L
ASP
14
A
ASP
34
1
Y
M
1
L
GLY
14
A
GLY
35
1
Y
N
1
L
ARG
14
A
ARG
36
1
Y
1
H
TRP
148
B
TRP
148
1
Y
1
H
THR
149
B
THR
149
1
Y
A
1
H
ALA
149
B
ALA
150
1
Y
B
1
H
ASN
149
B
ASN
151
1
Y
C
1
H
VAL
149
B
VAL
152
1
Y
D
1
H
GLY
149
B
GLY
153
1
Y
E
1
H
LYS
149
B
LYS
154
1
Y
1
H
GLU
247
B
GLU
259
1
Y
1
I
GLY
54
C
GLY
1
1
Y
1
I
TYS
63
12.53
D
D
D
1
3.30
0.50
120.30
123.60
L
L
L
NE
CZ
NH1
ARG
ARG
ARG
14
14
14
N
1
L
PHE
7
-132.83
-85.55
1
H
CYS
42
160.65
160.52
A
1
H
TYR
60
-152.80
81.09
G
1
H
ASN
60
-153.21
78.73
1
H
HIS
71
-126.01
-60.34
1
H
ASN
78
75.08
-12.35
1
H
ILE
79
-108.79
-63.00
A
1
H
GLU
97
-103.37
-75.18
1
H
SER
195
-29.46
132.36
1
H
SER
214
-120.32
-64.83
1
I
GLU
62
-61.10
-168.02
ANISOTROPIC SCALING APPLIED BY THE METHOD OF PARKIN, MOEZZI & HOPE, J.APPL.CRYST.28(1995)53-56
0.2982
0.1756
0.1965
0.18
2.25
10.00
10022
709
14832
14832
9725
4.8
88.0
RANDOM
1
FREE R
0.0
MOLECULAR REPLACEMENT
PDB entry 1H8D
Engh & Huber
1
0.00
2497.00
2.25
10.00
142
2498
24
0
2332
0.005
0.020
0.000
0.0261
0.027
0.033
0.009
0.000
0.091
0.000
2.25
20
2ZFP
15884
15884
0.082
1
12.1
2.2
93.8
2.25
2.29
2.8
786
0.317
1
2.0
90.3
model building
SHELX
refinement
SHELXL-97
data collection
CrystalClear
data reduction
HKL-2000
data scaling
HKL-2000
phasing
CNS
Thrombin Inibition
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
5
N
N
6
N
N
6
N
N
6
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
LEU
59
B
LEU
45
1
3
5
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
SER
171
B
SER
176
1
7
8
H
LYS
185
B
LYS
191
HELX_P
H
GLY
186
B
GLY
195
5
8
5
C
H
LEU
234
B
LEU
246
HELX_P
H
PHE
245
B
PHE
257
1
9
12
disulf
2.029
L
CYS
1
A
SG
CYS
9
1_555
H
CYS
122
B
SG
CYS
119
1_555
disulf
2.020
H
CYS
42
B
SG
CYS
28
1_555
H
CYS
58
B
SG
CYS
44
1_555
disulf
1.885
H
CYS
168
B
SG
CYS
173
1_555
H
CYS
182
B
SG
CYS
187
1_555
disulf
2.182
H
CYS
191
B
SG
CYS
201
1_555
H
CYS
220
B
SG
CYS
231
1_555
Blood Clotting/Hydrolase Inhibitor
Blood Clotting/Hydrolase Inhibitor, Acute phase, Blood coagulation, Cleavage on pair of basic residues, Disease mutation, Gamma-carboxyglutamic acid, Glycoprotein, Kringle, Protease, Secreted, Serine protease, Zymogen, Blood Clotting-Hydrolase Inhibitor complex
H
SER
36
B
SER
22
A
1
H
PRO
37
B
PRO
23
-1.15
THRB_HUMAN
UNP
1
328
P00734
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
THRB_HUMAN
UNP
2
364
P00734
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
ITH1_HIRME
UNP
3
54
P01050
GDFEEIPEEYL
328
363
2ZFP
1
14
P00734
H
N
L
1
1
36
364
622
2ZFP
16
247
P00734
H
2
1
259
54
64
2ZFP
54
64
P01050
I
3
1
11
1
H
LYS
135
B
LYS
135
H
GLY
140
B
GLY
140
BINDING SITE FOR RESIDUE NA H 802
H
NA
802
Software
5
BINDING SITE FOR RESIDUE NA H 803
H
NA
803
Software
4
BINDING SITE FOR RESIDUE 19U H 801
H
19U
801
Software
11
BINDING SITE FOR CHAIN I OF HIRUDIN VARIANT-1
Software
14
H
ARG
221
B
ARG
233
A
5
1_555
H
LYS
224
B
LYS
236
5
1_555
H
HOH
1045
H
HOH
5
1_555
H
HOH
1087
H
HOH
5
1_555
H
HOH
1090
H
HOH
5
1_555
H
LYS
169
B
LYS
174
4
1_555
H
THR
172
B
THR
177
4
1_555
H
PHE
204
B
PHE
215
A
4
4_546
H
HOH
1119
H
HOH
4
4_546
H
HIS
57
B
HIS
43
11
1_555
H
TYR
60
B
TYR
47
A
11
1_555
H
ALA
190
B
ALA
200
11
1_555
H
SER
195
B
SER
205
11
1_555
H
VAL
213
B
VAL
225
11
1_555
H
SER
214
B
SER
226
11
1_555
H
TRP
215
B
TRP
227
11
1_555
H
GLY
216
B
GLY
228
11
1_555
H
GLY
226
B
GLY
238
11
1_555
H
PHE
227
B
PHE
239
11
1_555
H
HOH
1071
H
HOH
11
1_555
H
PHE
34
B
PHE
19
14
1_555
H
GLN
38
B
GLN
24
14
1_555
H
GLU
39
B
GLU
25
14
1_555
H
LEU
40
B
LEU
26
14
1_555
H
LEU
65
B
LEU
60
14
1_555
H
ARG
67
B
ARG
62
14
1_555
H
ARG
73
B
ARG
68
14
1_555
H
THR
74
B
THR
69
14
1_555
H
TYR
76
B
TYR
71
14
1_555
H
LYS
81
B
LYS
77
14
1_555
H
ILE
82
B
ILE
78
14
1_555
H
HOH
1135
H
HOH
14
1_555
I
HOH
1073
I
HOH
14
1_555
I
HOH
1108
I
HOH
14
1_555
5
C 1 2 1