0.014094
0.000000
0.002648
0.000000
0.013863
0.000000
0.000000
0.000000
0.013967
0.00000
0.00000
0.00000
Spurlino, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
100.64
90.00
70.950
72.135
72.850
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
C19 H21 Cl F3 N5 O2
443.851
N-[2-({[amino(imino)methyl]amino}oxy)ethyl]-2-{6-chloro-3-[(2,2-difluoro-2-phenylethyl)amino]-2-fluorophenyl}acetamide
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
UK
Bioorg.Med.Chem.Lett.
BMCLE8
1127
0960-894X
17
6266
6269
10.1016/j.bmcl.2007.09.013
17889527
2-(2-Chloro-6-Fluorophenyl)Acetamides as Potent Thrombin Inhibitors
2007
1
IMAGE PLATE
2001-03-06
RIGAKU RAXIS II
SINGLE WAVELENGTH
M
x-ray
1
1.0
ROTATING ANODE
ENRAF-NONIUS FR591
3075.470
Thrombin light chain
3.4.21.5
unp residues 334-359
1
nat
polymer
29780.219
Thrombin heavy chain
3.4.21.5
1
man
polymer
1411.465
Hirudin-3A
unp residues 55-65
1
man
polymer
443.851
N-[2-({[amino(imino)methyl]amino}oxy)ethyl]-2-{6-chloro-3-[(2,2-difluoro-2-phenylethyl)amino]-2-fluorophenyl}acetamide
1
syn
non-polymer
18.015
water
137
nat
water
Hirudin IIIA
no
no
ADCGLRPLFEKKSLEDKTERELLESY
ADCGLRPLFEKKSLEDKTERELLESY
A
polypeptide(L)
no
no
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
B
polypeptide(L)
no
no
DFEEIPEEYLQ
DFEEIPEEYLQ
H
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
human
sample
F2
9606
Homo sapiens
Medicinal leech
sample
6421
Hirudo medicinalis
Human
sample
9606
Homo sapiens
1
2.67
53.95
repository
Initial release
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
1
0
2008-08-26
1
1
2011-07-13
RCSB
Y
RCSB
2007-08-27
REL
REL
I50
N-[2-({[amino(imino)methyl]amino}oxy)ethyl]-2-{6-chloro-3-[(2,2-difluoro-2-phenylethyl)amino]-2-fluorophenyl}acetamide
HOH
water
I50
5000
4
I50
I50
5000
B
HOH
33
5
HOH
HOH
33
A
HOH
34
5
HOH
HOH
34
A
HOH
35
5
HOH
HOH
35
A
HOH
36
5
HOH
HOH
36
A
HOH
37
5
HOH
HOH
37
A
HOH
38
5
HOH
HOH
38
A
HOH
39
5
HOH
HOH
39
A
HOH
40
5
HOH
HOH
40
A
HOH
41
5
HOH
HOH
41
A
HOH
42
5
HOH
HOH
42
A
HOH
43
5
HOH
HOH
43
A
HOH
44
5
HOH
HOH
44
A
HOH
5001
5
HOH
HOH
5001
B
HOH
5002
5
HOH
HOH
5002
B
HOH
5003
5
HOH
HOH
5003
B
HOH
5004
5
HOH
HOH
5004
B
HOH
5005
5
HOH
HOH
5005
B
HOH
5006
5
HOH
HOH
5006
B
HOH
5007
5
HOH
HOH
5007
B
HOH
5008
5
HOH
HOH
5008
B
HOH
5009
5
HOH
HOH
5009
B
HOH
5010
5
HOH
HOH
5010
B
HOH
5011
5
HOH
HOH
5011
B
HOH
5012
5
HOH
HOH
5012
B
HOH
5013
5
HOH
HOH
5013
B
HOH
5014
5
HOH
HOH
5014
B
HOH
5015
5
HOH
HOH
5015
B
HOH
5016
5
HOH
HOH
5016
B
HOH
5017
5
HOH
HOH
5017
B
HOH
5018
5
HOH
HOH
5018
B
HOH
5019
5
HOH
HOH
5019
B
HOH
5020
5
HOH
HOH
5020
B
HOH
5021
5
HOH
HOH
5021
B
HOH
5022
5
HOH
HOH
5022
B
HOH
5023
5
HOH
HOH
5023
B
HOH
5024
5
HOH
HOH
5024
B
HOH
5025
5
HOH
HOH
5025
B
HOH
5026
5
HOH
HOH
5026
B
HOH
5027
5
HOH
HOH
5027
B
HOH
5028
5
HOH
HOH
5028
B
HOH
5029
5
HOH
HOH
5029
B
HOH
5030
5
HOH
HOH
5030
B
HOH
5031
5
HOH
HOH
5031
B
HOH
5032
5
HOH
HOH
5032
B
HOH
5033
5
HOH
HOH
5033
B
HOH
5034
5
HOH
HOH
5034
B
HOH
5035
5
HOH
HOH
5035
B
HOH
5036
5
HOH
HOH
5036
B
HOH
5037
5
HOH
HOH
5037
B
HOH
5038
5
HOH
HOH
5038
B
HOH
5039
5
HOH
HOH
5039
B
HOH
5040
5
HOH
HOH
5040
B
HOH
5041
5
HOH
HOH
5041
B
HOH
5042
5
HOH
HOH
5042
B
HOH
5043
5
HOH
HOH
5043
B
HOH
5044
5
HOH
HOH
5044
B
HOH
5045
5
HOH
HOH
5045
B
HOH
5046
5
HOH
HOH
5046
B
HOH
5047
5
HOH
HOH
5047
B
HOH
5048
5
HOH
HOH
5048
B
HOH
5049
5
HOH
HOH
5049
B
HOH
5050
5
HOH
HOH
5050
B
HOH
5051
5
HOH
HOH
5051
B
HOH
5052
5
HOH
HOH
5052
B
HOH
5053
5
HOH
HOH
5053
B
HOH
5054
5
HOH
HOH
5054
B
HOH
5055
5
HOH
HOH
5055
B
HOH
5056
5
HOH
HOH
5056
B
HOH
5057
5
HOH
HOH
5057
B
HOH
5058
5
HOH
HOH
5058
B
HOH
5059
5
HOH
HOH
5059
B
HOH
5060
5
HOH
HOH
5060
B
HOH
5061
5
HOH
HOH
5061
B
HOH
5062
5
HOH
HOH
5062
B
HOH
5063
5
HOH
HOH
5063
B
HOH
5064
5
HOH
HOH
5064
B
HOH
5065
5
HOH
HOH
5065
B
HOH
5066
5
HOH
HOH
5066
B
HOH
5067
5
HOH
HOH
5067
B
HOH
5068
5
HOH
HOH
5068
B
HOH
5069
5
HOH
HOH
5069
B
HOH
5070
5
HOH
HOH
5070
B
HOH
5071
5
HOH
HOH
5071
B
HOH
5072
5
HOH
HOH
5072
B
HOH
5073
5
HOH
HOH
5073
B
HOH
5074
5
HOH
HOH
5074
B
HOH
5075
5
HOH
HOH
5075
B
HOH
5076
5
HOH
HOH
5076
B
HOH
5077
5
HOH
HOH
5077
B
HOH
5078
5
HOH
HOH
5078
B
HOH
5079
5
HOH
HOH
5079
B
HOH
5080
5
HOH
HOH
5080
B
HOH
5081
5
HOH
HOH
5081
B
HOH
5082
5
HOH
HOH
5082
B
HOH
5083
5
HOH
HOH
5083
B
HOH
5084
5
HOH
HOH
5084
B
HOH
5085
5
HOH
HOH
5085
B
HOH
5086
5
HOH
HOH
5086
B
HOH
5087
5
HOH
HOH
5087
B
HOH
5088
5
HOH
HOH
5088
B
HOH
5089
5
HOH
HOH
5089
B
HOH
5090
5
HOH
HOH
5090
B
HOH
5091
5
HOH
HOH
5091
B
HOH
5092
5
HOH
HOH
5092
B
HOH
5093
5
HOH
HOH
5093
B
HOH
5094
5
HOH
HOH
5094
B
HOH
5095
5
HOH
HOH
5095
B
HOH
5096
5
HOH
HOH
5096
B
HOH
5097
5
HOH
HOH
5097
B
HOH
5098
5
HOH
HOH
5098
B
HOH
5099
5
HOH
HOH
5099
B
HOH
5100
5
HOH
HOH
5100
B
HOH
5101
5
HOH
HOH
5101
B
HOH
5102
5
HOH
HOH
5102
B
HOH
5103
5
HOH
HOH
5103
B
HOH
5104
5
HOH
HOH
5104
B
HOH
5105
5
HOH
HOH
5105
B
HOH
5106
5
HOH
HOH
5106
B
HOH
5107
5
HOH
HOH
5107
B
HOH
5108
5
HOH
HOH
5108
B
HOH
5109
5
HOH
HOH
5109
B
HOH
5110
5
HOH
HOH
5110
B
HOH
5111
5
HOH
HOH
5111
B
HOH
5112
5
HOH
HOH
5112
B
HOH
5113
5
HOH
HOH
5113
B
HOH
5114
5
HOH
HOH
5114
B
HOH
5115
5
HOH
HOH
5115
B
HOH
5116
5
HOH
HOH
5116
B
HOH
5117
5
HOH
HOH
5117
B
HOH
5118
5
HOH
HOH
5118
B
HOH
5119
5
HOH
HOH
5119
B
HOH
5120
5
HOH
HOH
5120
B
HOH
5121
5
HOH
HOH
5121
B
HOH
5122
5
HOH
HOH
5122
B
HOH
301
5
HOH
HOH
301
H
HOH
302
5
HOH
HOH
302
H
HOH
303
5
HOH
HOH
303
H
ALA
7
n
1
ALA
7
A
ASP
8
n
2
ASP
8
A
CYS
9
n
3
CYS
9
A
GLY
10
n
4
GLY
10
A
LEU
11
n
5
LEU
11
A
ARG
12
n
6
ARG
12
A
PRO
13
n
7
PRO
13
A
LEU
14
n
8
LEU
14
A
PHE
15
n
9
PHE
15
A
GLU
16
n
10
GLU
16
A
LYS
17
n
11
LYS
17
A
LYS
18
n
12
LYS
18
A
SER
19
n
13
SER
19
A
LEU
20
n
14
LEU
20
A
GLU
21
n
15
GLU
21
A
ASP
22
n
16
ASP
22
A
LYS
23
n
17
LYS
23
A
THR
24
n
18
THR
24
A
GLU
25
n
19
GLU
25
A
ARG
26
n
20
ARG
26
A
GLU
27
n
21
GLU
27
A
LEU
28
n
22
LEU
28
A
LEU
29
n
23
LEU
29
A
GLU
30
n
24
GLU
30
A
SER
31
n
25
SER
31
A
TYR
32
n
26
TYR
32
A
ILE
37
n
1
ILE
37
B
VAL
38
n
2
VAL
38
B
GLU
39
n
3
GLU
39
B
GLY
40
n
4
GLY
40
B
SER
41
n
5
SER
41
B
ASP
42
n
6
ASP
42
B
ALA
43
n
7
ALA
43
B
GLU
44
n
8
GLU
44
B
ILE
45
n
9
ILE
45
B
GLY
46
n
10
GLY
46
B
MET
47
n
11
MET
47
B
SER
48
n
12
SER
48
B
PRO
49
n
13
PRO
49
B
TRP
50
n
14
TRP
50
B
GLN
51
n
15
GLN
51
B
VAL
52
n
16
VAL
52
B
MET
53
n
17
MET
53
B
LEU
54
n
18
LEU
54
B
PHE
55
n
19
PHE
55
B
ARG
56
n
20
ARG
56
B
LYS
57
n
21
LYS
57
B
SER
58
n
22
SER
58
B
PRO
59
n
23
PRO
59
B
GLN
60
n
24
GLN
60
B
GLU
61
n
25
GLU
61
B
LEU
62
n
26
LEU
62
B
LEU
63
n
27
LEU
63
B
CYS
64
n
28
CYS
64
B
GLY
65
n
29
GLY
65
B
ALA
66
n
30
ALA
66
B
SER
67
n
31
SER
67
B
LEU
68
n
32
LEU
68
B
ILE
69
n
33
ILE
69
B
SER
70
n
34
SER
70
B
ASP
71
n
35
ASP
71
B
ARG
72
n
36
ARG
72
B
TRP
73
n
37
TRP
73
B
VAL
74
n
38
VAL
74
B
LEU
75
n
39
LEU
75
B
THR
76
n
40
THR
76
B
ALA
77
n
41
ALA
77
B
ALA
78
n
42
ALA
78
B
HIS
79
n
43
HIS
79
B
CYS
80
n
44
CYS
80
B
LEU
81
n
45
LEU
81
B
LEU
82
n
46
LEU
82
B
TYR
83
n
47
TYR
83
B
PRO
84
n
48
PRO
84
B
PRO
85
n
49
PRO
85
B
TRP
86
n
50
TRP
86
B
ASP
87
n
51
ASP
87
B
LYS
88
n
52
LYS
88
B
ASN
89
n
53
ASN
89
B
PHE
90
n
54
PHE
90
B
THR
91
n
55
THR
91
B
GLU
92
n
56
GLU
92
B
ASN
93
n
57
ASN
93
B
ASP
94
n
58
ASP
94
B
LEU
95
n
59
LEU
95
B
LEU
96
n
60
LEU
96
B
VAL
97
n
61
VAL
97
B
ARG
98
n
62
ARG
98
B
ILE
99
n
63
ILE
99
B
GLY
100
n
64
GLY
100
B
LYS
101
n
65
LYS
101
B
HIS
102
n
66
HIS
102
B
SER
103
n
67
SER
103
B
ARG
104
n
68
ARG
104
B
THR
105
n
69
THR
105
B
ARG
106
n
70
ARG
106
B
TYR
107
n
71
TYR
107
B
GLU
108
n
72
GLU
108
B
ARG
109
n
73
ARG
109
B
ASN
110
n
74
ASN
110
B
ILE
111
n
75
ILE
111
B
GLU
112
n
76
GLU
112
B
LYS
113
n
77
LYS
113
B
ILE
114
n
78
ILE
114
B
SER
115
n
79
SER
115
B
MET
116
n
80
MET
116
B
LEU
117
n
81
LEU
117
B
GLU
118
n
82
GLU
118
B
LYS
119
n
83
LYS
119
B
ILE
120
n
84
ILE
120
B
TYR
121
n
85
TYR
121
B
ILE
122
n
86
ILE
122
B
HIS
123
n
87
HIS
123
B
PRO
124
n
88
PRO
124
B
ARG
125
n
89
ARG
125
B
TYR
126
n
90
TYR
126
B
ASN
127
n
91
ASN
127
B
TRP
128
n
92
TRP
128
B
ARG
129
n
93
ARG
129
B
GLU
130
n
94
GLU
130
B
ASN
131
n
95
ASN
131
B
LEU
132
n
96
LEU
132
B
ASP
133
n
97
ASP
133
B
ARG
134
n
98
ARG
134
B
ASP
135
n
99
ASP
135
B
ILE
136
n
100
ILE
136
B
ALA
137
n
101
ALA
137
B
LEU
138
n
102
LEU
138
B
MET
139
n
103
MET
139
B
LYS
140
n
104
LYS
140
B
LEU
141
n
105
LEU
141
B
LYS
142
n
106
LYS
142
B
LYS
143
n
107
LYS
143
B
PRO
144
n
108
PRO
144
B
VAL
145
n
109
VAL
145
B
ALA
146
n
110
ALA
146
B
PHE
147
n
111
PHE
147
B
SER
148
n
112
SER
148
B
ASP
149
n
113
ASP
149
B
TYR
150
n
114
TYR
150
B
ILE
151
n
115
ILE
151
B
HIS
152
n
116
HIS
152
B
PRO
153
n
117
PRO
153
B
VAL
154
n
118
VAL
154
B
CYS
155
n
119
CYS
155
B
LEU
156
n
120
LEU
156
B
PRO
157
n
121
PRO
157
B
ASP
158
n
122
ASP
158
B
ARG
159
n
123
ARG
159
B
GLU
160
n
124
GLU
160
B
THR
161
n
125
THR
161
B
ALA
162
n
126
ALA
162
B
ALA
163
n
127
ALA
163
B
SER
164
n
128
SER
164
B
LEU
165
n
129
LEU
165
B
LEU
166
n
130
LEU
166
B
GLN
167
n
131
GLN
167
B
ALA
168
n
132
ALA
168
B
GLY
169
n
133
GLY
169
B
TYR
170
n
134
TYR
170
B
LYS
171
n
135
LYS
171
B
GLY
172
n
136
GLY
172
B
ARG
173
n
137
ARG
173
B
VAL
174
n
138
VAL
174
B
THR
175
n
139
THR
175
B
GLY
176
n
140
GLY
176
B
TRP
177
n
141
TRP
177
B
GLY
178
n
142
GLY
178
B
ASN
179
n
143
ASN
179
B
LEU
180
n
144
LEU
180
B
LYS
181
n
145
LYS
181
B
GLU
182
n
146
GLU
182
B
n
147
A
182
B
n
148
B
182
B
n
149
C
182
B
n
150
D
182
B
n
151
E
182
B
n
152
F
182
B
n
153
G
182
B
n
154
H
182
B
GLY
185
n
155
GLY
185
B
GLN
186
n
156
GLN
186
B
PRO
187
n
157
PRO
187
B
SER
188
n
158
SER
188
B
VAL
189
n
159
VAL
189
B
LEU
190
n
160
LEU
190
B
GLN
191
n
161
GLN
191
B
VAL
192
n
162
VAL
192
B
VAL
193
n
163
VAL
193
B
ASN
194
n
164
ASN
194
B
LEU
195
n
165
LEU
195
B
PRO
196
n
166
PRO
196
B
ILE
197
n
167
ILE
197
B
VAL
198
n
168
VAL
198
B
GLU
199
n
169
GLU
199
B
ARG
200
n
170
ARG
200
B
PRO
201
n
171
PRO
201
B
VAL
202
n
172
VAL
202
B
CYS
203
n
173
CYS
203
B
LYS
204
n
174
LYS
204
B
ASP
205
n
175
ASP
205
B
SER
206
n
176
SER
206
B
THR
207
n
177
THR
207
B
ARG
208
n
178
ARG
208
B
ILE
209
n
179
ILE
209
B
ARG
210
n
180
ARG
210
B
ILE
211
n
181
ILE
211
B
THR
212
n
182
THR
212
B
ASP
213
n
183
ASP
213
B
ASN
214
n
184
ASN
214
B
MET
215
n
185
MET
215
B
PHE
216
n
186
PHE
216
B
CYS
217
n
187
CYS
217
B
ALA
218
n
188
ALA
218
B
GLY
219
n
189
GLY
219
B
TYR
220
n
190
TYR
220
B
LYS
221
n
191
LYS
221
B
PRO
222
n
192
PRO
222
B
ASP
223
n
193
ASP
223
B
GLU
224
n
194
GLU
224
B
GLY
225
n
195
GLY
225
B
LYS
226
n
196
LYS
226
B
ARG
227
n
197
ARG
227
B
GLY
228
n
198
GLY
228
B
ASP
229
n
199
ASP
229
B
ALA
230
n
200
ALA
230
B
CYS
231
n
201
CYS
231
B
GLU
232
n
202
GLU
232
B
GLY
233
n
203
GLY
233
B
ASP
234
n
204
ASP
234
B
SER
235
n
205
SER
235
B
GLY
236
n
206
GLY
236
B
GLY
237
n
207
GLY
237
B
PRO
238
n
208
PRO
238
B
PHE
239
n
209
PHE
239
B
VAL
240
n
210
VAL
240
B
MET
241
n
211
MET
241
B
LYS
242
n
212
LYS
242
B
SER
243
n
213
SER
243
B
PRO
244
n
214
PRO
244
B
PHE
245
n
215
PHE
245
B
ASN
246
n
216
ASN
246
B
ASN
247
n
217
ASN
247
B
ARG
248
n
218
ARG
248
B
TRP
249
n
219
TRP
249
B
TYR
250
n
220
TYR
250
B
GLN
251
n
221
GLN
251
B
MET
252
n
222
MET
252
B
GLY
253
n
223
GLY
253
B
ILE
254
n
224
ILE
254
B
VAL
255
n
225
VAL
255
B
SER
256
n
226
SER
256
B
TRP
257
n
227
TRP
257
B
GLY
258
n
228
GLY
258
B
GLU
259
n
229
GLU
259
B
GLY
260
n
230
GLY
260
B
CYS
261
n
231
CYS
261
B
ASP
262
n
232
ASP
262
B
ARG
263
n
233
ARG
263
B
ASP
264
n
234
ASP
264
B
GLY
265
n
235
GLY
265
B
LYS
266
n
236
LYS
266
B
TYR
267
n
237
TYR
267
B
GLY
268
n
238
GLY
268
B
PHE
269
n
239
PHE
269
B
TYR
270
n
240
TYR
270
B
THR
271
n
241
THR
271
B
HIS
272
n
242
HIS
272
B
VAL
273
n
243
VAL
273
B
PHE
274
n
244
PHE
274
B
ARG
275
n
245
ARG
275
B
LEU
276
n
246
LEU
276
B
LYS
277
n
247
LYS
277
B
LYS
278
n
248
LYS
278
B
TRP
279
n
249
TRP
279
B
ILE
280
n
250
ILE
280
B
GLN
281
n
251
GLN
281
B
LYS
282
n
252
LYS
282
B
VAL
283
n
253
VAL
283
B
ILE
284
n
254
ILE
284
B
ASP
285
n
255
ASP
285
B
GLN
286
n
256
GLN
286
B
PHE
287
n
257
PHE
287
B
n
258
288
B
n
259
289
B
ASP
290
n
1
ASP
290
H
PHE
291
n
2
PHE
291
H
GLU
292
n
3
GLU
292
H
GLU
293
n
4
GLU
293
H
ILE
294
n
5
ILE
294
H
PRO
295
n
6
PRO
295
H
GLU
296
n
7
GLU
296
H
GLU
297
n
8
GLU
297
H
TYR
298
n
9
TYR
298
H
LEU
299
n
10
LEU
299
H
GLN
300
n
11
GLN
300
H
author_defined_assembly
3
trimeric
3260
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
B
N
SER
41
B
N
SER
5
B
O
VAL
192
B
O
VAL
162
B
O
LEU
195
B
O
LEU
165
B
N
GLY
172
B
N
GLY
136
B
N
ARG
173
B
N
ARG
137
B
O
VAL
240
B
O
VAL
210
B
N
MET
241
B
N
MET
211
B
O
TYR
250
B
O
TYR
220
B
N
TRP
257
B
N
TRP
227
B
O
PHE
269
B
O
PHE
239
B
O
TYR
270
B
O
TYR
240
B
N
PHE
216
B
N
PHE
186
B
O
LYS
113
B
O
LYS
77
B
N
ILE
99
B
N
ILE
63
B
O
LEU
96
B
O
LEU
60
B
N
PHE
55
B
N
PHE
19
B
N
ARG
56
B
N
ARG
20
B
O
GLU
61
B
O
GLU
25
B
N
SER
67
B
N
SER
31
B
O
LEU
75
B
O
LEU
39
B
N
THR
76
B
N
THR
40
B
O
ALA
137
B
O
ALA
101
B
O
LYS
140
B
O
LYS
104
B
N
GLU
118
B
N
GLU
82
B
N
TYR
83
B
N
TYR
47
B
O
LYS
88
B
O
LYS
52
1
B
ARG
106
B
ARG
70
A
1
B
THR
182
B
THR
147
1
Y
B
1
B
TRP
182
B
TRP
148
1
Y
C
1
B
THR
182
B
THR
149
1
Y
D
1
B
ALA
182
B
ALA
150
1
Y
E
1
B
ASN
182
B
ASN
151
1
Y
F
1
B
VAL
182
B
VAL
152
1
Y
G
1
B
GLY
182
B
GLY
153
1
Y
H
1
B
LYS
182
B
LYS
154
1
Y
1
B
GLY
288
B
GLY
258
1
Y
1
B
GLU
289
B
GLU
259
1
Y
1
B
B
C
N
SER
ARG
103
104
1.20
1
B
B
C
N
SER
ARG
103
104
-0.139
0.023
1.336
1.197
Y
1
B
B
NH1
NH2
ARG
ARG
106
106
0.36
1_555
2_555
1
B
B
NE
NE
ARG
ARG
106
106
0.80
1_555
2_555
1
B
B
CZ
NH1
ARG
ARG
106
106
1.12
1_555
2_555
1
B
B
CD
NE
ARG
ARG
106
106
1.26
1_555
2_555
1
B
B
NE
CZ
ARG
ARG
106
106
1.38
1_555
2_555
1
B
B
CZ
NH2
ARG
ARG
106
106
1.46
1_555
2_555
1
B
B
CD
CD
ARG
ARG
106
106
1.53
1_555
2_555
1
B
B
NE
NH1
ARG
ARG
106
106
1.92
1_555
2_555
1
A
PHE
15
-127.95
-88.63
1
B
ARG
72
-141.16
16.30
1
B
TYR
83
-152.12
83.53
1
B
ASN
89
-155.80
79.44
1
B
HIS
102
-136.61
-52.49
1
B
ASN
110
68.26
-3.91
1
B
GLU
130
-111.84
-71.69
1
B
ARG
227
-123.71
-169.09
1
B
SER
256
-111.28
-75.30
1
H
LEU
299
-69.95
28.32
29.99
3.93100
0.00000
-4.52900
-4.37200
-0.00000
0.44200
0.214
0.168
2.10
20.00
1873
18902
9.910
89.250
1
ml
44.364
0.366
2.10
20.00
137
2499
30
0
2332
0.004
0.599
11.805
0.052
0.002
0.252
2.121
343
34
55.000
0.235
2.143
374
34
62.000
0.248
2.166
377
34
61.000
0.238
2.190
438
34
67.000
0.216
2.214
414
34
68.000
0.235
2.240
433
34
71.000
0.240
2.268
453
34
75.000
0.219
2.296
489
34
75.000
0.221
2.327
458
34
76.000
0.216
2.359
475
34
77.000
0.205
2.392
494
34
80.000
0.194
2.428
494
34
78.000
0.200
2.466
477
34
80.000
0.186
2.506
518
34
81.000
0.199
2.550
502
34
81.000
0.203
2.596
534
34
86.000
0.199
2.646
535
34
87.000
0.197
2.700
536
34
85.000
0.197
2.759
504
34
83.000
0.179
2.823
531
34
85.000
0.177
2.893
533
34
87.000
0.198
2.972
547
34
86.000
0.173
3.059
537
34
87.000
0.183
3.158
549
34
87.000
0.154
3.271
524
34
86.000
0.149
3.402
563
34
89.000
0.134
3.556
548
34
87.000
0.124
3.744
540
34
89.000
0.128
3.978
564
34
88.000
0.114
4.286
536
34
86.000
0.123
4.717
547
34
87.000
0.118
5.399
549
34
88.000
0.160
6.801
573
34
90.000
0.173
71.638
540
34
82.000
23.65
2.1
20
2R2M
18902
1
refinement
P.D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
data extraction
PDB
sw-help@rcsb.rutgers.edu
July 2, 2007
C++
http://pdb.rutgers.edu/software/
PDB_EXTRACT
package
3.000
phasing
X-PLOR
Thrombin light chain, Thrombin heavy chain (E.C.3.4.21.5), Hirudin-3A
2-(2-Chloro-6-Fluorophenyl)Acetamides as Potent Thrombin Inhibitors
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
5
N
N
5
N
N
A
PHE
15
A
PHE
9
HELX_P
A
SER
19
A
SER
13
5
1
5
A
THR
24
A
THR
18
HELX_P
A
TYR
32
A
TYR
26
1
2
9
B
ALA
77
B
ALA
41
HELX_P
B
CYS
80
B
CYS
44
5
3
4
B
PRO
84
B
PRO
48
HELX_P
B
ASP
87
B
ASP
51
5
4
4
B
THR
91
B
THR
55
HELX_P
B
ASN
93
B
ASN
57
5
5
3
B
ASP
158
B
ASP
122
HELX_P
B
LEU
166
B
LEU
130
1
6
9
B
GLU
199
B
GLU
169
HELX_P
B
ASP
205
B
ASP
175
1
7
7
B
LYS
221
B
LYS
191
HELX_P
B
GLY
225
B
GLY
195
5
8
5
B
LEU
276
B
LEU
246
HELX_P
B
PHE
287
B
PHE
257
1
9
12
disulf
2.041
A
CYS
9
A
SG
CYS
3
1_555
B
CYS
155
B
SG
CYS
119
1_555
disulf
2.026
B
CYS
64
B
SG
CYS
28
1_555
B
CYS
80
B
SG
CYS
44
1_555
disulf
2.014
B
CYS
203
B
SG
CYS
173
1_555
B
CYS
217
B
SG
CYS
187
1_555
disulf
2.026
B
CYS
231
B
SG
CYS
201
1_555
B
CYS
261
B
SG
CYS
231
1_555
HYDROLASE/HYDROLASE INHIBITOR
Thrombin, Acute phase, Blood coagulation, Cleavage on pair of basic residues, Disease mutation, Gamma-carboxyglutamic acid, Glycoprotein, Kringle, Protease, Secreted, Serine protease, Zymogen, Protease inhibitor, Serine protease inhibitor, Sulfation, HYDROLASE-HYDROLASE INHIBITOR complex
B
SER
58
B
SER
22
1
B
PRO
59
B
PRO
23
-1.26
THRB_HUMAN
UNP
1
334
P00734
ADCGLRPLFEKKSLEDKTERELLESY
THRB_HUMAN
UNP
2
364
P00734
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM
LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY
THVFRLKKWIQKVIDQFGE
ITHG_HIRME
UNP
3
55
P28507
DFEEIPEEYLQ
334
359
2R2M
7
32
P00734
A
1
1
26
364
622
2R2M
37
289
P00734
B
2
1
259
55
65
2R2M
290
300
P28507
H
3
1
11
7
7
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
B
SER
41
B
SER
5
B
ASP
42
B
ASP
6
B
GLN
191
B
GLN
161
B
PRO
196
B
PRO
166
B
LYS
171
B
LYS
135
B
GLY
176
B
GLY
140
B
PRO
238
B
PRO
208
B
LYS
242
B
LYS
212
B
TRP
249
B
TRP
219
B
TRP
257
B
TRP
227
B
GLY
268
B
GLY
238
B
HIS
272
B
HIS
242
B
MET
215
B
MET
185
B
ALA
218
B
ALA
188
B
LYS
113
B
LYS
77
B
SER
115
B
SER
79
B
LEU
95
B
LEU
59
B
ILE
99
B
ILE
63
B
GLN
51
B
GLN
15
B
ARG
56
B
ARG
20
B
GLU
61
B
GLU
25
B
LEU
68
B
LEU
32
B
TRP
73
B
TRP
37
B
THR
76
B
THR
40
B
ALA
137
B
ALA
101
B
LEU
141
B
LEU
105
B
LEU
117
B
LEU
81
B
ILE
122
B
ILE
86
B
LEU
82
B
LEU
46
B
TYR
83
B
TYR
47
B
LYS
88
B
LYS
52
B
ASN
89
B
ASN
53
BINDING SITE FOR RESIDUE I50 B 5000
Software
15
BINDING SITE FOR CHAIN H OF HIRUDIN-3A
Software
14
B
HIS
79
B
HIS
43
15
1_555
B
TYR
83
B
TYR
47
15
1_555
B
GLU
130
B
GLU
94
15
1_555
B
ASP
229
B
ASP
199
15
1_555
B
ALA
230
B
ALA
200
15
1_555
B
CYS
231
B
CYS
201
15
1_555
B
SER
235
B
SER
205
15
1_555
B
SER
256
B
SER
226
15
1_555
B
TRP
257
B
TRP
227
15
1_555
B
GLY
258
B
GLY
228
15
1_555
B
GLU
259
B
GLU
229
15
1_555
B
GLY
260
B
GLY
230
15
1_555
B
CYS
261
B
CYS
231
15
1_555
B
HOH
5005
F
HOH
15
1_555
B
HOH
5099
F
HOH
15
1_555
B
PHE
55
B
PHE
19
14
1_555
B
LYS
57
B
LYS
21
14
1_555
B
GLN
60
B
GLN
24
14
1_555
B
LEU
62
B
LEU
26
14
1_555
B
LEU
96
B
LEU
60
14
1_555
B
ARG
104
B
ARG
68
14
1_555
B
THR
105
B
THR
69
14
1_555
B
ARG
106
B
ARG
70
14
1_555
B
TYR
107
B
TYR
71
14
1_555
B
MET
116
B
MET
80
14
1_555
B
HOH
5115
F
HOH
14
2_555
B
HOH
5122
F
HOH
14
1_555
H
HOH
301
G
HOH
14
1_555
H
HOH
302
G
HOH
14
1_555
5
C 1 2 1