0.015746
0.000000
0.000000
0.000000
0.014453
0.000000
0.000000
0.000000
0.015672
0.00000
0.00000
0.00000
Bode, W.
Turk, D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
63.510
69.190
63.810
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
Ca 2
40.078
CALCIUM ION
non-polymer
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
C27 H31 N5 O4 S
521.631
1-[N-(naphthalen-2-ylsulfonyl)glycyl-4-carbamimidoyl-D-phenylalanyl]piperidine
NAPAP
peptide-like
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
IX
Eur.J.Biochem.
EJBCAI
0262
0014-2956
193
175
182
10.1111/j.1432-1033.1990.tb19320.x
2226434
Geometry of binding of the benzamidine- and arginine-based inhibitors N alpha-(2-naphthyl-sulphonyl-glycyl)-DL-p-amidinophenylalanyl-pipe ridine (NAPAP) and (2R,4R)-4-methyl-1-[N alpha-(3-methyl-1,2,3,4-tetrahydr quinolinesulphonyl)-L-arginyl]-2-piperidine carboxylic acid (MQPA) to human alpha-thrombin.X-ray crystallographic determination of the NAPAP-trypsin complex and modeling of NAPAP-thrombin and MQPA-thrombin.
1990
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
226
1085
Refined 2.3 Angstroms X-Ray Crystal Structure of Bovine Thrombin Complexes Formed with the Benzamidine and Arginine-Based Thrombin Inhibitors Napap, 4-Tapap and Mqpa. A Starting Point for Improving Antithrombotics
1992
US
Protein Sci.
PRCIEI
0795
0961-8368
1
426
The Refined 1.9 Angstroms X-Ray Crystal Structure of D-Phe-Pro-Arg-Chloromethylketone-Inhibited Human Alpha-Thrombin: Structure Analysis, Overall Structure, Electrostatic Properties, Detailed Active-Site Geometry, and Structure-Function Relationships
1992
NE
FEBS Lett.
FEBLAL
0165
0014-5793
287
133
Geometry of Binding of the Nalpha-Tosylated Piperidides of M-Amidino-, P-Amidino-and P-Guanidino Phenylalanine to Thrombin and Trypsin: X-Ray Crystal Structures of Their Trypsin Complexes and Modeling of Their Thrombin Complexes
1991
UK
Embo J.
EMJODG
0897
0261-4189
8
3467
The Refined 1.9 Angstroms Crystal Structure of Human Alpha-Thrombin: Interaction with D-Phe-Pro-Arg Chloromethylketone and Significance of the Tyr-Pro-Pro-Trp Insertion Segment
1989
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
210
813
Crystal Structure of Bovine Beta-Trypsin at 1.5 Angstroms Resolution in a Crystal Form with Low Molecular Packing Density. Active Site Geometry, Ion Pairs and Solvent Structure
1989
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
98
693
The Refined Crystal Structure of Bovine Beta-Trypsin at 1.8 Angstroms Resolution. Crystallographic Refinement, Calcium Binding Site, Benzamidine Binding Site and Active Site at Ph 7.0
1975
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
23324.287
TRYPSIN
3.4.21.4
1
man
polymer
521.631
1-[N-(naphthalen-2-ylsulfonyl)glycyl-4-carbamimidoyl-D-phenylalanyl]piperidine
1
syn
non-polymer
40.078
CALCIUM ION
1
syn
non-polymer
18.015
water
147
nat
water
no
no
IVGGYTCGANTVPYQVSLNSGYHFCGGSLINSQWVVSAAHCYKSGIQVRLGEDNINVVEGNEQFISASKSIVHPSYNSNT
LNNDIMLIKLKSAASLNSRVASISLPTSCASAGTQCLISGWGNTKSSGTSYPDVLKCLKAPILSDSSCKSAYPGQITSNM
FCAGYLEGGKDSCQGDSGGPVVCSGKLQGIVSWGSGCAQKNKPGVYTKVCNYVSWIKQTIASN
IVGGYTCGANTVPYQVSLNSGYHFCGGSLINSQWVVSAAHCYKSGIQVRLGEDNINVVEGNEQFISASKSIVHPSYNSNT
LNNDIMLIKLKSAASLNSRVASISLPTSCASAGTQCLISGWGNTKSSGTSYPDVLKCLKAPILSDSSCKSAYPGQITSNM
FCAGYLEGGKDSCQGDSGGPVVCSGKLQGIVSWGSGCAQKNKPGVYTKVCNYVSWIKQTIASN
E
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
cow
sample
9913
Bos taurus
2.94
58.14
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Other
1
0
1994-01-31
1
1
2008-05-22
1
2
2011-07-13
1
3
2012-12-12
Y
1991-10-24
REL
MID
1-[N-(naphthalen-2-ylsulfonyl)glycyl-4-carbamimidoyl-D-phenylalanyl]piperidine
CA
CALCIUM ION
HOH
water
NAPAP, A SYNTHETIC THROMBIN INHIBITOR, IS NONCOVALENTLY
BOUND TO THE ACTIVE SITE. A CALCIUM ION IS BOUND IN THE
"CALCIUM BINDING LOOP" (BODE AND SCHWAGER, 1975A,B).
NAPAP [N==ALPHA==-(2-NAPHTHYL-SULFONYL-GLYCYL)-DL-P-
AMIDINOPHENYLALANYL-PIPERIDINE] "RESIDUES" ARE
IN REMARK 630
Inhibitor
N(alpha)-(2-naphthylsulfonylglycyl)-4-amidinophenylalanine piperidide
Peptide-like
NAS
1
2
MID
MID
5
E
CA
480
3
CA
CA
480
E
HOH
406
4
HOH
HOH
406
E
HOH
408
4
HOH
HOH
408
E
HOH
410
4
HOH
HOH
410
E
HOH
412
4
HOH
HOH
412
E
HOH
415
4
HOH
HOH
415
E
HOH
416
4
HOH
HOH
416
E
HOH
429
4
HOH
HOH
429
E
HOH
430
4
HOH
HOH
430
E
HOH
457
4
HOH
HOH
457
E
HOH
473
4
HOH
HOH
473
E
HOH
516
4
HOH
HOH
516
E
HOH
530
4
HOH
HOH
530
E
HOH
562
4
HOH
HOH
562
E
HOH
604
4
HOH
HOH
604
E
HOH
701
4
HOH
HOH
701
E
HOH
703
4
HOH
HOH
703
E
HOH
704
4
HOH
HOH
704
E
HOH
705
4
HOH
HOH
705
E
HOH
706
4
HOH
HOH
706
E
HOH
707
4
HOH
HOH
707
E
HOH
708
4
HOH
HOH
708
E
HOH
709
4
HOH
HOH
709
E
HOH
714
4
HOH
HOH
714
E
HOH
716
4
HOH
HOH
716
E
HOH
717
4
HOH
HOH
717
E
HOH
718
4
HOH
HOH
718
E
HOH
721
4
HOH
HOH
721
E
HOH
722
4
HOH
HOH
722
E
HOH
723
4
HOH
HOH
723
E
HOH
725
4
HOH
HOH
725
E
HOH
729
4
HOH
HOH
729
E
HOH
801
4
HOH
HOH
801
E
HOH
802
4
HOH
HOH
802
E
HOH
803
4
HOH
HOH
803
E
HOH
804
4
HOH
HOH
804
E
HOH
805
4
HOH
HOH
805
E
HOH
807
4
HOH
HOH
807
E
HOH
808
4
HOH
HOH
808
E
HOH
809
4
HOH
HOH
809
E
HOH
810
4
HOH
HOH
810
E
HOH
811
4
HOH
HOH
811
E
HOH
812
4
HOH
HOH
812
E
HOH
813
4
HOH
HOH
813
E
HOH
814
4
HOH
HOH
814
E
HOH
815
4
HOH
HOH
815
E
HOH
817
4
HOH
HOH
817
E
HOH
818
4
HOH
HOH
818
E
HOH
819
4
HOH
HOH
819
E
HOH
820
4
HOH
HOH
820
E
HOH
821
4
HOH
HOH
821
E
HOH
822
4
HOH
HOH
822
E
HOH
823
4
HOH
HOH
823
E
HOH
824
4
HOH
HOH
824
E
HOH
825
4
HOH
HOH
825
E
HOH
826
4
HOH
HOH
826
E
HOH
827
4
HOH
HOH
827
E
HOH
829
4
HOH
HOH
829
E
HOH
830
4
HOH
HOH
830
E
HOH
831
4
HOH
HOH
831
E
HOH
832
4
HOH
HOH
832
E
HOH
833
4
HOH
HOH
833
E
HOH
834
4
HOH
HOH
834
E
HOH
837
4
HOH
HOH
837
E
HOH
838
4
HOH
HOH
838
E
HOH
840
4
HOH
HOH
840
E
HOH
842
4
HOH
HOH
842
E
HOH
843
4
HOH
HOH
843
E
HOH
845
4
HOH
HOH
845
E
HOH
846
4
HOH
HOH
846
E
HOH
847
4
HOH
HOH
847
E
HOH
848
4
HOH
HOH
848
E
HOH
849
4
HOH
HOH
849
E
HOH
851
4
HOH
HOH
851
E
HOH
852
4
HOH
HOH
852
E
HOH
853
4
HOH
HOH
853
E
HOH
854
4
HOH
HOH
854
E
HOH
856
4
HOH
HOH
856
E
HOH
857
4
HOH
HOH
857
E
HOH
858
4
HOH
HOH
858
E
HOH
859
4
HOH
HOH
859
E
HOH
860
4
HOH
HOH
860
E
HOH
861
4
HOH
HOH
861
E
HOH
862
4
HOH
HOH
862
E
HOH
863
4
HOH
HOH
863
E
HOH
864
4
HOH
HOH
864
E
HOH
865
4
HOH
HOH
865
E
HOH
866
4
HOH
HOH
866
E
HOH
900
4
HOH
HOH
900
E
HOH
901
4
HOH
HOH
901
E
HOH
903
4
HOH
HOH
903
E
HOH
904
4
HOH
HOH
904
E
HOH
905
4
HOH
HOH
905
E
HOH
906
4
HOH
HOH
906
E
HOH
908
4
HOH
HOH
908
E
HOH
909
4
HOH
HOH
909
E
HOH
911
4
HOH
HOH
911
E
HOH
914
4
HOH
HOH
914
E
HOH
915
4
HOH
HOH
915
E
HOH
916
4
HOH
HOH
916
E
HOH
917
4
HOH
HOH
917
E
HOH
919
4
HOH
HOH
919
E
HOH
920
4
HOH
HOH
920
E
HOH
921
4
HOH
HOH
921
E
HOH
922
4
HOH
HOH
922
E
HOH
923
4
HOH
HOH
923
E
HOH
924
4
HOH
HOH
924
E
HOH
925
4
HOH
HOH
925
E
HOH
926
4
HOH
HOH
926
E
HOH
927
4
HOH
HOH
927
E
HOH
928
4
HOH
HOH
928
E
HOH
929
4
HOH
HOH
929
E
HOH
932
4
HOH
HOH
932
E
HOH
933
4
HOH
HOH
933
E
HOH
934
4
HOH
HOH
934
E
HOH
935
4
HOH
HOH
935
E
HOH
936
4
HOH
HOH
936
E
HOH
937
4
HOH
HOH
937
E
HOH
938
4
HOH
HOH
938
E
HOH
939
4
HOH
HOH
939
E
HOH
940
4
HOH
HOH
940
E
HOH
942
4
HOH
HOH
942
E
HOH
944
4
HOH
HOH
944
E
HOH
946
4
HOH
HOH
946
E
HOH
947
4
HOH
HOH
947
E
HOH
948
4
HOH
HOH
948
E
HOH
950
4
HOH
HOH
950
E
HOH
951
4
HOH
HOH
951
E
HOH
952
4
HOH
HOH
952
E
HOH
953
4
HOH
HOH
953
E
HOH
954
4
HOH
HOH
954
E
HOH
955
4
HOH
HOH
955
E
HOH
956
4
HOH
HOH
956
E
HOH
957
4
HOH
HOH
957
E
HOH
958
4
HOH
HOH
958
E
HOH
959
4
HOH
HOH
959
E
HOH
960
4
HOH
HOH
960
E
HOH
963
4
HOH
HOH
963
E
HOH
964
4
HOH
HOH
964
E
HOH
965
4
HOH
HOH
965
E
HOH
966
4
HOH
HOH
966
E
HOH
968
4
HOH
HOH
968
E
HOH
969
4
HOH
HOH
969
E
HOH
970
4
HOH
HOH
970
E
HOH
971
4
HOH
HOH
971
E
HOH
972
4
HOH
HOH
972
E
HOH
973
4
HOH
HOH
973
E
HOH
974
4
HOH
HOH
974
E
ILE
16
n
1
ILE
16
E
VAL
17
n
2
VAL
17
E
GLY
18
n
3
GLY
18
E
GLY
19
n
4
GLY
19
E
TYR
20
n
5
TYR
20
E
THR
21
n
6
THR
21
E
CYS
22
n
7
CYS
22
E
GLY
23
n
8
GLY
23
E
ALA
24
n
9
ALA
24
E
ASN
25
n
10
ASN
25
E
THR
26
n
11
THR
26
E
VAL
27
n
12
VAL
27
E
PRO
28
n
13
PRO
28
E
TYR
29
n
14
TYR
29
E
GLN
30
n
15
GLN
30
E
VAL
31
n
16
VAL
31
E
SER
32
n
17
SER
32
E
LEU
33
n
18
LEU
33
E
ASN
34
n
19
ASN
34
E
SER
37
n
20
SER
37
E
GLY
38
n
21
GLY
38
E
TYR
39
n
22
TYR
39
E
HIS
40
n
23
HIS
40
E
PHE
41
n
24
PHE
41
E
CYS
42
n
25
CYS
42
E
GLY
43
n
26
GLY
43
E
GLY
44
n
27
GLY
44
E
SER
45
n
28
SER
45
E
LEU
46
n
29
LEU
46
E
ILE
47
n
30
ILE
47
E
ASN
48
n
31
ASN
48
E
SER
49
n
32
SER
49
E
GLN
50
n
33
GLN
50
E
TRP
51
n
34
TRP
51
E
VAL
52
n
35
VAL
52
E
VAL
53
n
36
VAL
53
E
SER
54
n
37
SER
54
E
ALA
55
n
38
ALA
55
E
ALA
56
n
39
ALA
56
E
HIS
57
n
40
HIS
57
E
CYS
58
n
41
CYS
58
E
TYR
59
n
42
TYR
59
E
LYS
60
n
43
LYS
60
E
SER
61
n
44
SER
61
E
GLY
62
n
45
GLY
62
E
ILE
63
n
46
ILE
63
E
GLN
64
n
47
GLN
64
E
VAL
65
n
48
VAL
65
E
ARG
66
n
49
ARG
66
E
LEU
67
n
50
LEU
67
E
GLY
69
n
51
GLY
69
E
GLU
70
n
52
GLU
70
E
ASP
71
n
53
ASP
71
E
ASN
72
n
54
ASN
72
E
ILE
73
n
55
ILE
73
E
ASN
74
n
56
ASN
74
E
VAL
75
n
57
VAL
75
E
VAL
76
n
58
VAL
76
E
GLU
77
n
59
GLU
77
E
GLY
78
n
60
GLY
78
E
ASN
79
n
61
ASN
79
E
GLU
80
n
62
GLU
80
E
GLN
81
n
63
GLN
81
E
PHE
82
n
64
PHE
82
E
ILE
83
n
65
ILE
83
E
SER
84
n
66
SER
84
E
ALA
85
n
67
ALA
85
E
SER
86
n
68
SER
86
E
LYS
87
n
69
LYS
87
E
SER
88
n
70
SER
88
E
ILE
89
n
71
ILE
89
E
VAL
90
n
72
VAL
90
E
HIS
91
n
73
HIS
91
E
PRO
92
n
74
PRO
92
E
SER
93
n
75
SER
93
E
TYR
94
n
76
TYR
94
E
ASN
95
n
77
ASN
95
E
SER
96
n
78
SER
96
E
ASN
97
n
79
ASN
97
E
THR
98
n
80
THR
98
E
LEU
99
n
81
LEU
99
E
ASN
100
n
82
ASN
100
E
ASN
101
n
83
ASN
101
E
ASP
102
n
84
ASP
102
E
ILE
103
n
85
ILE
103
E
MET
104
n
86
MET
104
E
LEU
105
n
87
LEU
105
E
ILE
106
n
88
ILE
106
E
LYS
107
n
89
LYS
107
E
LEU
108
n
90
LEU
108
E
LYS
109
n
91
LYS
109
E
SER
110
n
92
SER
110
E
ALA
111
n
93
ALA
111
E
ALA
112
n
94
ALA
112
E
SER
113
n
95
SER
113
E
LEU
114
n
96
LEU
114
E
ASN
115
n
97
ASN
115
E
SER
116
n
98
SER
116
E
ARG
117
n
99
ARG
117
E
VAL
118
n
100
VAL
118
E
ALA
119
n
101
ALA
119
E
SER
120
n
102
SER
120
E
ILE
121
n
103
ILE
121
E
SER
122
n
104
SER
122
E
LEU
123
n
105
LEU
123
E
PRO
124
n
106
PRO
124
E
THR
125
n
107
THR
125
E
SER
127
n
108
SER
127
E
CYS
128
n
109
CYS
128
E
ALA
129
n
110
ALA
129
E
SER
130
n
111
SER
130
E
ALA
132
n
112
ALA
132
E
GLY
133
n
113
GLY
133
E
THR
134
n
114
THR
134
E
GLN
135
n
115
GLN
135
E
CYS
136
n
116
CYS
136
E
LEU
137
n
117
LEU
137
E
ILE
138
n
118
ILE
138
E
SER
139
n
119
SER
139
E
GLY
140
n
120
GLY
140
E
TRP
141
n
121
TRP
141
E
GLY
142
n
122
GLY
142
E
ASN
143
n
123
ASN
143
E
THR
144
n
124
THR
144
E
LYS
145
n
125
LYS
145
E
SER
146
n
126
SER
146
E
SER
147
n
127
SER
147
E
GLY
148
n
128
GLY
148
E
THR
149
n
129
THR
149
E
SER
150
n
130
SER
150
E
TYR
151
n
131
TYR
151
E
PRO
152
n
132
PRO
152
E
ASP
153
n
133
ASP
153
E
VAL
154
n
134
VAL
154
E
LEU
155
n
135
LEU
155
E
LYS
156
n
136
LYS
156
E
CYS
157
n
137
CYS
157
E
LEU
158
n
138
LEU
158
E
LYS
159
n
139
LYS
159
E
ALA
160
n
140
ALA
160
E
PRO
161
n
141
PRO
161
E
ILE
162
n
142
ILE
162
E
LEU
163
n
143
LEU
163
E
SER
164
n
144
SER
164
E
ASP
165
n
145
ASP
165
E
SER
166
n
146
SER
166
E
SER
167
n
147
SER
167
E
CYS
168
n
148
CYS
168
E
LYS
169
n
149
LYS
169
E
SER
170
n
150
SER
170
E
ALA
171
n
151
ALA
171
E
TYR
172
n
152
TYR
172
E
PRO
173
n
153
PRO
173
E
GLY
174
n
154
GLY
174
E
GLN
175
n
155
GLN
175
E
ILE
176
n
156
ILE
176
E
THR
177
n
157
THR
177
E
SER
178
n
158
SER
178
E
ASN
179
n
159
ASN
179
E
MET
180
n
160
MET
180
E
PHE
181
n
161
PHE
181
E
CYS
182
n
162
CYS
182
E
ALA
183
n
163
ALA
183
E
GLY
184
n
164
A
GLY
184
E
TYR
184
n
165
TYR
184
E
LEU
185
n
166
LEU
185
E
GLU
186
n
167
GLU
186
E
GLY
187
n
168
GLY
187
E
GLY
188
n
169
A
GLY
188
E
LYS
188
n
170
LYS
188
E
ASP
189
n
171
ASP
189
E
SER
190
n
172
SER
190
E
CYS
191
n
173
CYS
191
E
GLN
192
n
174
GLN
192
E
GLY
193
n
175
GLY
193
E
ASP
194
n
176
ASP
194
E
SER
195
n
177
SER
195
E
GLY
196
n
178
GLY
196
E
GLY
197
n
179
GLY
197
E
PRO
198
n
180
PRO
198
E
VAL
199
n
181
VAL
199
E
VAL
200
n
182
VAL
200
E
CYS
201
n
183
CYS
201
E
SER
202
n
184
SER
202
E
GLY
203
n
185
GLY
203
E
LYS
204
n
186
LYS
204
E
LEU
209
n
187
LEU
209
E
GLN
210
n
188
GLN
210
E
GLY
211
n
189
GLY
211
E
ILE
212
n
190
ILE
212
E
VAL
213
n
191
VAL
213
E
SER
214
n
192
SER
214
E
TRP
215
n
193
TRP
215
E
GLY
216
n
194
GLY
216
E
SER
217
n
195
SER
217
E
GLY
219
n
196
GLY
219
E
CYS
220
n
197
CYS
220
E
ALA
221
n
198
A
ALA
221
E
GLN
221
n
199
GLN
221
E
LYS
222
n
200
LYS
222
E
ASN
223
n
201
ASN
223
E
LYS
224
n
202
LYS
224
E
PRO
225
n
203
PRO
225
E
GLY
226
n
204
GLY
226
E
VAL
227
n
205
VAL
227
E
TYR
228
n
206
TYR
228
E
THR
229
n
207
THR
229
E
LYS
230
n
208
LYS
230
E
VAL
231
n
209
VAL
231
E
CYS
232
n
210
CYS
232
E
ASN
233
n
211
ASN
233
E
TYR
234
n
212
TYR
234
E
VAL
235
n
213
VAL
235
E
SER
236
n
214
SER
236
E
TRP
237
n
215
TRP
237
E
ILE
238
n
216
ILE
238
E
LYS
239
n
217
LYS
239
E
GLN
240
n
218
GLN
240
E
THR
241
n
219
THR
241
E
ILE
242
n
220
ILE
242
E
ALA
243
n
221
ALA
243
E
SER
244
n
222
SER
244
E
ASN
245
n
223
ASN
245
E
author_defined_assembly
1
monomeric
E
GLU
70
A
OE1
GLU
52
1_555
E
CA
480
C
CA
CA
1_555
E
ASN
72
A
O
ASN
54
1_555
88.9
E
GLU
70
A
OE1
GLU
52
1_555
E
CA
480
C
CA
CA
1_555
E
VAL
75
A
O
VAL
57
1_555
161.7
E
ASN
72
A
O
ASN
54
1_555
E
CA
480
C
CA
CA
1_555
E
VAL
75
A
O
VAL
57
1_555
87.0
E
GLU
70
A
OE1
GLU
52
1_555
E
CA
480
C
CA
CA
1_555
E
GLU
80
A
OE2
GLU
62
1_555
103.0
E
ASN
72
A
O
ASN
54
1_555
E
CA
480
C
CA
CA
1_555
E
GLU
80
A
OE2
GLU
62
1_555
157.1
E
VAL
75
A
O
VAL
57
1_555
E
CA
480
C
CA
CA
1_555
E
GLU
80
A
OE2
GLU
62
1_555
87.2
E
GLU
70
A
OE1
GLU
52
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
714
D
O
HOH
1_555
88.4
E
ASN
72
A
O
ASN
54
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
714
D
O
HOH
1_555
85.9
E
VAL
75
A
O
VAL
57
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
714
D
O
HOH
1_555
109.0
E
GLU
80
A
OE2
GLU
62
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
714
D
O
HOH
1_555
75.1
E
GLU
70
A
OE1
GLU
52
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
810
D
O
HOH
1_555
79.4
E
ASN
72
A
O
ASN
54
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
810
D
O
HOH
1_555
108.4
E
VAL
75
A
O
VAL
57
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
810
D
O
HOH
1_555
85.0
E
GLU
80
A
OE2
GLU
62
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
810
D
O
HOH
1_555
93.0
E
HOH
714
D
O
HOH
1_555
E
CA
480
C
CA
CA
1_555
E
HOH
810
D
O
HOH
1_555
160.8
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
E
O
TYR
20
A
O
TYR
5
E
N
CYS
157
A
N
CYS
137
E
O
ALA
160
A
O
ALA
140
E
N
CYS
136
A
N
CYS
116
E
N
SER
139
A
N
SER
119
E
O
PRO
198
A
O
PRO
180
E
N
CYS
201
A
N
CYS
183
E
O
LYS
204
A
O
LYS
186
E
O
TRP
215
A
O
TRP
193
E
N
VAL
227
A
N
VAL
205
E
N
TYR
228
A
N
TYR
206
E
O
PHE
181
A
O
PHE
161
E
O
LEU
33
A
O
LEU
18
E
N
PHE
41
A
N
PHE
24
E
N
ILE
47
A
N
ILE
30
E
O
TRP
51
A
O
TRP
34
E
N
SER
54
A
N
SER
37
E
O
MET
104
A
O
MET
86
E
O
LYS
107
A
O
LYS
89
E
N
SER
86
A
N
SER
68
E
O
ILE
83
A
O
ILE
65
E
N
VAL
65
A
N
VAL
48
E
N
ARG
66
A
N
ARG
49
E
O
SER
32
A
O
SER
17
1
6.42
0.80
106.30
112.72
E
E
E
CD1
CG
CD2
TRP
TRP
TRP
51
51
51
N
1
-5.69
0.80
107.30
101.61
E
E
E
CE2
CD2
CG
TRP
TRP
TRP
51
51
51
N
1
3.39
0.50
120.30
123.69
E
E
E
NE
CZ
NH1
ARG
ARG
ARG
66
66
66
N
1
-3.35
0.50
120.30
116.95
E
E
E
NE
CZ
NH2
ARG
ARG
ARG
66
66
66
N
1
15.62
2.30
115.30
130.92
E
E
E
CA
CB
CG
LEU
LEU
LEU
67
67
67
N
1
-3.44
0.50
120.30
116.86
E
E
E
NE
CZ
NH2
ARG
ARG
ARG
117
117
117
N
1
6.65
0.80
106.30
112.95
E
E
E
CD1
CG
CD2
TRP
TRP
TRP
141
141
141
N
1
-5.49
0.80
107.30
101.81
E
E
E
CE2
CD2
CG
TRP
TRP
TRP
141
141
141
N
1
6.10
0.80
106.30
112.40
E
E
E
CD1
CG
CD2
TRP
TRP
TRP
215
215
215
N
1
-5.09
0.80
107.30
102.21
E
E
E
CE2
CD2
CG
TRP
TRP
TRP
215
215
215
N
1
6.23
0.80
106.30
112.53
E
E
E
CD1
CG
CD2
TRP
TRP
TRP
237
237
237
N
1
-5.72
0.80
107.30
101.58
E
E
E
CE2
CD2
CG
TRP
TRP
TRP
237
237
237
N
1
E
E
NE2
CD2
HIS
HIS
57
57
-0.071
0.011
1.373
1.302
N
1
E
E
NE2
CD2
HIS
HIS
91
91
-0.077
0.011
1.373
1.296
N
1
E
E
CD
OE2
GLU
GLU
186
186
0.067
0.011
1.252
1.319
N
1
E
E
O
O
HOH
HOH
814
863
0.79
1_555
2_554
1
E
E
O
O
HOH
HOH
911
968
0.81
1_555
2_554
1
E
ASP
71
-129.99
-82.36
1
E
ASN
79
81.95
-6.82
1
E
ASN
115
-169.31
-156.11
1
E
SER
195
-35.38
134.44
0.181
0.181
1.8
1
1.8
147
1814
38
0
1629
0.011
2.54
model building
X-PLOR
refinement
X-PLOR
phasing
X-PLOR
TRYPSIN (E.C.3.4.21.4) COMPLEX WITH NONCOVALENTLY BOUND NAPAP
GEOMETRY OF BINDING OF THE BENZAMIDINE-AND ARGININE-BASED INHIBITORS N-ALPHA-(2-NAPHTHYL-SULPHONYL-GLYCYL)-DL-P-AMIDINOPHENYLALANYL-PIPERIDINE (NAPAP) AND (2R,4R)-4-METHYL-1-[N-ALPHA-(3-METHYL-1,2,3,4-TETRAHYDRO-8-QUINOLINESULPHONYL)-L-ARGINYL]-2-PIPERIDINE CARBOXYLIC ACID (MQPA) TO HUMAN ALPHA-THROMBIN: X-RAY CRYSTALLOGRAPHIC DETERMINATION OF THE NAPAP-TRYPSIN COMPLEX AND MODELING OF NAPAP-THROMBIN AND MQPA-THROMBIN
1
N
N
2
N
N
3
N
N
4
N
N
E
ALA
55
A
ALA
38
HELX_P
E
TYR
59
A
TYR
42
5
1
5
E
SER
164
A
SER
144
HELX_P
E
TYR
172
A
TYR
152
1
2
9
E
TYR
234
A
TYR
212
HELX_P
E
SER
244
A
SER
222
1
3
11
disulf
2.057
E
CYS
22
A
SG
CYS
7
1_555
E
CYS
157
A
SG
CYS
137
1_555
disulf
2.054
E
CYS
42
A
SG
CYS
25
1_555
E
CYS
58
A
SG
CYS
41
1_555
disulf
2.027
E
CYS
128
A
SG
CYS
109
1_555
E
CYS
232
A
SG
CYS
210
1_555
disulf
2.009
E
CYS
136
A
SG
CYS
116
1_555
E
CYS
201
A
SG
CYS
183
1_555
disulf
1.996
E
CYS
168
A
SG
CYS
148
1_555
E
CYS
182
A
SG
CYS
162
1_555
disulf
2.012
E
CYS
191
A
SG
CYS
173
1_555
E
CYS
220
A
SG
CYS
197
1_555
metalc
2.395
E
GLU
70
A
OE1
GLU
52
1_555
E
CA
480
C
CA
CA
1_555
metalc
2.320
E
ASN
72
A
O
ASN
54
1_555
E
CA
480
C
CA
CA
1_555
metalc
2.343
E
VAL
75
A
O
VAL
57
1_555
E
CA
480
C
CA
CA
1_555
metalc
2.581
E
GLU
80
A
OE2
GLU
62
1_555
E
CA
480
C
CA
CA
1_555
metalc
2.409
E
CA
480
C
CA
CA
1_555
E
HOH
714
D
O
HOH
1_555
metalc
2.428
E
CA
480
C
CA
CA
1_555
E
HOH
810
D
O
HOH
1_555
HYDROLASE/hydrolase inhibitor
SERINE PROTEINASE, HYDROLASE-hydrolase inhibitor complex
TRY1_BOVIN
UNP
1
1
P00760
FIFLALLGAAVAFPVDDDDKIVGGYTCGANTVPYQVSLNSGYHFCGGSLINSQWVVSAAHCYKSGIQVRLGEDNINVVEG
NEQFISASKSIVHPSYNSNTLNNDIMLIKLKSAASLNSRVASISLPTSCASAGTQCLISGWGNTKSSGTSYPDVLKCLKA
PILSDSSCKSAYPGQITSNMFCAGYLEGGKDSCQGDSGGPVVCSGKLQGIVSWGSGCAQKNKPGVYTKVCNYVSWIKQTI
ASN
21
243
1PPC
16
245
P00760
E
1
1
223
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
E
TYR
20
A
TYR
5
E
THR
21
A
THR
6
E
LYS
156
A
LYS
136
E
PRO
161
A
PRO
141
E
GLN
135
A
GLN
115
E
GLY
140
A
GLY
120
E
PRO
198
A
PRO
180
E
CYS
201
A
CYS
183
E
LYS
204
A
LYS
186
E
TRP
215
A
TRP
193
E
GLY
226
A
GLY
204
E
LYS
230
A
LYS
208
E
MET
180
A
MET
160
E
ALA
183
A
ALA
163
E
GLN
30
A
GLN
15
E
ASN
34
A
ASN
19
E
HIS
40
A
HIS
23
E
ASN
48
A
ASN
31
E
TRP
51
A
TRP
34
E
SER
54
A
SER
37
E
MET
104
A
MET
86
E
LEU
108
A
LEU
90
E
GLN
81
A
GLN
63
E
VAL
90
A
VAL
72
E
GLN
64
A
GLN
47
E
LEU
67
A
LEU
50
E
GLN
30
A
GLN
15
E
ASN
34
A
ASN
19
Software
15
Software
6
E
HIS
57
A
HIS
40
15
1_555
E
ASN
97
A
ASN
79
15
1_555
E
LEU
99
A
LEU
81
15
1_555
E
ASP
189
A
ASP
171
15
1_555
E
SER
190
A
SER
172
15
1_555
E
SER
195
A
SER
177
15
1_555
E
SER
214
A
SER
192
15
1_555
E
TRP
215
A
TRP
193
15
1_555
E
GLY
216
A
GLY
194
15
1_555
E
SER
217
A
SER
195
15
1_555
E
GLY
219
A
GLY
196
15
1_555
E
GLY
226
A
GLY
204
15
1_555
E
HOH
416
D
HOH
15
1_555
E
HOH
843
D
HOH
15
1_555
E
HOH
948
D
HOH
15
1_555
E
GLU
70
A
GLU
52
6
1_555
E
ASN
72
A
ASN
54
6
1_555
E
VAL
75
A
VAL
57
6
1_555
E
GLU
80
A
GLU
62
6
1_555
E
HOH
714
D
HOH
6
1_555
E
HOH
810
D
HOH
6
1_555
19
P 21 21 21