0.014059
0.000000
0.002393
0.000000
0.013772
0.000000
0.000000
0.000000
0.013963
0.00000
0.00000
0.00000
De Simone, G.
Balliano, G.
Milla, P.
Gallina, C.
Giordano, C.
Tarricone, C.
Rizzi, M.
Bolognesi, M.
Ascenzi, P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
99.66
90.00
71.130
72.610
72.650
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C17 H26 N4 O3
334.413
2-[N'-(4-AMINO-BUTYL)-HYDRAZINOCARBONYL]-PYRROLIDINE-1-CARBOXYLIC ACID BENZYL ESTER
peptide-like
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
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE
D-saccharide, beta 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
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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
269
558
569
10.1006/jmbi.1997.1037
9217260
Human alpha-thrombin inhibition by the highly selective compounds N-ethoxycarbonyl-D-Phe-Pro-alpha-azaLys p-nitrophenyl ester and N-carbobenzoxy-Pro-alpha-azaLys p-nitrophenyl ester: a kinetic, thermodynamic and X-ray crystallographic study.
1997
10.2210/pdb1afe/pdb
pdb_00001afe
NAG H 400 HAS WRONG CHIRALITY AT ATOM C2
NAG H 400 HAS WRONG CHIRALITY AT ATOM C4
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
1
IMAGE PLATE
1995-12
RIGAKU RAXIS IIC
GRAPHITE(002)
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH2R
4096.534
ALPHA-THROMBIN (SMALL SUBUNIT)
3.4.21.5
1
nat
polymer
29780.219
ALPHA-THROMBIN (LARGE SUBUNIT)
3.4.21.5
1
nat
polymer
1363.399
HIRUGEN
1
nat
polymer
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
1
man
non-polymer
334.413
2-[N'-(4-AMINO-BUTYL)-HYDRAZINOCARBONYL]-PYRROLIDINE-1-CARBOXYLIC ACID BENZYL ESTER
1
syn
non-polymer
18.015
water
150
nat
water
N-ACETYLHIRUDIN 53 - 64 WITH SULFATO-TYR 63
no
no
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR
L
polypeptide(L)
no
no
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
H
polypeptide(L)
no
yes
DFEEIPEE(TYS)L
DFEEIPEEYL
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
human
Homo
sample
9606
BLOOD
Homo sapiens
PLASMA
human
Homo
sample
9606
BLOOD
Homo sapiens
PLASMA
medicinal leech
Hirudo
sample
6421
Hirudo medicinalis
1
2.62
53.11
7.0
PEG 4000 15%, PH 7.0, 5X10-3 M AZALYS COMPOUND
chem_comp
database_PDB_caveat
entity
pdbx_chem_comp_identifier
pdbx_entity_nonpoly
pdbx_unobs_or_zero_occ_atoms
pdbx_unobs_or_zero_occ_residues
software
struct_conn
struct_site
struct_site_gen
chem_comp
database_2
pdbx_initial_refinement_model
pdbx_unobs_or_zero_occ_atoms
pdbx_unobs_or_zero_occ_residues
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Non-polymer description
Advisory
Data collection
Derived calculations
Refinement description
Structure summary
Advisory
Database references
Refinement description
Structure summary
1
0
1997-12-03
1
1
2008-03-24
1
2
2011-07-13
1
3
2012-04-11
1
4
2020-07-29
1
5
2023-08-02
_chem_comp.name
_chem_comp.type
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_software.name
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_role
_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
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
Y
BNL
1997-03-06
REL
REL
NAG
2-acetamido-2-deoxy-beta-D-glucopyranose
ALZ
2-[N'-(4-AMINO-BUTYL)-HYDRAZINOCARBONYL]-PYRROLIDINE-1-CARBOXYLIC ACID BENZYL ESTER
HOH
water
THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND 16. CHAIN
INDICATOR *L* IS USED FOR RESIDUES 1H - 15 AND CHAIN
INDICATOR *H* IS USED FOR RESIDUES 16 - 247. CHAIN
INDICATOR *I* IS USED FOR HIRUGEN INHIBITOR.
CHYMOTRYPSIN NUMBERING (RATHER THAN SEQUENTIAL) SYSTEM IS
USED, BASED ON THE TOPOLOGICAL ALIGNMENT WITH THE
STRUCTURE OF CHYMOTRYPSIN (W.BODE ET AL., 1989, EMBO J. 8,
3467-3475).
1HAH
PDB ENTRY 1HAH
PDB
experimental model
NAG
400
4
NAG
NAG
400
H
ALZ
600
5
ALZ
ALZ
600
H
HOH
432
6
HOH
HOH
432
L
HOH
437
6
HOH
HOH
437
L
HOH
438
6
HOH
HOH
438
L
HOH
445
6
HOH
HOH
445
L
HOH
448
6
HOH
HOH
448
L
HOH
459
6
HOH
HOH
459
L
HOH
460
6
HOH
HOH
460
L
HOH
463
6
HOH
HOH
463
L
HOH
492
6
HOH
HOH
492
L
HOH
503
6
HOH
HOH
503
L
HOH
507
6
HOH
HOH
507
L
HOH
518
6
HOH
HOH
518
L
HOH
530
6
HOH
HOH
530
L
HOH
535
6
HOH
HOH
535
L
HOH
536
6
HOH
HOH
536
L
HOH
540
6
HOH
HOH
540
L
HOH
542
6
HOH
HOH
542
L
HOH
558
6
HOH
HOH
558
L
HOH
559
6
HOH
HOH
559
L
HOH
401
6
HOH
HOH
401
H
HOH
402
6
HOH
HOH
402
H
HOH
403
6
HOH
HOH
403
H
HOH
404
6
HOH
HOH
404
H
HOH
405
6
HOH
HOH
405
H
HOH
406
6
HOH
HOH
406
H
HOH
407
6
HOH
HOH
407
H
HOH
408
6
HOH
HOH
408
H
HOH
409
6
HOH
HOH
409
H
HOH
410
6
HOH
HOH
410
H
HOH
411
6
HOH
HOH
411
H
HOH
412
6
HOH
HOH
412
H
HOH
413
6
HOH
HOH
413
H
HOH
414
6
HOH
HOH
414
H
HOH
415
6
HOH
HOH
415
H
HOH
416
6
HOH
HOH
416
H
HOH
417
6
HOH
HOH
417
H
HOH
418
6
HOH
HOH
418
H
HOH
419
6
HOH
HOH
419
H
HOH
420
6
HOH
HOH
420
H
HOH
421
6
HOH
HOH
421
H
HOH
422
6
HOH
HOH
422
H
HOH
423
6
HOH
HOH
423
H
HOH
424
6
HOH
HOH
424
H
HOH
425
6
HOH
HOH
425
H
HOH
426
6
HOH
HOH
426
H
HOH
427
6
HOH
HOH
427
H
HOH
428
6
HOH
HOH
428
H
HOH
429
6
HOH
HOH
429
H
HOH
430
6
HOH
HOH
430
H
HOH
431
6
HOH
HOH
431
H
HOH
433
6
HOH
HOH
433
H
HOH
434
6
HOH
HOH
434
H
HOH
435
6
HOH
HOH
435
H
HOH
436
6
HOH
HOH
436
H
HOH
439
6
HOH
HOH
439
H
HOH
440
6
HOH
HOH
440
H
HOH
441
6
HOH
HOH
441
H
HOH
442
6
HOH
HOH
442
H
HOH
443
6
HOH
HOH
443
H
HOH
444
6
HOH
HOH
444
H
HOH
446
6
HOH
HOH
446
H
HOH
447
6
HOH
HOH
447
H
HOH
449
6
HOH
HOH
449
H
HOH
450
6
HOH
HOH
450
H
HOH
451
6
HOH
HOH
451
H
HOH
452
6
HOH
HOH
452
H
HOH
453
6
HOH
HOH
453
H
HOH
454
6
HOH
HOH
454
H
HOH
455
6
HOH
HOH
455
H
HOH
456
6
HOH
HOH
456
H
HOH
457
6
HOH
HOH
457
H
HOH
458
6
HOH
HOH
458
H
HOH
461
6
HOH
HOH
461
H
HOH
462
6
HOH
HOH
462
H
HOH
464
6
HOH
HOH
464
H
HOH
465
6
HOH
HOH
465
H
HOH
466
6
HOH
HOH
466
H
HOH
467
6
HOH
HOH
467
H
HOH
468
6
HOH
HOH
468
H
HOH
469
6
HOH
HOH
469
H
HOH
470
6
HOH
HOH
470
H
HOH
472
6
HOH
HOH
472
H
HOH
473
6
HOH
HOH
473
H
HOH
474
6
HOH
HOH
474
H
HOH
475
6
HOH
HOH
475
H
HOH
476
6
HOH
HOH
476
H
HOH
477
6
HOH
HOH
477
H
HOH
478
6
HOH
HOH
478
H
HOH
479
6
HOH
HOH
479
H
HOH
480
6
HOH
HOH
480
H
HOH
481
6
HOH
HOH
481
H
HOH
483
6
HOH
HOH
483
H
HOH
484
6
HOH
HOH
484
H
HOH
485
6
HOH
HOH
485
H
HOH
487
6
HOH
HOH
487
H
HOH
488
6
HOH
HOH
488
H
HOH
489
6
HOH
HOH
489
H
HOH
491
6
HOH
HOH
491
H
HOH
493
6
HOH
HOH
493
H
HOH
494
6
HOH
HOH
494
H
HOH
496
6
HOH
HOH
496
H
HOH
497
6
HOH
HOH
497
H
HOH
498
6
HOH
HOH
498
H
HOH
499
6
HOH
HOH
499
H
HOH
500
6
HOH
HOH
500
H
HOH
501
6
HOH
HOH
501
H
HOH
502
6
HOH
HOH
502
H
HOH
505
6
HOH
HOH
505
H
HOH
506
6
HOH
HOH
506
H
HOH
508
6
HOH
HOH
508
H
HOH
509
6
HOH
HOH
509
H
HOH
510
6
HOH
HOH
510
H
HOH
511
6
HOH
HOH
511
H
HOH
512
6
HOH
HOH
512
H
HOH
513
6
HOH
HOH
513
H
HOH
514
6
HOH
HOH
514
H
HOH
515
6
HOH
HOH
515
H
HOH
516
6
HOH
HOH
516
H
HOH
517
6
HOH
HOH
517
H
HOH
519
6
HOH
HOH
519
H
HOH
522
6
HOH
HOH
522
H
HOH
524
6
HOH
HOH
524
H
HOH
525
6
HOH
HOH
525
H
HOH
526
6
HOH
HOH
526
H
HOH
527
6
HOH
HOH
527
H
HOH
528
6
HOH
HOH
528
H
HOH
529
6
HOH
HOH
529
H
HOH
531
6
HOH
HOH
531
H
HOH
532
6
HOH
HOH
532
H
HOH
533
6
HOH
HOH
533
H
HOH
534
6
HOH
HOH
534
H
HOH
537
6
HOH
HOH
537
H
HOH
538
6
HOH
HOH
538
H
HOH
539
6
HOH
HOH
539
H
HOH
543
6
HOH
HOH
543
H
HOH
544
6
HOH
HOH
544
H
HOH
545
6
HOH
HOH
545
H
HOH
548
6
HOH
HOH
548
H
HOH
549
6
HOH
HOH
549
H
HOH
550
6
HOH
HOH
550
H
HOH
551
6
HOH
HOH
551
H
HOH
552
6
HOH
HOH
552
H
HOH
553
6
HOH
HOH
553
H
HOH
554
6
HOH
HOH
554
H
HOH
555
6
HOH
HOH
555
H
HOH
557
6
HOH
HOH
557
H
HOH
560
6
HOH
HOH
560
H
HOH
562
6
HOH
HOH
562
H
HOH
482
6
HOH
HOH
482
I
HOH
504
6
HOH
HOH
504
I
THR
1
n
1
H
THR
1
L
PHE
1
n
2
G
PHE
1
L
GLY
1
n
3
F
GLY
1
L
SER
1
n
4
E
SER
1
L
GLY
1
n
5
D
GLY
1
L
GLU
1
n
6
C
GLU
1
L
ALA
1
n
7
B
ALA
1
L
ASP
1
n
8
A
ASP
1
L
CYS
1
n
9
CYS
1
L
GLY
2
n
10
GLY
2
L
LEU
3
n
11
LEU
3
L
ARG
4
n
12
ARG
4
L
PRO
5
n
13
PRO
5
L
LEU
6
n
14
LEU
6
L
PHE
7
n
15
PHE
7
L
GLU
8
n
16
GLU
8
L
LYS
9
n
17
LYS
9
L
LYS
10
n
18
LYS
10
L
SER
11
n
19
SER
11
L
LEU
12
n
20
LEU
12
L
GLU
13
n
21
GLU
13
L
ASP
14
n
22
ASP
14
L
LYS
14
n
23
A
LYS
14
L
THR
14
n
24
B
THR
14
L
GLU
14
n
25
C
GLU
14
L
ARG
14
n
26
D
ARG
14
L
GLU
14
n
27
E
GLU
14
L
LEU
14
n
28
F
LEU
14
L
LEU
14
n
29
G
LEU
14
L
GLU
14
n
30
H
GLU
14
L
SER
14
n
31
I
SER
14
L
TYR
14
n
32
J
TYR
14
L
ILE
14
n
33
K
ILE
14
L
ASP
14
n
34
L
ASP
14
L
GLY
14
n
35
M
GLY
14
L
ARG
15
n
36
ARG
15
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
TRP
148
n
148
TRP
148
H
n
149
A
148
H
n
150
B
148
H
n
151
C
148
H
n
152
D
148
H
n
153
E
148
H
n
154
F
148
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
ASP
55
n
1
ASP
55
I
PHE
56
n
2
PHE
56
I
GLU
57
n
3
GLU
57
I
GLU
58
n
4
GLU
58
I
ILE
59
n
5
ILE
59
I
PRO
60
n
6
PRO
60
I
GLU
61
n
7
GLU
61
I
GLU
62
n
8
GLU
62
I
TYS
63
n
9
TYS
63
I
LEU
64
n
10
LEU
64
I
0.179
author_defined_assembly
3
trimeric
G
H
ASN
60
GLYCOSYLATION SITE
B
ASN
53
ASN
I
TYS
63
O-SULFO-L-TYROSINE
C
TYS
9
TYR
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
H
O
LYS
81
B
O
LYS
77
H
N
ILE
68
B
N
ILE
63
H
O
LEU
65
B
O
LEU
60
H
N
PHE
34
B
N
PHE
19
H
O
VAL
31
B
O
VAL
16
H
N
ALA
44
B
N
ALA
30
H
O
VAL
52
B
O
VAL
38
H
N
MET
106
B
N
MET
103
H
O
LEU
105
B
O
LEU
102
H
N
TYR
89
B
N
TYR
85
H
O
GLY
136
B
O
GLY
136
H
N
LEU
160
B
N
LEU
165
H
O
PHE
181
B
O
PHE
186
H
N
TYR
228
B
N
TYR
240
H
O
PHE
227
B
O
PHE
239
H
N
TRP
215
B
N
TRP
227
H
O
TYR
208
B
O
TYR
220
H
N
MET
201
B
N
MET
211
E
1
L
C
SER
1
A
C
SER
4
0
Y
E
1
L
O
SER
1
A
O
SER
4
0
Y
E
1
L
CB
SER
1
A
CB
SER
4
0
Y
E
1
L
OG
SER
1
A
OG
SER
4
0
Y
D
1
L
N
GLY
1
A
N
GLY
5
0
Y
D
1
L
C
GLY
1
A
C
GLY
5
0
Y
D
1
L
O
GLY
1
A
O
GLY
5
0
Y
A
1
L
CD
LYS
14
A
CD
LYS
23
0
Y
A
1
L
CE
LYS
14
A
CE
LYS
23
0
Y
A
1
L
NZ
LYS
14
A
NZ
LYS
23
0
Y
D
1
L
CG
ARG
14
A
CG
ARG
26
0
Y
D
1
L
CD
ARG
14
A
CD
ARG
26
0
Y
D
1
L
NE
ARG
14
A
NE
ARG
26
0
Y
D
1
L
CZ
ARG
14
A
CZ
ARG
26
0
Y
D
1
L
NH1
ARG
14
A
NH1
ARG
26
0
Y
D
1
L
NH2
ARG
14
A
NH2
ARG
26
0
Y
G
1
L
CD2
LEU
14
A
CD2
LEU
29
0
Y
K
1
L
N
ILE
14
A
N
ILE
33
0
Y
K
1
L
CA
ILE
14
A
CA
ILE
33
0
Y
K
1
L
C
ILE
14
A
C
ILE
33
0
Y
K
1
L
O
ILE
14
A
O
ILE
33
0
Y
1
L
N
ARG
15
A
N
ARG
36
0
Y
1
L
C
ARG
15
A
C
ARG
36
0
Y
1
L
O
ARG
15
A
O
ARG
36
0
Y
1
L
CB
ARG
15
A
CB
ARG
36
0
Y
1
L
CG
ARG
15
A
CG
ARG
36
0
Y
1
L
CD
ARG
15
A
CD
ARG
36
0
Y
1
L
CZ
ARG
15
A
CZ
ARG
36
0
Y
1
L
NH1
ARG
15
A
NH1
ARG
36
0
Y
1
L
NH2
ARG
15
A
NH2
ARG
36
0
Y
1
L
OXT
ARG
15
A
OXT
ARG
36
0
Y
1
H
CD
ARG
50
B
CD
ARG
36
0
Y
1
H
NH1
ARG
50
B
NH1
ARG
36
0
Y
1
H
NH2
ARG
50
B
NH2
ARG
36
0
Y
1
H
OD1
ASN
62
B
OD1
ASN
57
0
Y
1
H
ND2
ASN
62
B
ND2
ASN
57
0
Y
1
H
CG
ARG
75
B
CG
ARG
70
0
Y
1
H
NE
ARG
75
B
NE
ARG
70
0
Y
1
H
CZ
ARG
75
B
CZ
ARG
70
0
Y
1
H
NH1
ARG
75
B
NH1
ARG
70
0
Y
1
H
NH2
ARG
75
B
NH2
ARG
70
0
Y
1
H
CD
LYS
87
B
CD
LYS
83
0
Y
1
H
CE
LYS
87
B
CE
LYS
83
0
Y
1
H
NZ
LYS
87
B
NZ
LYS
83
0
Y
1
H
NH2
ARG
97
B
NH2
ARG
93
0
Y
1
H
CE
LYS
107
B
CE
LYS
104
0
Y
1
H
NZ
LYS
107
B
NZ
LYS
104
0
Y
1
H
NZ
LYS
109
B
NZ
LYS
106
0
Y
1
H
CG
LYS
110
B
CG
LYS
107
0
Y
1
H
CD
LYS
110
B
CD
LYS
107
0
Y
1
H
CE
LYS
110
B
CE
LYS
107
0
Y
1
H
NZ
LYS
110
B
NZ
LYS
107
0
Y
1
H
CD
ARG
126
B
CD
ARG
123
0
Y
1
H
NE
ARG
126
B
NE
ARG
123
0
Y
1
H
CZ
ARG
126
B
CZ
ARG
123
0
Y
1
H
NH1
ARG
126
B
NH1
ARG
123
0
Y
1
H
NH2
ARG
126
B
NH2
ARG
123
0
Y
B
1
H
OG
SER
129
B
OG
SER
128
0
Y
1
H
CE
LYS
145
B
CE
LYS
145
0
Y
1
H
NZ
LYS
145
B
NZ
LYS
145
0
Y
1
H
O
THR
147
B
O
THR
147
0
Y
1
H
CB
THR
147
B
CB
THR
147
0
Y
1
H
OG1
THR
147
B
OG1
THR
147
0
Y
1
H
CG2
THR
147
B
CG2
THR
147
0
Y
1
H
N
TRP
148
B
N
TRP
148
0
Y
1
H
CA
TRP
148
B
CA
TRP
148
0
Y
1
H
C
TRP
148
B
C
TRP
148
0
Y
1
H
O
TRP
148
B
O
TRP
148
0
Y
1
H
CB
TRP
148
B
CB
TRP
148
0
Y
1
H
N
GLY
150
B
N
GLY
155
0
Y
1
H
OG
SER
153
B
OG
SER
158
0
Y
A
1
H
NH1
ARG
221
B
NH1
ARG
233
0
Y
A
1
H
NH2
ARG
221
B
NH2
ARG
233
0
Y
1
H
NZ
LYS
235
B
NZ
LYS
247
0
Y
1
H
CG
LYS
236
B
CG
LYS
248
0
Y
1
H
CD
LYS
236
B
CD
LYS
248
0
Y
1
H
CE
LYS
236
B
CE
LYS
248
0
Y
1
H
NZ
LYS
236
B
NZ
LYS
248
0
Y
1
H
N
TRP
237
B
N
TRP
249
0
Y
1
H
CD
LYS
240
B
CD
LYS
252
0
Y
1
H
CE
LYS
240
B
CE
LYS
252
0
Y
1
H
NZ
LYS
240
B
NZ
LYS
252
0
Y
1
H
OD1
ASP
243
B
OD1
ASP
255
0
Y
1
H
O
GLN
244
B
O
GLN
256
0
Y
1
H
CG
GLN
244
B
CG
GLN
256
0
Y
1
H
CD
GLN
244
B
CD
GLN
256
0
Y
1
H
OE1
GLN
244
B
OE1
GLN
256
0
Y
1
H
NE2
GLN
244
B
NE2
GLN
256
0
Y
1
H
CG
PHE
245
B
CG
PHE
257
0
Y
1
H
CE1
PHE
245
B
CE1
PHE
257
0
Y
1
H
CZ
PHE
245
B
CZ
PHE
257
0
Y
1
H
C
GLY
246
B
C
GLY
258
0
Y
1
H
O
GLY
246
B
O
GLY
258
0
Y
1
I
CB
ASP
55
C
CB
ASP
1
0
Y
1
I
CG
ASP
55
C
CG
ASP
1
0
Y
1
I
OD1
ASP
55
C
OD1
ASP
1
0
Y
1
I
OD2
ASP
55
C
OD2
ASP
1
0
Y
1
I
CB
GLU
58
C
CB
GLU
4
0
Y
1
I
CG
GLU
58
C
CG
GLU
4
0
Y
1
I
CD
GLU
58
C
CD
GLU
4
0
Y
1
I
OE1
GLU
58
C
OE1
GLU
4
0
Y
1
I
OE2
GLU
58
C
OE2
GLU
4
0
Y
1
I
N
PRO
60
C
N
PRO
6
0
Y
1
I
CG
PRO
60
C
CG
PRO
6
0
Y
1
I
CD
PRO
60
C
CD
PRO
6
0
Y
1
I
CB
GLU
61
C
CB
GLU
7
0
Y
1
I
CG
GLU
61
C
CG
GLU
7
0
Y
1
I
CD
GLU
61
C
CD
GLU
7
0
Y
1
I
OE1
GLU
61
C
OE1
GLU
7
0
Y
1
I
OE2
GLU
61
C
OE2
GLU
7
0
Y
1
I
O
GLU
62
C
O
GLU
8
0
Y
1
I
CG
GLU
62
C
CG
GLU
8
0
Y
1
I
CD
GLU
62
C
CD
GLU
8
0
Y
1
I
OE1
GLU
62
C
OE1
GLU
8
0
Y
1
I
OE2
GLU
62
C
OE2
GLU
8
0
Y
1
I
CD1
LEU
64
C
CD1
LEU
10
0
Y
H
1
L
THR
1
A
THR
1
0
Y
G
1
L
PHE
1
A
PHE
2
0
Y
F
1
L
GLY
1
A
GLY
3
0
Y
C
1
L
GLU
1
A
GLU
6
0
Y
L
1
L
ASP
14
A
ASP
34
0
Y
M
1
L
GLY
14
A
GLY
35
0
Y
A
1
H
THR
148
B
THR
149
1
Y
B
1
H
ALA
148
B
ALA
150
1
Y
C
1
H
ASN
148
B
ASN
151
1
Y
D
1
H
VAL
148
B
VAL
152
1
Y
E
1
H
GLY
148
B
GLY
153
1
Y
F
1
H
LYS
148
B
LYS
154
1
Y
1
H
GLU
247
B
GLU
259
0
Y
1
H
NAG
400
D
NAG
0
N
1
H
C2
NAG
400
PLANAR
1
H
C4
NAG
400
PLANAR
G
1
H
H
ND2
O5
ASN
NAG
60
400
2.10
G
1
H
H
CG
C1
ASN
NAG
60
400
2.19
1
H
H
O
O
HOH
HOH
409
444
2.19
1
-3.19
0.50
120.30
117.11
L
L
L
NE
CZ
NH2
ARG
ARG
ARG
4
4
4
N
1
4.45
0.50
120.30
124.75
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
73
73
73
N
1
-3.05
0.50
120.30
117.25
H
H
H
NE
CZ
NH2
ARG
ARG
ARG
73
73
73
N
A
A
A
1
3.22
0.50
120.30
123.52
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
77
77
77
N
1
3.26
0.50
120.30
123.56
H
H
H
NE
CZ
NH1
ARG
ARG
ARG
93
93
93
N
1
L
L
CD
OE1
GLU
GLU
8
8
0.077
0.011
1.252
1.329
N
1
L
L
C
OXT
ARG
ARG
15
15
0.439
0.019
1.229
1.668
N
1
H
H
CB
CG
HIS
HIS
230
230
-0.099
0.016
1.492
1.393
N
1
H
H
C
OXT
GLU
GLU
247
247
0.207
0.019
1.229
1.436
N
1
I
I
C
OXT
LEU
LEU
64
64
0.374
0.019
1.229
1.603
N
1
L
H
NH2
O
ARG
THR
15
172
2.13
1_555
4_556
1
I
H
OE2
O
GLU
HOH
58
493
2.18
1_555
2_555
G
1
L
PHE
1
-156.55
-135.07
E
1
L
SER
1
56.77
3.28
C
1
L
GLU
1
-108.60
-139.23
1
L
PHE
7
-123.95
-88.49
K
1
L
ILE
14
72.79
50.86
L
1
L
ASP
14
69.92
120.85
A
1
H
SER
36
-162.61
118.84
A
1
H
TYR
60
-161.63
78.81
G
1
H
ASN
60
-150.42
73.83
1
H
HIS
71
-133.75
-58.09
1
H
THR
147
-154.01
66.86
1
H
ARG
187
-124.82
-167.62
2.0
20.0
21224
24141
88.2
1
TNT BCORREL
1.0
DIFFERENCE FOURIER
PDB ENTRY 1HAH
TNT PROTGEO
2.0
20.0
150
2623
38
0
2435
0.02
2.0
2.0
20.0
1AFE
21141
1.
0.067
1
2.8
88.2
data reduction
MOSFLM
data reduction
ROTAVATA-AGROVATA
model building
CCP4
refinement
TNT
5E
data scaling
CCP4
(AGROVATA
data scaling
ROTAVATA
phasing
CCP4
HUMAN ALPHA-THROMBIN INHIBITION BY CBZ-PRO-AZALYS-ONP
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
6
N
N
6
N
N
6
N
N
L
GLU
8
A
GLU
16
HELX_P
L
LYS
10
A
LYS
18
5
1
3
L
GLU
14
A
GLU
25
HELX_P
L
SER
14
A
SER
31
1
2
7
C
I
H
ALA
56
B
ALA
42
HELX_P
H
CYS
58
B
CYS
44
5
3
3
H
PRO
60
B
PRO
48
HELX_P
H
TRP
60
B
TRP
50
5
4
3
B
D
H
GLU
61
B
GLU
56
HELX_P
H
ASP
63
B
ASP
58
5
5
3
H
ARG
126
B
ARG
123
HELX_P
H
LEU
129
B
LEU
129
1
6
7
C
H
ARG
165
B
ARG
170
HELX_P
H
SER
171
B
SER
176
1
7
7
H
VAL
231
B
VAL
243
HELX_P
H
PHE
245
B
PHE
257
1
8
15
disulf
2.055
L
CYS
1
A
SG
CYS
9
1_555
H
CYS
122
B
SG
CYS
119
1_555
disulf
2.067
H
CYS
42
B
SG
CYS
28
1_555
H
CYS
58
B
SG
CYS
44
1_555
disulf
1.997
H
CYS
168
B
SG
CYS
173
1_555
H
CYS
182
B
SG
CYS
187
1_555
disulf
2.109
H
CYS
191
B
SG
CYS
201
1_555
H
CYS
220
B
SG
CYS
231
1_555
covale
1.577
one
G
N-Glycosylation
H
ASN
60
B
ND2
ASN
53
1_555
H
NAG
400
D
C1
NAG
1_555
covale
1.305
both
I
GLU
62
C
C
GLU
8
1_555
I
TYS
63
C
N
TYS
9
1_555
covale
1.309
both
I
TYS
63
C
C
TYS
9
1_555
I
LEU
64
C
N
LEU
10
1_555
HYDROLASE/HYDROLASE INHIBITOR
COMPLEX (SERINE PROTEASE-INHIBITOR), BLOOD COAGULATION, N-CARBOBENZOXY-PRO-ALFA-AZALYS-P-NITROPHENYLESTER, SERINE PROTEINASE INHIBITION, GLYCOSYLATED PROTEIN, HYDROLASE-HYDROLASE INHIBITOR COMPLEX
H
SER
36
B
SER
22
A
1
H
PRO
37
B
PRO
23
-2.40
THRB_HUMAN
UNP
1
328
P00734
THRB_HUMAN
UNP
2
364
P00734
ITHA_HIRME
UNP
3
55
P28501
328
363
1AFE
1
15
P00734
L
1
9
36
364
622
1AFE
16
247
P00734
H
2
1
259
55
64
1AFE
55
64
P28501
I
3
1
10
4
3
2
4
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
H
LYS
81
B
LYS
77
H
MET
84
B
MET
80
H
LEU
64
B
LEU
59
H
ILE
68
B
ILE
63
H
GLN
30
B
GLN
15
H
ARG
35
B
ARG
20
H
GLU
39
B
GLU
25
H
SER
45
B
SER
31
H
TRP
51
B
TRP
37
H
THR
54
B
THR
40
H
ALA
104
B
ALA
101
H
LEU
108
B
LEU
105
H
LEU
85
B
LEU
81
H
ILE
90
B
ILE
86
H
LYS
135
B
LYS
135
H
GLY
140
B
GLY
140
H
GLN
156
B
GLN
161
H
PRO
161
B
PRO
166
H
MET
180
B
MET
185
H
ALA
183
B
ALA
188
H
GLY
226
B
GLY
238
H
HIS
230
B
HIS
242
H
TRP
207
B
TRP
219
H
GLY
216
B
GLY
228
H
PRO
198
B
PRO
208
H
LYS
202
B
LYS
212
5
C 1 2 1