0.014104
0.000000
0.002716
0.000000
0.013850
0.000000
0.000000
0.000000
0.013912
0.00000
0.00000
0.00000
Tulinsky, A.
Krishnan, R.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
100.90
90.00
70.900
72.200
73.200
C7 H15 N4 O3 1
203.219
amino{[(4S)-4-amino-5-carboxy-5-oxopentyl]amino}methaniminium
peptide-like
C8 H16 O2
144.211
2-PROPYL-PENTANOIC ACID
non-polymer
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
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
C
N
7
N
C
N
8
N
N
N
9
N
C
N
10
N
N
N
11
N
N
N
12
N
C
N
13
N
O
N
14
N
O
N
15
N
H
N
16
N
H
N
17
N
H
N
18
N
H
N
19
N
H
N
20
N
H
N
21
N
H
N
22
N
H
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
C
N
31
N
C
N
32
N
C
N
33
N
C
N
34
N
C
N
35
N
C
N
36
N
C
N
37
N
C
N
38
N
O
N
39
N
O
N
40
N
H
N
41
N
H
N
42
N
H
N
43
N
H
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
H
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
N
N
57
S
C
N
58
N
C
N
59
N
O
N
60
N
C
N
61
N
O
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
N
N
70
S
C
N
71
N
C
N
72
N
O
N
73
N
C
N
74
N
C
N
75
N
C
N
76
N
N
N
77
N
C
N
78
N
N
N
79
N
N
N
80
N
O
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
N
N
97
S
C
N
98
N
C
N
99
N
O
N
100
N
C
N
101
N
C
N
102
N
O
N
103
N
N
N
104
N
O
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
N
N
114
S
C
N
115
N
C
N
116
N
O
N
117
N
C
N
118
N
C
N
119
N
O
N
120
N
O
N
121
N
O
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
N
N
130
R
C
N
131
N
C
N
132
N
O
N
133
N
C
N
134
N
S
N
135
N
O
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
N
N
144
S
C
N
145
N
C
N
146
N
O
N
147
N
C
N
148
N
C
N
149
N
C
N
150
N
O
N
151
N
N
N
152
N
O
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
N
N
164
S
C
N
165
N
C
N
166
N
O
N
167
N
C
N
168
N
C
N
169
N
C
N
170
N
O
N
171
N
O
N
172
N
O
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
N
N
183
N
C
N
184
N
C
N
185
N
O
N
186
N
O
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
N
N
193
S
C
N
194
N
C
N
195
N
O
N
196
N
C
Y
197
N
C
Y
198
N
N
Y
199
N
C
Y
200
N
C
Y
201
N
N
N
202
N
O
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
H
N
211
N
H
N
212
N
H
N
213
N
O
N
214
N
H
N
215
N
H
N
216
N
N
N
217
S
C
N
218
N
C
N
219
N
O
N
220
S
C
N
221
N
C
N
222
N
C
N
223
N
C
N
224
N
O
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
H
N
236
N
H
N
237
N
H
N
238
N
N
N
239
S
C
N
240
N
C
N
241
N
O
N
242
N
C
N
243
N
C
N
244
N
C
N
245
N
C
N
246
N
O
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
H
N
258
N
H
N
259
N
H
N
260
N
N
N
261
S
C
N
262
N
C
N
263
N
O
N
264
N
C
N
265
N
C
N
266
N
C
N
267
N
C
N
268
N
N
N
269
N
O
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
H
N
283
N
H
N
284
N
H
N
285
N
N
N
286
S
C
N
287
N
C
N
288
N
O
N
289
N
C
N
290
N
C
N
291
N
S
N
292
N
C
N
293
N
O
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
H
N
303
N
H
N
304
N
H
N
305
N
N
N
306
S
C
N
307
N
C
N
308
N
O
N
309
N
C
Y
310
N
C
Y
311
N
C
Y
312
N
C
Y
313
N
C
Y
314
N
C
Y
315
N
C
N
316
N
O
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
H
N
327
N
H
N
328
N
N
N
329
S
C
N
330
N
C
N
331
N
O
N
332
N
C
N
333
N
C
N
334
N
C
N
335
N
O
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
N
C
N
350
N
O
N
351
N
O
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
N
N
360
S
C
N
361
N
C
N
362
N
O
N
363
R
C
N
364
N
O
N
365
N
C
N
366
N
O
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
H
N
375
N
H
N
376
N
N
N
377
S
C
N
378
N
C
N
379
N
O
N
380
N
C
Y
381
N
C
Y
382
N
C
Y
383
N
C
Y
384
N
N
Y
385
N
C
Y
386
N
C
Y
387
N
C
Y
388
N
C
Y
389
N
C
N
390
N
O
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
H
N
402
N
H
N
403
N
N
N
404
S
C
N
405
N
C
N
406
N
O
N
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
Y
412
N
C
Y
413
N
C
N
414
N
O
N
415
N
O
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
N
N
428
S
C
N
429
N
C
N
430
N
O
N
431
N
C
N
432
N
C
N
433
N
C
N
434
N
O
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
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
doub
N
7
N
sing
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
sing
N
20
N
doub
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
doub
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
doub
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
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
doub
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
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
doub
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
doub
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
doub
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
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
doub
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
doub
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
doub
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
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
doub
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
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
doub
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
sing
N
177
N
sing
N
178
N
sing
N
179
N
doub
N
180
N
sing
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
doub
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
Y
193
N
sing
Y
194
N
doub
Y
195
N
doub
N
196
N
sing
Y
197
N
sing
N
198
N
sing
Y
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
doub
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
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
doub
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
doub
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
doub
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
doub
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
Y
301
N
doub
Y
302
N
sing
Y
303
N
sing
N
304
N
sing
Y
305
N
doub
N
306
N
sing
Y
307
N
doub
N
308
N
sing
Y
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
doub
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
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
doub
N
337
N
sing
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
doub
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
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
doub
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
Y
370
N
doub
Y
371
N
sing
Y
372
N
sing
N
373
N
sing
Y
374
N
doub
Y
375
N
sing
Y
376
N
sing
N
377
N
sing
Y
378
N
sing
Y
379
N
doub
N
380
N
sing
Y
381
N
doub
N
382
N
sing
Y
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
doub
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
Y
398
N
doub
Y
399
N
sing
Y
400
N
sing
N
401
N
sing
Y
402
N
doub
N
403
N
sing
Y
404
N
doub
N
405
N
sing
Y
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
doub
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
US
Protein Sci.
PRCIEI
0795
0961-8368
5
422
433
8868478
Synthesis, structure, and structure-activity relationships of divalent thrombin inhibitors containing an alpha-keto-amide transition-state mimetic.
1996
US
Biochemistry
BICHAW
0033
0006-2960
31
11689
Structure of the Hirulog 3-Thrombin Complex and Nature of the S' Subsites of Substrates and Inhibitors
1992
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
221
1379
Structure of the Hirugen and Hirulog 1 Complexes of Alpha-Thrombin
1991
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
221
583
Refined Structure of the Hirudin-Thrombin Complex
1991
10.2210/pdb1dit/pdb
pdb_00001dit
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
x-ray
1
1.0
4096.534
ALPHA-THROMBIN
3.4.21.5
1
nat
polymer
29780.219
ALPHA-THROMBIN
3.4.21.5
1
nat
polymer
2134.238
PEPTIDE INHIBITOR CVS995
1
man
polymer
18.015
water
165
nat
water
no
no
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
L
polypeptide(L)
no
no
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
H
polypeptide(L)
no
yes
(2PP)DP(0MG)GGGGGNGDFEEIPEYL
XDPXGGGGGNGDFEEIPEYL
P
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
human
Homo
sample
9606
Homo sapiens
human
Homo
sample
9606
Homo sapiens
2.55
51.83
atom_site
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_validate_main_chain_plane
pdbx_validate_peptide_omega
struct_conn
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Atomic model
Data collection
Database references
Derived calculations
Other
1
0
1996-06-10
1
1
2008-03-03
1
2
2011-07-13
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_database_status.process_site
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
Y
BNL
1995-07-20
REL
HOH
water
THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND 16. CHAIN
IDENTIFIER *L* IS USED FOR RESIDUES 1H - 15 AND CHAIN
IDENTIFIER *H* IS USED FOR RESIDUES 16 - 247. CHAIN
IDENTIFIER *P* IS USED FOR THE DIVALENT INHIBITOR CVS995.
CHYMOTRYPSIN NUMBERING SYSTEM IS USED FOR THROMBIN, BASED
ON THE TOPOLOGICAL ALIGNMENT WITH THE STRUCTURE OF
CHYMOTRYPSIN (BODE, W., ET AL., 1989, EMBO J. 8, 3467 -
3475).
HOH
404
4
HOH
HOH
404
L
HOH
418
4
HOH
HOH
418
L
HOH
431
4
HOH
HOH
431
L
HOH
443
4
HOH
HOH
443
L
HOH
446
4
HOH
HOH
446
L
HOH
458
4
HOH
HOH
458
L
HOH
467
4
HOH
HOH
467
L
HOH
470
4
HOH
HOH
470
L
HOH
517
4
HOH
HOH
517
L
HOH
560
4
HOH
HOH
560
L
HOH
602
4
HOH
HOH
602
L
HOH
617
4
HOH
HOH
617
L
HOH
628
4
HOH
HOH
628
L
HOH
657
4
HOH
HOH
657
L
HOH
667
4
HOH
HOH
667
L
HOH
747
4
HOH
HOH
747
L
HOH
763
4
HOH
HOH
763
L
HOH
777
4
HOH
HOH
777
L
HOH
784
4
HOH
HOH
784
L
HOH
790
4
HOH
HOH
790
L
HOH
401
4
HOH
HOH
401
H
HOH
405
4
HOH
HOH
405
H
HOH
406
4
HOH
HOH
406
H
HOH
407
4
HOH
HOH
407
H
HOH
409
4
HOH
HOH
409
H
HOH
410
4
HOH
HOH
410
H
HOH
411
4
HOH
HOH
411
H
HOH
412
4
HOH
HOH
412
H
HOH
413
4
HOH
HOH
413
H
HOH
414
4
HOH
HOH
414
H
HOH
415
4
HOH
HOH
415
H
HOH
416
4
HOH
HOH
416
H
HOH
417
4
HOH
HOH
417
H
HOH
419
4
HOH
HOH
419
H
HOH
420
4
HOH
HOH
420
H
HOH
421
4
HOH
HOH
421
H
HOH
422
4
HOH
HOH
422
H
HOH
424
4
HOH
HOH
424
H
HOH
425
4
HOH
HOH
425
H
HOH
426
4
HOH
HOH
426
H
HOH
427
4
HOH
HOH
427
H
HOH
428
4
HOH
HOH
428
H
HOH
429
4
HOH
HOH
429
H
HOH
430
4
HOH
HOH
430
H
HOH
432
4
HOH
HOH
432
H
HOH
433
4
HOH
HOH
433
H
HOH
434
4
HOH
HOH
434
H
HOH
435
4
HOH
HOH
435
H
HOH
436
4
HOH
HOH
436
H
HOH
437
4
HOH
HOH
437
H
HOH
438
4
HOH
HOH
438
H
HOH
439
4
HOH
HOH
439
H
HOH
440
4
HOH
HOH
440
H
HOH
441
4
HOH
HOH
441
H
HOH
442
4
HOH
HOH
442
H
HOH
444
4
HOH
HOH
444
H
HOH
445
4
HOH
HOH
445
H
HOH
447
4
HOH
HOH
447
H
HOH
448
4
HOH
HOH
448
H
HOH
451
4
HOH
HOH
451
H
HOH
452
4
HOH
HOH
452
H
HOH
454
4
HOH
HOH
454
H
HOH
455
4
HOH
HOH
455
H
HOH
456
4
HOH
HOH
456
H
HOH
457
4
HOH
HOH
457
H
HOH
460
4
HOH
HOH
460
H
HOH
461
4
HOH
HOH
461
H
HOH
462
4
HOH
HOH
462
H
HOH
464
4
HOH
HOH
464
H
HOH
465
4
HOH
HOH
465
H
HOH
469
4
HOH
HOH
469
H
HOH
500
4
HOH
HOH
500
H
HOH
501
4
HOH
HOH
501
H
HOH
503
4
HOH
HOH
503
H
HOH
504
4
HOH
HOH
504
H
HOH
505
4
HOH
HOH
505
H
HOH
506
4
HOH
HOH
506
H
HOH
507
4
HOH
HOH
507
H
HOH
508
4
HOH
HOH
508
H
HOH
509
4
HOH
HOH
509
H
HOH
511
4
HOH
HOH
511
H
HOH
512
4
HOH
HOH
512
H
HOH
513
4
HOH
HOH
513
H
HOH
514
4
HOH
HOH
514
H
HOH
515
4
HOH
HOH
515
H
HOH
516
4
HOH
HOH
516
H
HOH
518
4
HOH
HOH
518
H
HOH
519
4
HOH
HOH
519
H
HOH
521
4
HOH
HOH
521
H
HOH
524
4
HOH
HOH
524
H
HOH
526
4
HOH
HOH
526
H
HOH
528
4
HOH
HOH
528
H
HOH
529
4
HOH
HOH
529
H
HOH
530
4
HOH
HOH
530
H
HOH
531
4
HOH
HOH
531
H
HOH
536
4
HOH
HOH
536
H
HOH
537
4
HOH
HOH
537
H
HOH
538
4
HOH
HOH
538
H
HOH
542
4
HOH
HOH
542
H
HOH
543
4
HOH
HOH
543
H
HOH
547
4
HOH
HOH
547
H
HOH
549
4
HOH
HOH
549
H
HOH
550
4
HOH
HOH
550
H
HOH
552
4
HOH
HOH
552
H
HOH
555
4
HOH
HOH
555
H
HOH
556
4
HOH
HOH
556
H
HOH
558
4
HOH
HOH
558
H
HOH
561
4
HOH
HOH
561
H
HOH
562
4
HOH
HOH
562
H
HOH
563
4
HOH
HOH
563
H
HOH
565
4
HOH
HOH
565
H
HOH
568
4
HOH
HOH
568
H
HOH
572
4
HOH
HOH
572
H
HOH
600
4
HOH
HOH
600
H
HOH
601
4
HOH
HOH
601
H
HOH
611
4
HOH
HOH
611
H
HOH
618
4
HOH
HOH
618
H
HOH
621
4
HOH
HOH
621
H
HOH
623
4
HOH
HOH
623
H
HOH
636
4
HOH
HOH
636
H
HOH
659
4
HOH
HOH
659
H
HOH
661
4
HOH
HOH
661
H
HOH
666
4
HOH
HOH
666
H
HOH
677
4
HOH
HOH
677
H
HOH
710
4
HOH
HOH
710
H
HOH
713
4
HOH
HOH
713
H
HOH
714
4
HOH
HOH
714
H
HOH
715
4
HOH
HOH
715
H
HOH
716
4
HOH
HOH
716
H
HOH
717
4
HOH
HOH
717
H
HOH
720
4
HOH
HOH
720
H
HOH
721
4
HOH
HOH
721
H
HOH
722
4
HOH
HOH
722
H
HOH
723
4
HOH
HOH
723
H
HOH
724
4
HOH
HOH
724
H
HOH
725
4
HOH
HOH
725
H
HOH
728
4
HOH
HOH
728
H
HOH
731
4
HOH
HOH
731
H
HOH
742
4
HOH
HOH
742
H
HOH
748
4
HOH
HOH
748
H
HOH
750
4
HOH
HOH
750
H
HOH
751
4
HOH
HOH
751
H
HOH
758
4
HOH
HOH
758
H
HOH
766
4
HOH
HOH
766
H
HOH
772
4
HOH
HOH
772
H
HOH
776
4
HOH
HOH
776
H
HOH
778
4
HOH
HOH
778
H
HOH
780
4
HOH
HOH
780
H
HOH
788
4
HOH
HOH
788
H
HOH
789
4
HOH
HOH
789
H
HOH
792
4
HOH
HOH
792
H
HOH
796
4
HOH
HOH
796
H
HOH
798
4
HOH
HOH
798
H
HOH
799
4
HOH
HOH
799
H
HOH
807
4
HOH
HOH
807
H
HOH
811
4
HOH
HOH
811
H
HOH
816
4
HOH
HOH
816
H
HOH
819
4
HOH
HOH
819
H
HOH
403
4
HOH
HOH
403
P
HOH
423
4
HOH
HOH
423
P
HOH
525
4
HOH
HOH
525
P
HOH
639
4
HOH
HOH
639
P
HOH
662
4
HOH
HOH
662
P
HOH
741
4
HOH
HOH
741
P
HOH
791
4
HOH
HOH
791
P
n
1
H
1
L
n
2
G
1
L
n
3
F
1
L
n
4
E
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
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
n
147
A
146
H
n
148
B
146
H
n
149
C
146
H
n
150
D
146
H
n
151
E
146
H
n
152
F
146
H
n
153
G
146
H
n
154
H
146
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
GLU
247
n
259
GLU
247
H
2PP
1
n
1
2PP
1
P
ASP
2
n
2
ASP
2
P
PRO
3
n
3
PRO
3
P
0MG
4
n
4
0MG
4
P
GLY
5
n
5
GLY
5
P
GLY
6
n
6
GLY
6
P
GLY
7
n
7
GLY
7
P
GLY
8
n
8
GLY
8
P
GLY
9
n
9
GLY
9
P
ASN
10
n
10
ASN
10
P
GLY
11
n
11
GLY
11
P
ASP
12
n
12
ASP
12
P
PHE
13
n
13
PHE
13
P
GLU
14
n
14
GLU
14
P
GLU
15
n
15
GLU
15
P
ILE
16
n
16
ILE
16
P
n
17
17
P
n
18
18
P
n
19
19
P
n
20
20
P
0.149
author_and_software_defined_assembly
PISA
3
trimeric
5030
-6
12180
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
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
1
H
CG
ARG
126
B
CG
ARG
123
1
Y
1
H
CD
ARG
126
B
CD
ARG
123
1
Y
1
H
NE
ARG
126
B
NE
ARG
123
1
Y
1
H
CZ
ARG
126
B
CZ
ARG
123
1
Y
1
H
NH1
ARG
126
B
NH1
ARG
123
1
Y
1
H
NH2
ARG
126
B
NH2
ARG
123
1
Y
1
H
CG
GLN
244
B
CG
GLN
256
1
Y
1
H
CD
GLN
244
B
CD
GLN
256
1
Y
1
H
OE1
GLN
244
B
OE1
GLN
256
1
Y
1
H
NE2
GLN
244
B
NE2
GLN
256
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
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
A
1
H
THR
146
B
THR
147
1
Y
B
1
H
TRP
146
B
TRP
148
1
Y
C
1
H
THR
146
B
THR
149
1
Y
D
1
H
ALA
146
B
ALA
150
1
Y
E
1
H
ASN
146
B
ASN
151
1
Y
F
1
H
VAL
146
B
VAL
152
1
Y
G
1
H
GLY
146
B
GLY
153
1
Y
H
1
H
LYS
146
B
LYS
154
1
Y
1
P
PRO
17
C
PRO
17
1
Y
1
P
GLU
18
C
GLU
18
1
Y
1
P
TYR
19
C
TYR
19
1
Y
1
P
LEU
20
C
LEU
20
1
Y
1
H
H
O
N
ARG
ASP
101
102
1.67
D
H
1
L
L
NE
OE2
ARG
GLU
14
14
1.98
1
H
H
O
O
THR
HOH
172
420
2.08
1
H
P
NE2
O
GLN
GLY
151
7
2.12
1
H
H
O
N
ARG
ILE
101
103
2.12
I
1
H
H
OG1
ND2
THR
ASN
60
62
2.17
1
H
ARG
101
11.65
1
H
GLU
192
14.29
1
P
P
PRO
0MG
3
4
140.37
1
L
ARG
4
0.211
SIDE CHAIN
1
H
ARG
50
0.300
SIDE CHAIN
1
H
ARG
73
0.146
SIDE CHAIN
1
H
ARG
93
0.320
SIDE CHAIN
1
H
ARG
101
0.157
SIDE CHAIN
A
1
H
ARG
221
0.165
SIDE CHAIN
1
L
L
C
N
LEU
GLU
12
13
1.16
1
H
H
C
N
ARG
ASP
101
102
0.84
1
H
H
C
N
CYS
GLU
191
192
1.61
D
D
C
1
-13.99
2.20
117.20
103.21
L
L
L
CA
C
N
GLY
GLY
GLU
1
1
1
Y
D
D
C
1
13.87
1.60
122.70
136.57
L
L
L
O
C
N
GLY
GLY
GLU
1
1
1
Y
1
3.43
0.50
120.30
123.73
L
L
L
NE
CZ
NH2
ARG
ARG
ARG
4
4
4
N
1
35.26
2.60
111.60
146.86
L
L
L
CB
CG
CD
LYS
LYS
LYS
9
9
9
N
1
14.81
2.20
113.40
128.21
L
L
L
CA
CB
CG
LYS
LYS
LYS
10
10
10
N
1
-11.14
1.60
122.70
111.56
L
L
L
O
C
N
LEU
LEU
GLU
12
12
13
Y
D
D
D
1
3.76
0.50
120.30
124.06
L
L
L
NE
CZ
NH2
ARG
ARG
ARG
14
14
14
N
1
9.88
1.60
122.70
132.58
H
H
H
O
C
N
SER
SER
ASP
20
20
21
Y
1
6.64
0.90
118.30
124.94
H
H
H
CB
CG
OD1
ASP
ASP
ASP
21
21
21
N
1
-11.61
1.50
110.50
98.89
H
H
H
N
CA
CB
SER
SER
SER
27
27
27
N
1
6.64
1.10
119.40
126.04
H
H
H
NH1
CZ
NH2
ARG
ARG
ARG
35
35
35
N
1
4.33
0.50
120.30
124.63
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
35
35
35
N
1
-11.32
0.50
120.30
108.98
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
35
35
35
N
1
-11.78
1.80
110.60
98.82
H
H
H
N
CA
CB
CYS
CYS
CYS
42
42
42
N
1
5.80
0.90
118.30
124.10
H
H
H
CB
CG
OD1
ASP
ASP
ASP
49
49
49
N
1
-6.14
0.50
120.30
114.16
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
50
50
50
N
A
A
A
1
-4.67
0.60
121.00
116.33
H
H
H
CB
CG
CD1
TYR
TYR
TYR
60
60
60
N
1
-6.38
0.90
118.30
111.92
H
H
H
CB
CG
OD1
ASP
ASP
ASP
63
63
63
N
1
8.06
0.90
118.30
126.36
H
H
H
CB
CG
OD2
ASP
ASP
ASP
63
63
63
N
1
28.17
2.10
111.80
139.97
H
H
H
CG
CD
NE
ARG
ARG
ARG
67
67
67
N
1
45.56
1.40
123.60
169.16
H
H
H
CD
NE
CZ
ARG
ARG
ARG
67
67
67
N
1
12.89
0.50
120.30
133.19
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
67
67
67
N
1
-6.42
0.50
120.30
113.88
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
67
67
67
N
1
-12.03
1.90
110.30
98.27
H
H
H
N
CA
CB
THR
THR
THR
74
74
74
N
1
15.94
2.10
120.10
136.04
H
H
H
CA
C
O
GLU
GLU
GLU
77
77
77
N
A
A
A
1
8.70
1.40
123.60
132.30
H
H
H
CD
NE
CZ
ARG
ARG
ARG
77
77
77
N
A
A
A
1
-6.86
0.50
120.30
113.44
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
77
77
77
N
A
A
A
1
-13.89
2.10
120.10
106.21
H
H
H
CA
C
O
ARG
ARG
ARG
77
77
77
N
A
A
1
19.38
2.20
117.20
136.58
H
H
H
CA
C
N
ARG
ARG
ASN
77
77
78
Y
A
1
-17.85
2.50
121.70
103.85
H
H
H
C
N
CA
ARG
ASN
ASN
77
78
78
Y
1
-12.51
2.00
118.30
105.79
H
H
H
CG
CD
OE1
GLU
GLU
GLU
80
80
80
N
1
9.17
1.50
110.50
119.67
H
H
H
N
CA
CB
SER
SER
SER
83
83
83
N
1
11.93
1.60
122.70
134.63
H
H
H
O
C
N
SER
SER
MET
83
83
84
Y
1
-10.36
1.70
111.00
100.64
H
H
H
CB
CG
CD2
LEU
LEU
LEU
85
85
85
N
1
11.15
1.60
122.70
133.85
H
H
H
O
C
N
LEU
LEU
GLU
85
85
86
Y
1
6.05
1.00
109.00
115.05
H
H
H
CG
ND1
CE1
HIS
HIS
HIS
91
91
91
N
1
4.55
0.70
109.00
113.55
H
H
H
CE1
NE2
CD2
HIS
HIS
HIS
91
91
91
N
1
20.80
2.60
111.60
132.40
H
H
H
CB
CG
CD
ARG
ARG
ARG
93
93
93
N
1
-16.67
2.10
111.80
95.13
H
H
H
CG
CD
NE
ARG
ARG
ARG
93
93
93
N
1
-17.22
1.40
123.60
106.38
H
H
H
CD
NE
CZ
ARG
ARG
ARG
93
93
93
N
1
11.67
0.50
120.30
131.97
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
93
93
93
N
1
-7.54
0.50
120.30
112.76
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
93
93
93
N
1
9.07
1.10
119.40
128.47
H
H
H
NH1
CZ
NH2
ARG
ARG
ARG
97
97
97
N
1
-9.99
0.50
120.30
110.31
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
97
97
97
N
A
A
A
1
9.67
1.20
123.30
132.97
H
H
H
OE1
CD
OE2
GLU
GLU
GLU
97
97
97
N
1
15.06
2.00
110.40
125.46
H
H
H
CB
CA
C
ARG
ARG
ARG
101
101
101
N
1
3.99
0.50
120.30
124.29
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
101
101
101
N
1
-16.34
1.60
122.70
106.36
H
H
H
O
C
N
ARG
ARG
ASP
101
101
102
Y
1
-4.95
0.70
120.80
115.85
H
H
H
CB
CG
CD1
PHE
PHE
PHE
114
114
114
N
1
6.65
0.90
118.30
124.95
H
H
H
CB
CG
OD1
ASP
ASP
ASP
116
116
116
N
1
12.69
1.80
110.60
123.29
H
H
H
N
CA
CB
ARG
ARG
ARG
126
126
126
N
1
3.52
0.50
120.30
123.82
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
137
137
137
N
1
-15.20
2.20
111.50
96.30
H
H
H
N
CA
CB
VAL
VAL
VAL
154
154
154
N
1
-7.66
0.50
120.30
112.64
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
175
175
175
N
1
4.16
0.50
120.30
124.46
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
175
175
175
N
1
-8.28
0.90
118.30
110.02
H
H
H
CB
CG
OD2
ASP
ASP
ASP
178
178
178
N
1
-4.22
0.70
120.80
116.58
H
H
H
CB
CG
CD1
PHE
PHE
PHE
181
181
181
N
A
A
A
1
-5.24
0.60
121.00
115.76
H
H
H
CB
CG
CD1
TYR
TYR
TYR
184
184
184
N
B
B
B
1
16.63
2.70
114.20
130.83
H
H
H
CB
CG
CD
GLU
GLU
GLU
186
186
186
N
1
12.67
2.00
110.40
123.07
H
H
H
CB
CA
C
GLU
GLU
GLU
192
192
192
N
1
24.24
2.70
114.20
138.44
H
H
H
CB
CG
CD
GLU
GLU
GLU
192
192
192
N
1
-16.63
1.20
123.30
106.67
H
H
H
OE1
CD
OE2
GLU
GLU
GLU
192
192
192
N
1
-11.31
1.80
110.60
99.29
H
H
H
N
CA
CB
ASN
ASN
ASN
205
205
205
N
1
-14.22
2.20
113.40
99.18
H
H
H
CA
CB
CG
ASN
ASN
ASN
205
205
205
N
1
19.87
2.30
121.90
141.77
H
H
H
OD1
CG
ND2
ASN
ASN
ASN
205
205
205
N
1
-16.36
2.00
121.60
105.24
H
H
H
CB
CG
OD1
ASN
ASN
ASN
205
205
205
N
1
-5.25
0.50
120.30
115.05
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
206
206
206
N
1
-5.06
0.60
121.00
115.94
H
H
H
CB
CG
CD2
TYR
TYR
TYR
208
208
208
N
A
A
A
1
-9.35
1.40
123.60
114.25
H
H
H
CD
NE
CZ
ARG
ARG
ARG
221
221
221
N
1
-5.73
0.50
120.30
114.57
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
233
233
233
N
1
4.26
0.50
120.30
124.56
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
233
233
233
N
1
9.19
0.90
118.30
127.49
H
H
H
CB
CG
OD1
ASP
ASP
ASP
243
243
243
N
1
-15.59
2.10
120.10
104.51
H
H
H
CA
C
O
PHE
PHE
PHE
245
245
245
N
1
16.60
2.00
116.20
132.80
H
H
H
CA
C
N
PHE
PHE
GLY
245
245
246
Y
1
-12.42
1.70
123.20
110.78
P
P
P
O
C
N
0MG
0MG
GLY
4
4
5
Y
1
-16.04
2.10
122.30
106.26
P
P
P
C
N
CA
0MG
GLY
GLY
4
5
5
Y
1
L
L
C
N
LEU
GLU
12
13
-0.174
0.023
1.336
1.162
Y
1
H
H
N
CA
ASN
ASN
78
78
0.139
0.020
1.459
1.598
N
1
H
H
CD
NE
ARG
ARG
93
93
0.102
0.017
1.460
1.562
N
1
H
H
C
N
ARG
ASP
101
102
-0.496
0.023
1.336
0.840
Y
1
H
H
C
N
CYS
GLU
191
192
0.279
0.023
1.336
1.615
Y
C
1
L
GLU
1
-156.30
17.20
1
L
PHE
7
-132.75
-85.28
J
1
L
TYR
14
-70.85
30.87
1
H
PRO
37
-56.11
170.94
1
H
ALA
44
179.44
178.81
1
H
SER
48
-170.79
-166.72
A
1
H
TYR
60
-151.04
80.60
G
1
H
ASN
60
-153.40
67.81
1
H
HIS
71
-136.17
-56.48
1
H
ASP
102
-44.26
77.40
1
H
ASN
179
-78.44
21.19
1
H
ASN
205
49.37
23.64
1
P
ASN
10
49.21
27.36
1
P
ASP
12
-52.79
37.48
A FEW SIDE CHAINS IN BOTH THROMBIN AND RECEPTOR PEPTIDE DO
NOT HAVE WELL-DEFINED ELECTRON DENSITY. THESE ATOMS HAVE
BEEN GIVEN OCCUPANCIES OF 0.01 IN THE ENTRY. IN ADDITION
RESIDUES ARG A 75, ARG A 126, AND GLN A 244 HAVE NO SIDE
CHAIN ATOMS AS THEY DO NOT HAVE ELECTRON DENSITY.
2.3
7.0
13022
75.0
1
2.0
2.3
7.0
165
2530
0
0
2365
0.020
0.020
0.035
0.050
0.050
0.050
1.4
1.5
1.8
2.0
2.0
2.0
4.1
3.0
0.023
0.020
0.015
0.020
0.22
0.50
0.28
0.50
0.25
0.50
3.0
3.0
22.0
15
30.0
20
2.3
10.0
1DIT
14238
2.0
1
75.
refinement
PROLSQ
COMPLEX OF A DIVALENT INHIBITOR WITH THROMBIN
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
4
N
N
H
ALA
55
B
ALA
41
HELX_P
H
LEU
60
B
LEU
46
1
H1
6
H
GLU
164
B
GLU
169
HELX_P
H
SER
171
B
SER
176
1
H2
8
H
ASP
125
B
ASP
122
HELX_P
H
LEU
129
B
LEU
129
1
H3
8
C
H
VAL
231
B
VAL
243
HELX_P
H
GLN
244
B
GLN
256
1
H4
14
disulf
1.975
L
CYS
1
A
SG
CYS
9
1_555
H
CYS
122
B
SG
CYS
119
1_555
disulf
1.978
H
CYS
42
B
SG
CYS
28
1_555
H
CYS
58
B
SG
CYS
44
1_555
disulf
1.981
H
CYS
168
B
SG
CYS
173
1_555
H
CYS
182
B
SG
CYS
187
1_555
disulf
2.041
H
CYS
191
B
SG
CYS
201
1_555
H
CYS
220
B
SG
CYS
231
1_555
covale
1.737
none
H
SER
195
B
OG
SER
205
1_555
P
0MG
4
C
CA
0MG
4
1_555
covale
1.332
both
P
2PP
1
C
C1
2PP
1
1_555
P
ASP
2
C
N
ASP
2
1_555
covale
1.346
both
P
PRO
3
C
C
PRO
3
1_555
P
0MG
4
C
N
0MG
4
1_555
covale
1.413
both
P
0MG
4
C
C
0MG
4
1_555
P
GLY
5
C
N
GLY
5
1_555
HYDROLASE/HYDROLASE INHIBITOR
HYDROLASE, BLOOD COAGULATION, INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX
H
SER
36
B
SER
22
A
1
H
PRO
37
B
PRO
23
-4.37
THRB_HUMAN
UNP
1
328
P00734
THRB_HUMAN
UNP
2
364
P00734
1DIT
PDB
3
1DIT
328
363
1DIT
1
14
P00734
H
N
L
1
1
36
364
622
1DIT
16
247
P00734
H
2
1
259
1
20
1DIT
1
20
1DIT
P
3
1
20
7
7
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
PRO
28
B
PRO
13
H
ARG
35
B
ARG
20
H
CYS
42
B
CYS
28
H
ASP
49
B
ASP
35
H
ARG
50
B
ARG
36
H
ALA
56
B
ALA
42
H
ARG
101
B
ARG
98
H
LYS
110
B
LYS
107
H
LYS
81
B
LYS
77
H
PRO
92
B
PRO
88
H
ASP
63
B
ASP
58
H
GLY
69
B
GLY
64
H
PRO
28
B
PRO
13
H
ARG
35
B
ARG
20
H
GLY
133
B
GLY
133
H
TRP
141
B
TRP
141
H
LEU
155
B
LEU
160
H
ILE
162
B
ILE
167
H
ASN
179
B
ASN
184
H
PRO
186
B
PRO
192
H
GLY
223
B
GLY
235
H
THR
229
B
THR
241
H
ILE
212
B
ILE
224
H
GLU
217
B
GLU
229
H
GLY
193
B
GLY
203
H
MET
201
B
MET
211
H
GLY
133
B
GLY
133
H
TRP
141
B
TRP
141
Unknown
3
BINDING SITE FOR CHAIN P OF PEPTIDE INHIBITOR CVS995
Software
32
H
HIS
57
B
HIS
43
3
1_555
H
ASP
102
B
ASP
99
3
1_555
H
SER
195
B
SER
205
3
1_555
H
PHE
34
B
PHE
19
32
1_555
H
PRO
37
B
PRO
23
32
1_555
H
GLN
38
B
GLN
24
32
1_555
H
GLU
39
B
GLU
25
32
1_555
H
LEU
40
B
LEU
26
32
1_555
H
LEU
41
B
LEU
27
32
1_555
H
HIS
57
B
HIS
43
32
1_555
H
LYS
60
B
LYS
52
F
32
1_555
H
LEU
65
B
LEU
60
32
1_555
H
ARG
73
B
ARG
68
32
1_555
H
THR
74
B
THR
69
32
1_555
H
ARG
75
B
ARG
70
32
1_555
H
TYR
76
B
TYR
71
32
1_555
H
GLN
151
B
GLN
156
32
1_555
H
ASP
189
B
ASP
199
32
1_555
H
ALA
190
B
ALA
200
32
1_555
H
CYS
191
B
CYS
201
32
1_555
H
GLY
193
B
GLY
203
32
1_555
H
ASP
194
B
ASP
204
32
1_555
H
SER
195
B
SER
205
32
1_555
H
SER
214
B
SER
226
32
1_555
H
TRP
215
B
TRP
227
32
1_555
H
GLY
216
B
GLY
228
32
1_555
H
GLU
217
B
GLU
229
32
1_555
H
GLY
219
B
GLY
230
32
1_555
H
GLY
226
B
GLY
238
32
1_555
H
HOH
424
E
HOH
32
1_555
P
HOH
403
F
HOH
32
1_555
P
HOH
423
F
HOH
32
1_555
P
HOH
525
F
HOH
32
1_555
P
HOH
639
F
HOH
32
1_555
P
HOH
741
F
HOH
32
1_555
5
C 1 2 1