0.016779
0.000000
0.000000
0.000000
0.019157
0.000000
0.000000
0.000000
0.016207
0.00000
0.00000
0.00000
Weber, I.T.
Wu, J.
Adomat, J.
Harrison, R.W.
Kimmel, A.R.
Wondrak, E.M.
Louis, J.M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
59.600
52.200
61.700
C40 H70 N11 O8 1
833.053
N-[(2R)-2-({N~5~-[amino(iminio)methyl]-L-ornithyl-L-valyl}amino)-4-methylpentyl]-L-phenylalanyl-L-alpha-glutamyl-L-alanyl-L-norleucinamide
Inhibitor analogues of CA-p2
peptide-like
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
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
249
523
530
10.1111/j.1432-1033.1997.00523.x
9370363
Crystallographic analysis of human immunodeficiency virus 1 protease with an analog of the conserved CA-p2 substrate -- interactions with frequently occurring glutamic acid residue at P2' position of substrates.
1997
10.2210/pdb1a8k/pdb
pdb_00001a8k
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
293
1
MIRRORS
IMAGE PLATE
1996-03
RIGAKU
NI FILTER
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH2R
10804.808
HIV PROTEASE
3.4.23.16
Q7K, L33I, L63I
4
man
polymer
ANALOG OF THE CONSERVED CA-P2 SUBSTRATE
833.053
N-[(2R)-2-({N~5~-[amino(iminio)methyl]-L-ornithyl-L-valyl}amino)-4-methylpentyl]-L-phenylalanyl-L-alpha-glutamyl-L-alanyl-L-norleucinamide
2
syn
non-polymer
18.015
water
159
nat
water
no
no
PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
A,B,D,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
Lentivirus
Escherichia
sample
11676
Human immunodeficiency virus 1
562
Escherichia coli
1
2.14
42.41
THE DATA WAS COLLECTED ON AN R-AXIS IMAGING PLATE DETECTOR MOUNTED ON AN RU200 RIGAKU ROTATING ANODE X-RAY GENERATOR THAT WAS OPERATED AT 50 KV AND 100 MA WITH A 0.5-MM COLLIMATOR. EACH OSCILLATION FRAME WAS EXPOSED FOR 45 MIN. AT ROOM TEMPERATURE WITH 3.0 OSCILLATIONS. THE DISTANCE TO THE DETECTOR PLATE WAS SET AT 100 MM.
4.7
pH 4.7
database_2
pdbx_database_status
struct_ref_seq_dif
struct_site
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Other
Database references
Derived calculations
Other
Refinement description
1
0
1999-01-13
1
1
2008-03-24
1
2
2011-07-13
1
3
2012-12-12
1
4
2021-11-03
1
5
2023-08-02
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1998-03-27
REL
0Q4
N-[(2R)-2-({N~5~-[amino(iminio)methyl]-L-ornithyl-L-valyl}amino)-4-methylpentyl]-L-phenylalanyl-L-alpha-glutamyl-L-alanyl-L-norleucinamide
HOH
water
PEPTIDE INHIBITOR 0Q4 HAS A REDUCED PEPTIDE (-CH2-NH) INSTEAD
OF THE NORMAL PEPTIDE LINK (-CO-NH).
MUTATIONS Q7K, L33I, L63I HAVE BEEN MADE TO STABILIZE
THE PROTEASE FROM AUTOPROTEOLYSIS, WHILE RETAINING
ACTIVITY SIMILAR TO WILD-TYPE HIV-1 PROTEASE
7HVP
PDB ENTRY 7HVP
PDB
experimental model
Inhibitor
N-[(2R)-2-({N~5~-[amino(iminio)methyl]-L-ornithyl-L-valyl}amino)-4-methylpentyl]-L-phenylalanyl-L-alpha-glutamyl-
L-alanyl-L-norleucinamide
Peptide-like
ARG
1
2
0Q4
0Q4
100
A
ARG
1
2
0Q4
0Q4
100
E
HOH
403
3
HOH
HOH
403
A
HOH
404
3
HOH
HOH
404
A
HOH
405
3
HOH
HOH
405
A
HOH
410
3
HOH
HOH
410
A
HOH
412
3
HOH
HOH
412
A
HOH
413
3
HOH
HOH
413
A
HOH
431
3
HOH
HOH
431
A
HOH
501
3
HOH
HOH
501
A
HOH
507
3
HOH
HOH
507
A
HOH
511
3
HOH
HOH
511
A
HOH
526
3
HOH
HOH
526
A
HOH
603
3
HOH
HOH
603
A
HOH
614
3
HOH
HOH
614
A
HOH
633
3
HOH
HOH
633
A
HOH
700
3
HOH
HOH
700
A
HOH
701
3
HOH
HOH
701
A
HOH
703
3
HOH
HOH
703
A
HOH
704
3
HOH
HOH
704
A
HOH
706
3
HOH
HOH
706
A
HOH
708
3
HOH
HOH
708
A
HOH
715
3
HOH
HOH
715
A
HOH
722
3
HOH
HOH
722
A
HOH
724
3
HOH
HOH
724
A
HOH
727
3
HOH
HOH
727
A
HOH
728
3
HOH
HOH
728
A
HOH
729
3
HOH
HOH
729
A
HOH
732
3
HOH
HOH
732
A
HOH
742
3
HOH
HOH
742
A
HOH
746
3
HOH
HOH
746
A
HOH
749
3
HOH
HOH
749
A
HOH
750
3
HOH
HOH
750
A
HOH
760
3
HOH
HOH
760
A
HOH
765
3
HOH
HOH
765
A
HOH
766
3
HOH
HOH
766
A
HOH
771
3
HOH
HOH
771
A
HOH
1548
3
HOH
HOH
1548
A
HOH
407
3
HOH
HOH
407
B
HOH
420
3
HOH
HOH
420
B
HOH
423
3
HOH
HOH
423
B
HOH
424
3
HOH
HOH
424
B
HOH
428
3
HOH
HOH
428
B
HOH
429
3
HOH
HOH
429
B
HOH
434
3
HOH
HOH
434
B
HOH
515
3
HOH
HOH
515
B
HOH
519
3
HOH
HOH
519
B
HOH
548
3
HOH
HOH
548
B
HOH
555
3
HOH
HOH
555
B
HOH
556
3
HOH
HOH
556
B
HOH
601
3
HOH
HOH
601
B
HOH
611
3
HOH
HOH
611
B
HOH
624
3
HOH
HOH
624
B
HOH
625
3
HOH
HOH
625
B
HOH
647
3
HOH
HOH
647
B
HOH
711
3
HOH
HOH
711
B
HOH
712
3
HOH
HOH
712
B
HOH
716
3
HOH
HOH
716
B
HOH
730
3
HOH
HOH
730
B
HOH
734
3
HOH
HOH
734
B
HOH
735
3
HOH
HOH
735
B
HOH
736
3
HOH
HOH
736
B
HOH
737
3
HOH
HOH
737
B
HOH
740
3
HOH
HOH
740
B
HOH
743
3
HOH
HOH
743
B
HOH
751
3
HOH
HOH
751
B
HOH
752
3
HOH
HOH
752
B
HOH
754
3
HOH
HOH
754
B
HOH
758
3
HOH
HOH
758
B
HOH
762
3
HOH
HOH
762
B
HOH
768
3
HOH
HOH
768
B
HOH
770
3
HOH
HOH
770
B
HOH
772
3
HOH
HOH
772
B
HOH
1704
3
HOH
HOH
1704
B
HOH
1750
3
HOH
HOH
1750
B
HOH
1766
3
HOH
HOH
1766
B
HOH
617
3
HOH
HOH
617
D
HOH
1402
3
HOH
HOH
1402
D
HOH
1403
3
HOH
HOH
1403
D
HOH
1404
3
HOH
HOH
1404
D
HOH
1405
3
HOH
HOH
1405
D
HOH
1406
3
HOH
HOH
1406
D
HOH
1410
3
HOH
HOH
1410
D
HOH
1412
3
HOH
HOH
1412
D
HOH
1413
3
HOH
HOH
1413
D
HOH
1414
3
HOH
HOH
1414
D
HOH
1431
3
HOH
HOH
1431
D
HOH
1441
3
HOH
HOH
1441
D
HOH
1507
3
HOH
HOH
1507
D
HOH
1515
3
HOH
HOH
1515
D
HOH
1526
3
HOH
HOH
1526
D
HOH
1603
3
HOH
HOH
1603
D
HOH
1614
3
HOH
HOH
1614
D
HOH
1633
3
HOH
HOH
1633
D
HOH
1645
3
HOH
HOH
1645
D
HOH
1647
3
HOH
HOH
1647
D
HOH
1700
3
HOH
HOH
1700
D
HOH
1701
3
HOH
HOH
1701
D
HOH
1703
3
HOH
HOH
1703
D
HOH
1706
3
HOH
HOH
1706
D
HOH
1709
3
HOH
HOH
1709
D
HOH
1724
3
HOH
HOH
1724
D
HOH
1726
3
HOH
HOH
1726
D
HOH
1727
3
HOH
HOH
1727
D
HOH
1729
3
HOH
HOH
1729
D
HOH
1731
3
HOH
HOH
1731
D
HOH
1732
3
HOH
HOH
1732
D
HOH
1742
3
HOH
HOH
1742
D
HOH
1746
3
HOH
HOH
1746
D
HOH
1747
3
HOH
HOH
1747
D
HOH
1748
3
HOH
HOH
1748
D
HOH
1749
3
HOH
HOH
1749
D
HOH
1764
3
HOH
HOH
1764
D
HOH
1765
3
HOH
HOH
1765
D
HOH
1767
3
HOH
HOH
1767
D
HOH
1771
3
HOH
HOH
1771
D
HOH
402
3
HOH
HOH
402
E
HOH
747
3
HOH
HOH
747
E
HOH
1407
3
HOH
HOH
1407
E
HOH
1408
3
HOH
HOH
1408
E
HOH
1409
3
HOH
HOH
1409
E
HOH
1411
3
HOH
HOH
1411
E
HOH
1420
3
HOH
HOH
1420
E
HOH
1423
3
HOH
HOH
1423
E
HOH
1424
3
HOH
HOH
1424
E
HOH
1428
3
HOH
HOH
1428
E
HOH
1429
3
HOH
HOH
1429
E
HOH
1434
3
HOH
HOH
1434
E
HOH
1438
3
HOH
HOH
1438
E
HOH
1501
3
HOH
HOH
1501
E
HOH
1511
3
HOH
HOH
1511
E
HOH
1519
3
HOH
HOH
1519
E
HOH
1555
3
HOH
HOH
1555
E
HOH
1556
3
HOH
HOH
1556
E
HOH
1601
3
HOH
HOH
1601
E
HOH
1611
3
HOH
HOH
1611
E
HOH
1617
3
HOH
HOH
1617
E
HOH
1711
3
HOH
HOH
1711
E
HOH
1712
3
HOH
HOH
1712
E
HOH
1715
3
HOH
HOH
1715
E
HOH
1716
3
HOH
HOH
1716
E
HOH
1722
3
HOH
HOH
1722
E
HOH
1728
3
HOH
HOH
1728
E
HOH
1730
3
HOH
HOH
1730
E
HOH
1734
3
HOH
HOH
1734
E
HOH
1735
3
HOH
HOH
1735
E
HOH
1736
3
HOH
HOH
1736
E
HOH
1737
3
HOH
HOH
1737
E
HOH
1739
3
HOH
HOH
1739
E
HOH
1740
3
HOH
HOH
1740
E
HOH
1741
3
HOH
HOH
1741
E
HOH
1743
3
HOH
HOH
1743
E
HOH
1754
3
HOH
HOH
1754
E
HOH
1755
3
HOH
HOH
1755
E
HOH
1758
3
HOH
HOH
1758
E
HOH
1760
3
HOH
HOH
1760
E
HOH
1761
3
HOH
HOH
1761
E
HOH
1762
3
HOH
HOH
1762
E
HOH
1768
3
HOH
HOH
1768
E
HOH
1770
3
HOH
HOH
1770
E
HOH
1772
3
HOH
HOH
1772
E
PRO
1
n
1
PRO
1
A
GLN
2
n
2
GLN
2
A
ILE
3
n
3
ILE
3
A
THR
4
n
4
THR
4
A
LEU
5
n
5
LEU
5
A
TRP
6
n
6
TRP
6
A
LYS
7
n
7
LYS
7
A
ARG
8
n
8
ARG
8
A
PRO
9
n
9
PRO
9
A
LEU
10
n
10
LEU
10
A
VAL
11
n
11
VAL
11
A
THR
12
n
12
THR
12
A
ILE
13
n
13
ILE
13
A
LYS
14
n
14
LYS
14
A
ILE
15
n
15
ILE
15
A
GLY
16
n
16
GLY
16
A
GLY
17
n
17
GLY
17
A
GLN
18
n
18
GLN
18
A
LEU
19
n
19
LEU
19
A
LYS
20
n
20
LYS
20
A
GLU
21
n
21
GLU
21
A
ALA
22
n
22
ALA
22
A
LEU
23
n
23
LEU
23
A
LEU
24
n
24
LEU
24
A
ASP
25
n
25
ASP
25
A
THR
26
n
26
THR
26
A
GLY
27
n
27
GLY
27
A
ALA
28
n
28
ALA
28
A
ASP
29
n
29
ASP
29
A
ASP
30
n
30
ASP
30
A
THR
31
n
31
THR
31
A
VAL
32
n
32
VAL
32
A
ILE
33
n
33
ILE
33
A
GLU
34
n
34
GLU
34
A
GLU
35
n
35
GLU
35
A
MET
36
n
36
MET
36
A
SER
37
n
37
SER
37
A
LEU
38
n
38
LEU
38
A
PRO
39
n
39
PRO
39
A
GLY
40
n
40
GLY
40
A
ARG
41
n
41
ARG
41
A
TRP
42
n
42
TRP
42
A
LYS
43
n
43
LYS
43
A
PRO
44
n
44
PRO
44
A
LYS
45
n
45
LYS
45
A
MET
46
n
46
MET
46
A
ILE
47
n
47
ILE
47
A
GLY
48
n
48
GLY
48
A
GLY
49
n
49
GLY
49
A
ILE
50
n
50
ILE
50
A
GLY
51
n
51
GLY
51
A
GLY
52
n
52
GLY
52
A
PHE
53
n
53
PHE
53
A
ILE
54
n
54
ILE
54
A
LYS
55
n
55
LYS
55
A
VAL
56
n
56
VAL
56
A
ARG
57
n
57
ARG
57
A
GLN
58
n
58
GLN
58
A
TYR
59
n
59
TYR
59
A
ASP
60
n
60
ASP
60
A
GLN
61
n
61
GLN
61
A
ILE
62
n
62
ILE
62
A
ILE
63
n
63
ILE
63
A
ILE
64
n
64
ILE
64
A
GLU
65
n
65
GLU
65
A
ILE
66
n
66
ILE
66
A
CYS
67
n
67
CYS
67
A
GLY
68
n
68
GLY
68
A
HIS
69
n
69
HIS
69
A
LYS
70
n
70
LYS
70
A
ALA
71
n
71
ALA
71
A
ILE
72
n
72
ILE
72
A
GLY
73
n
73
GLY
73
A
THR
74
n
74
THR
74
A
VAL
75
n
75
VAL
75
A
LEU
76
n
76
LEU
76
A
VAL
77
n
77
VAL
77
A
GLY
78
n
78
GLY
78
A
PRO
79
n
79
PRO
79
A
THR
80
n
80
THR
80
A
PRO
81
n
81
PRO
81
A
VAL
82
n
82
VAL
82
A
ASN
83
n
83
ASN
83
A
ILE
84
n
84
ILE
84
A
ILE
85
n
85
ILE
85
A
GLY
86
n
86
GLY
86
A
ARG
87
n
87
ARG
87
A
ASN
88
n
88
ASN
88
A
LEU
89
n
89
LEU
89
A
LEU
90
n
90
LEU
90
A
THR
91
n
91
THR
91
A
GLN
92
n
92
GLN
92
A
ILE
93
n
93
ILE
93
A
GLY
94
n
94
GLY
94
A
CYS
95
n
95
CYS
95
A
THR
96
n
96
THR
96
A
LEU
97
n
97
LEU
97
A
ASN
98
n
98
ASN
98
A
PHE
99
n
99
PHE
99
A
PRO
1
n
1
PRO
1
B
GLN
2
n
2
GLN
2
B
ILE
3
n
3
ILE
3
B
THR
4
n
4
THR
4
B
LEU
5
n
5
LEU
5
B
TRP
6
n
6
TRP
6
B
LYS
7
n
7
LYS
7
B
ARG
8
n
8
ARG
8
B
PRO
9
n
9
PRO
9
B
LEU
10
n
10
LEU
10
B
VAL
11
n
11
VAL
11
B
THR
12
n
12
THR
12
B
ILE
13
n
13
ILE
13
B
LYS
14
n
14
LYS
14
B
ILE
15
n
15
ILE
15
B
GLY
16
n
16
GLY
16
B
GLY
17
n
17
GLY
17
B
GLN
18
n
18
GLN
18
B
LEU
19
n
19
LEU
19
B
LYS
20
n
20
LYS
20
B
GLU
21
n
21
GLU
21
B
ALA
22
n
22
ALA
22
B
LEU
23
n
23
LEU
23
B
LEU
24
n
24
LEU
24
B
ASP
25
n
25
ASP
25
B
THR
26
n
26
THR
26
B
GLY
27
n
27
GLY
27
B
ALA
28
n
28
ALA
28
B
ASP
29
n
29
ASP
29
B
ASP
30
n
30
ASP
30
B
THR
31
n
31
THR
31
B
VAL
32
n
32
VAL
32
B
ILE
33
n
33
ILE
33
B
GLU
34
n
34
GLU
34
B
GLU
35
n
35
GLU
35
B
MET
36
n
36
MET
36
B
SER
37
n
37
SER
37
B
LEU
38
n
38
LEU
38
B
PRO
39
n
39
PRO
39
B
GLY
40
n
40
GLY
40
B
ARG
41
n
41
ARG
41
B
TRP
42
n
42
TRP
42
B
LYS
43
n
43
LYS
43
B
PRO
44
n
44
PRO
44
B
LYS
45
n
45
LYS
45
B
MET
46
n
46
MET
46
B
ILE
47
n
47
ILE
47
B
GLY
48
n
48
GLY
48
B
GLY
49
n
49
GLY
49
B
ILE
50
n
50
ILE
50
B
GLY
51
n
51
GLY
51
B
GLY
52
n
52
GLY
52
B
PHE
53
n
53
PHE
53
B
ILE
54
n
54
ILE
54
B
LYS
55
n
55
LYS
55
B
VAL
56
n
56
VAL
56
B
ARG
57
n
57
ARG
57
B
GLN
58
n
58
GLN
58
B
TYR
59
n
59
TYR
59
B
ASP
60
n
60
ASP
60
B
GLN
61
n
61
GLN
61
B
ILE
62
n
62
ILE
62
B
ILE
63
n
63
ILE
63
B
ILE
64
n
64
ILE
64
B
GLU
65
n
65
GLU
65
B
ILE
66
n
66
ILE
66
B
CYS
67
n
67
CYS
67
B
GLY
68
n
68
GLY
68
B
HIS
69
n
69
HIS
69
B
LYS
70
n
70
LYS
70
B
ALA
71
n
71
ALA
71
B
ILE
72
n
72
ILE
72
B
GLY
73
n
73
GLY
73
B
THR
74
n
74
THR
74
B
VAL
75
n
75
VAL
75
B
LEU
76
n
76
LEU
76
B
VAL
77
n
77
VAL
77
B
GLY
78
n
78
GLY
78
B
PRO
79
n
79
PRO
79
B
THR
80
n
80
THR
80
B
PRO
81
n
81
PRO
81
B
VAL
82
n
82
VAL
82
B
ASN
83
n
83
ASN
83
B
ILE
84
n
84
ILE
84
B
ILE
85
n
85
ILE
85
B
GLY
86
n
86
GLY
86
B
ARG
87
n
87
ARG
87
B
ASN
88
n
88
ASN
88
B
LEU
89
n
89
LEU
89
B
LEU
90
n
90
LEU
90
B
THR
91
n
91
THR
91
B
GLN
92
n
92
GLN
92
B
ILE
93
n
93
ILE
93
B
GLY
94
n
94
GLY
94
B
CYS
95
n
95
CYS
95
B
THR
96
n
96
THR
96
B
LEU
97
n
97
LEU
97
B
ASN
98
n
98
ASN
98
B
PHE
99
n
99
PHE
99
B
PRO
1
n
1
PRO
1
D
GLN
2
n
2
GLN
2
D
ILE
3
n
3
ILE
3
D
THR
4
n
4
THR
4
D
LEU
5
n
5
LEU
5
D
TRP
6
n
6
TRP
6
D
LYS
7
n
7
LYS
7
D
ARG
8
n
8
ARG
8
D
PRO
9
n
9
PRO
9
D
LEU
10
n
10
LEU
10
D
VAL
11
n
11
VAL
11
D
THR
12
n
12
THR
12
D
ILE
13
n
13
ILE
13
D
LYS
14
n
14
LYS
14
D
ILE
15
n
15
ILE
15
D
GLY
16
n
16
GLY
16
D
GLY
17
n
17
GLY
17
D
GLN
18
n
18
GLN
18
D
LEU
19
n
19
LEU
19
D
LYS
20
n
20
LYS
20
D
GLU
21
n
21
GLU
21
D
ALA
22
n
22
ALA
22
D
LEU
23
n
23
LEU
23
D
LEU
24
n
24
LEU
24
D
ASP
25
n
25
ASP
25
D
THR
26
n
26
THR
26
D
GLY
27
n
27
GLY
27
D
ALA
28
n
28
ALA
28
D
ASP
29
n
29
ASP
29
D
ASP
30
n
30
ASP
30
D
THR
31
n
31
THR
31
D
VAL
32
n
32
VAL
32
D
ILE
33
n
33
ILE
33
D
GLU
34
n
34
GLU
34
D
GLU
35
n
35
GLU
35
D
MET
36
n
36
MET
36
D
SER
37
n
37
SER
37
D
LEU
38
n
38
LEU
38
D
PRO
39
n
39
PRO
39
D
GLY
40
n
40
GLY
40
D
ARG
41
n
41
ARG
41
D
TRP
42
n
42
TRP
42
D
LYS
43
n
43
LYS
43
D
PRO
44
n
44
PRO
44
D
LYS
45
n
45
LYS
45
D
MET
46
n
46
MET
46
D
ILE
47
n
47
ILE
47
D
GLY
48
n
48
GLY
48
D
GLY
49
n
49
GLY
49
D
ILE
50
n
50
ILE
50
D
GLY
51
n
51
GLY
51
D
GLY
52
n
52
GLY
52
D
PHE
53
n
53
PHE
53
D
ILE
54
n
54
ILE
54
D
LYS
55
n
55
LYS
55
D
VAL
56
n
56
VAL
56
D
ARG
57
n
57
ARG
57
D
GLN
58
n
58
GLN
58
D
TYR
59
n
59
TYR
59
D
ASP
60
n
60
ASP
60
D
GLN
61
n
61
GLN
61
D
ILE
62
n
62
ILE
62
D
ILE
63
n
63
ILE
63
D
ILE
64
n
64
ILE
64
D
GLU
65
n
65
GLU
65
D
ILE
66
n
66
ILE
66
D
CYS
67
n
67
CYS
67
D
GLY
68
n
68
GLY
68
D
HIS
69
n
69
HIS
69
D
LYS
70
n
70
LYS
70
D
ALA
71
n
71
ALA
71
D
ILE
72
n
72
ILE
72
D
GLY
73
n
73
GLY
73
D
THR
74
n
74
THR
74
D
VAL
75
n
75
VAL
75
D
LEU
76
n
76
LEU
76
D
VAL
77
n
77
VAL
77
D
GLY
78
n
78
GLY
78
D
PRO
79
n
79
PRO
79
D
THR
80
n
80
THR
80
D
PRO
81
n
81
PRO
81
D
VAL
82
n
82
VAL
82
D
ASN
83
n
83
ASN
83
D
ILE
84
n
84
ILE
84
D
ILE
85
n
85
ILE
85
D
GLY
86
n
86
GLY
86
D
ARG
87
n
87
ARG
87
D
ASN
88
n
88
ASN
88
D
LEU
89
n
89
LEU
89
D
LEU
90
n
90
LEU
90
D
THR
91
n
91
THR
91
D
GLN
92
n
92
GLN
92
D
ILE
93
n
93
ILE
93
D
GLY
94
n
94
GLY
94
D
CYS
95
n
95
CYS
95
D
THR
96
n
96
THR
96
D
LEU
97
n
97
LEU
97
D
ASN
98
n
98
ASN
98
D
PHE
99
n
99
PHE
99
D
PRO
1
n
1
PRO
1
E
GLN
2
n
2
GLN
2
E
ILE
3
n
3
ILE
3
E
THR
4
n
4
THR
4
E
LEU
5
n
5
LEU
5
E
TRP
6
n
6
TRP
6
E
LYS
7
n
7
LYS
7
E
ARG
8
n
8
ARG
8
E
PRO
9
n
9
PRO
9
E
LEU
10
n
10
LEU
10
E
VAL
11
n
11
VAL
11
E
THR
12
n
12
THR
12
E
ILE
13
n
13
ILE
13
E
LYS
14
n
14
LYS
14
E
ILE
15
n
15
ILE
15
E
GLY
16
n
16
GLY
16
E
GLY
17
n
17
GLY
17
E
GLN
18
n
18
GLN
18
E
LEU
19
n
19
LEU
19
E
LYS
20
n
20
LYS
20
E
GLU
21
n
21
GLU
21
E
ALA
22
n
22
ALA
22
E
LEU
23
n
23
LEU
23
E
LEU
24
n
24
LEU
24
E
ASP
25
n
25
ASP
25
E
THR
26
n
26
THR
26
E
GLY
27
n
27
GLY
27
E
ALA
28
n
28
ALA
28
E
ASP
29
n
29
ASP
29
E
ASP
30
n
30
ASP
30
E
THR
31
n
31
THR
31
E
VAL
32
n
32
VAL
32
E
ILE
33
n
33
ILE
33
E
GLU
34
n
34
GLU
34
E
GLU
35
n
35
GLU
35
E
MET
36
n
36
MET
36
E
SER
37
n
37
SER
37
E
LEU
38
n
38
LEU
38
E
PRO
39
n
39
PRO
39
E
GLY
40
n
40
GLY
40
E
ARG
41
n
41
ARG
41
E
TRP
42
n
42
TRP
42
E
LYS
43
n
43
LYS
43
E
PRO
44
n
44
PRO
44
E
LYS
45
n
45
LYS
45
E
MET
46
n
46
MET
46
E
ILE
47
n
47
ILE
47
E
GLY
48
n
48
GLY
48
E
GLY
49
n
49
GLY
49
E
ILE
50
n
50
ILE
50
E
GLY
51
n
51
GLY
51
E
GLY
52
n
52
GLY
52
E
PHE
53
n
53
PHE
53
E
ILE
54
n
54
ILE
54
E
LYS
55
n
55
LYS
55
E
VAL
56
n
56
VAL
56
E
ARG
57
n
57
ARG
57
E
GLN
58
n
58
GLN
58
E
TYR
59
n
59
TYR
59
E
ASP
60
n
60
ASP
60
E
GLN
61
n
61
GLN
61
E
ILE
62
n
62
ILE
62
E
ILE
63
n
63
ILE
63
E
ILE
64
n
64
ILE
64
E
GLU
65
n
65
GLU
65
E
ILE
66
n
66
ILE
66
E
CYS
67
n
67
CYS
67
E
GLY
68
n
68
GLY
68
E
HIS
69
n
69
HIS
69
E
LYS
70
n
70
LYS
70
E
ALA
71
n
71
ALA
71
E
ILE
72
n
72
ILE
72
E
GLY
73
n
73
GLY
73
E
THR
74
n
74
THR
74
E
VAL
75
n
75
VAL
75
E
LEU
76
n
76
LEU
76
E
VAL
77
n
77
VAL
77
E
GLY
78
n
78
GLY
78
E
PRO
79
n
79
PRO
79
E
THR
80
n
80
THR
80
E
PRO
81
n
81
PRO
81
E
VAL
82
n
82
VAL
82
E
ASN
83
n
83
ASN
83
E
ILE
84
n
84
ILE
84
E
ILE
85
n
85
ILE
85
E
GLY
86
n
86
GLY
86
E
ARG
87
n
87
ARG
87
E
ASN
88
n
88
ASN
88
E
LEU
89
n
89
LEU
89
E
LEU
90
n
90
LEU
90
E
THR
91
n
91
THR
91
E
GLN
92
n
92
GLN
92
E
ILE
93
n
93
ILE
93
E
GLY
94
n
94
GLY
94
E
CYS
95
n
95
CYS
95
E
THR
96
n
96
THR
96
E
LEU
97
n
97
LEU
97
E
ASN
98
n
98
ASN
98
E
PHE
99
n
99
PHE
99
E
author_and_software_defined_assembly
PISA
2
dimeric
author_and_software_defined_assembly
PISA
2
dimeric
5390
-30
9170
5420
-33
9150
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
A
O
GLN
18
A
O
GLN
18
A
N
ILE
15
A
N
ILE
15
A
O
LYS
14
A
O
LYS
14
A
N
GLU
65
A
N
GLU
65
A
O
ILE
62
A
O
ILE
62
A
N
GLY
73
A
N
GLY
73
A
O
LYS
45
A
O
LYS
45
A
N
VAL
56
A
N
VAL
56
A
O
ARG
57
A
O
ARG
57
A
N
VAL
77
A
N
VAL
77
B
O
VAL
11
B
O
VAL
11
B
N
ALA
22
B
N
ALA
22
B
O
THR
31
B
O
THR
31
B
N
LEU
76
B
N
LEU
76
B
O
VAL
75
B
O
VAL
75
B
N
TYR
59
B
N
TYR
59
B
O
GLY
52
B
O
GLY
52
B
N
GLY
49
B
N
GLY
49
B
O
ILE
62
B
O
ILE
62
B
N
GLY
73
B
N
GLY
73
D
O
GLN
18
C
O
GLN
18
D
N
ILE
15
C
N
ILE
15
D
O
LYS
14
C
O
LYS
14
D
N
GLU
65
C
N
GLU
65
D
O
ILE
62
C
O
ILE
62
D
N
GLY
73
C
N
GLY
73
D
O
LYS
43
C
O
LYS
43
D
N
GLN
58
C
N
GLN
58
D
O
ARG
57
C
O
ARG
57
D
N
VAL
77
C
N
VAL
77
E
O
VAL
11
D
O
VAL
11
E
N
ALA
22
D
N
ALA
22
E
O
THR
31
D
O
THR
31
E
N
LEU
76
D
N
LEU
76
E
O
VAL
75
D
O
VAL
75
E
N
TYR
59
D
N
TYR
59
E
O
GLY
52
D
O
GLY
52
E
N
GLY
49
D
N
GLY
49
E
O
ILE
62
D
O
ILE
62
E
N
GLY
73
D
N
GLY
73
1
A
A
HH21
HH
ARG
TYR
57
59
1.17
1
D
E
O
H2
HOH
HOH
1647
1601
1.48
1
B
PHE
99
0.080
SIDE CHAIN
1
-3.35
0.50
120.30
116.95
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
8
8
8
N
1
10.65
1.50
119.30
129.95
A
A
A
C
N
CA
GLY
PRO
PRO
78
79
79
Y
1
8.86
1.10
114.20
123.06
A
A
A
CA
CB
SG
CYS
CYS
CYS
95
95
95
N
1
10.28
1.50
119.30
129.58
B
B
B
C
N
CA
GLY
PRO
PRO
78
79
79
Y
1
10.19
1.50
119.30
129.49
D
D
D
C
N
CA
GLY
PRO
PRO
78
79
79
Y
1
6.92
0.90
118.30
125.22
E
E
E
CB
CG
OD1
ASP
ASP
ASP
25
25
25
N
1
10.91
1.10
114.20
125.11
E
E
E
CA
CB
SG
CYS
CYS
CYS
67
67
67
N
1
-12.88
1.90
111.40
98.52
E
E
E
CB
CA
C
VAL
VAL
VAL
82
82
82
N
1
D
D
CB
SG
CYS
CYS
95
95
-0.102
0.016
1.812
1.710
N
1
A
PRO
9
-57.81
66.93
1
A
PRO
44
-45.38
150.67
1
B
PRO
9
-67.74
65.35
1
B
GLU
65
-118.16
77.21
1
B
ILE
66
-58.70
103.60
1
B
CYS
67
36.35
74.64
1
B
PRO
79
-61.87
56.03
1
D
PRO
9
-65.13
81.13
1
D
GLU
34
-56.08
174.80
1
D
GLN
61
37.42
42.80
1
D
PRO
79
-78.12
47.81
1
D
ILE
93
-95.41
30.16
1
E
PRO
9
-67.87
54.18
1
E
GLU
35
-15.70
112.05
1
E
CYS
67
41.76
73.96
PARHCSDX.PRO
TOPHCSDX.PRO
PARAM19.SOL
TOPH19.SOL
NLE.PRO
0.26
0.0
0.0
0.0
0.3190000
0.1740000
0.1740000
2.0
8.0
1211
7.9
65.7
RANDOM
100000.
0.0
1
2.
MOLECULAR REPLACEMENT
PDB ENTRY 7HVP
2.0
8.0
159
3309
118
0
3032
0.02
2.47
27.08
2.22
0.4209000
0.3148000
2.09
31
407
438
7.1
2.0
8.
1A8K
10077
2.
0.1009000
0.1900000
1
2.
2.7
80.8
0.0920000
2.06
2.25
1
2.4
46.6
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
data reduction
R-AXIS
data scaling
R-AXIS
phasing
X-PLOR
3.1
CRYSTALLOGRAPHIC ANALYSIS OF HUMAN IMMUNODEFICIENCY VIRUS 1 PROTEASE WITH AN ANALOG OF THE CONSERVED CA-P2 SUBSTRATE: INTERACTIONS WITH FREQUENTLY OCCURRING GLUTAMIC ACID RESIDUE AT P2' POSITION OF SUBSTRATES
1
N
N
1
N
N
1
N
N
1
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
A
ARG
87
A
ARG
87
HELX_P
A
LEU
90
A
LEU
90
1
1
4
B
ILE
66
B
ILE
66
HELX_P
B
GLY
68
B
GLY
68
5
2
3
B
ARG
87
B
ARG
87
HELX_P
B
ILE
93
B
ILE
93
1
3
7
D
ARG
87
C
ARG
87
HELX_P
D
LEU
90
C
LEU
90
1
4
4
E
ARG
87
D
ARG
87
HELX_P
E
LEU
90
D
LEU
90
1
5
4
HYDROLASE/HYDROLASE INHIBITOR
HUMAN IMMUNODEFICIENCY VIRUS PROTEASE, PROTON-MEDIATED INTERACTION, VIRAL MATURATION, HYDROLASE-HYDROLASE INHIBITOR COMPLEX
POL_HV1BR
UNP
1
1
P03367
FFREDLAFLQGKAREFSSEQTRANSPTISSEQTRANSPTRRELQVWGRDNNSLSEAGADRQGTVSFNFPQITLWQRPLVT
IKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPTPVNIIGRNLLTQ
IGCTLNFPISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRK
LVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGW
KGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYE
LHPDKWTVQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAELELAENREILKEP
VHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARTRGAHTNDVKQLTEAVQKITTESIVIWGKTPKFKLPI
QKETWETWWTEYWQATWIPEWEFVNTPPLVKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNRGRQKVVTLTDTT
NQKTELQAIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVS
AGIRKVLFLDGIDKAQDEHEKYHSNWRAMASDFNLPPVVAKEIVASCDKCQLKGEAMHGQVDCSPGIWQLDCTHLEGKVI
LVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSNFTSTTVKAACWWAGIKQEFGIPYNPQSQGVVES
MNKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIVDIIATDIQTKELQKQITKIQNFRVYYRDSRDP
LWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKAKIIRDYGKQMAGDDCVASRQDED
69
167
1A8K
1
99
P03367
A
1
1
99
69
167
1A8K
1
99
P03367
B
1
1
99
69
167
1A8K
1
99
P03367
D
1
1
99
69
167
1A8K
1
99
P03367
E
1
1
99
1
GLN
engineered mutation
LYS
7
1A8K
A
P03367
UNP
75
7
1
LEU
engineered mutation
ILE
33
1A8K
A
P03367
UNP
101
33
1
LEU
engineered mutation
ILE
63
1A8K
A
P03367
UNP
131
63
2
GLN
engineered mutation
LYS
7
1A8K
B
P03367
UNP
75
7
2
LEU
engineered mutation
ILE
33
1A8K
B
P03367
UNP
101
33
2
LEU
engineered mutation
ILE
63
1A8K
B
P03367
UNP
131
63
3
GLN
engineered mutation
LYS
7
1A8K
D
P03367
UNP
75
7
3
LEU
engineered mutation
ILE
33
1A8K
D
P03367
UNP
101
33
3
LEU
engineered mutation
ILE
63
1A8K
D
P03367
UNP
131
63
4
GLN
engineered mutation
LYS
7
1A8K
E
P03367
UNP
75
7
4
LEU
engineered mutation
ILE
33
1A8K
E
P03367
UNP
101
33
4
LEU
engineered mutation
ILE
63
1A8K
E
P03367
UNP
131
63
4
2
2
2
4
2
4
3
2
4
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
A
GLN
18
A
GLN
18
A
LEU
23
A
LEU
23
A
LEU
10
A
LEU
10
A
ILE
15
A
ILE
15
A
ILE
62
A
ILE
62
A
ILE
66
A
ILE
66
A
HIS
69
A
HIS
69
A
GLY
73
A
GLY
73
A
LYS
45
A
LYS
45
A
GLY
48
A
GLY
48
A
PHE
53
A
PHE
53
A
VAL
56
A
VAL
56
A
ARG
57
A
ARG
57
A
TYR
59
A
TYR
59
A
VAL
75
A
VAL
75
A
VAL
77
A
VAL
77
B
LEU
10
B
LEU
10
B
ILE
15
B
ILE
15
B
GLN
18
B
GLN
18
B
LEU
23
B
LEU
23
B
THR
31
B
THR
31
B
ILE
33
B
ILE
33
B
VAL
75
B
VAL
75
B
VAL
77
B
VAL
77
B
GLY
52
B
GLY
52
B
TYR
59
B
TYR
59
B
LYS
43
B
LYS
43
B
GLY
49
B
GLY
49
B
ILE
62
B
ILE
62
B
ILE
66
B
ILE
66
B
HIS
69
B
HIS
69
B
GLY
73
B
GLY
73
D
GLN
18
C
GLN
18
D
LEU
23
C
LEU
23
D
LEU
10
C
LEU
10
D
ILE
15
C
ILE
15
D
ILE
62
C
ILE
62
D
ILE
66
C
ILE
66
D
HIS
69
C
HIS
69
D
GLY
73
C
GLY
73
D
LYS
43
C
LYS
43
D
GLY
49
C
GLY
49
D
GLY
52
C
GLY
52
D
TYR
59
C
TYR
59
D
VAL
75
C
VAL
75
D
GLY
78
C
GLY
78
E
LEU
10
D
LEU
10
E
ILE
15
D
ILE
15
E
GLN
18
D
GLN
18
E
LEU
23
D
LEU
23
E
THR
31
D
THR
31
E
GLU
34
D
GLU
34
E
VAL
75
D
VAL
75
E
GLY
78
D
GLY
78
E
GLY
52
D
GLY
52
E
TYR
59
D
TYR
59
E
LYS
43
D
LYS
43
E
GLY
49
D
GLY
49
E
ILE
62
D
ILE
62
E
ILE
66
D
ILE
66
E
HIS
69
D
HIS
69
E
GLY
73
D
GLY
73
BINDING SITE FOR RESIDUE 0Q4 A 100
A
0Q4
100
Software
23
BINDING SITE FOR RESIDUE 0Q4 E 100
E
0Q4
100
Software
28
A
ASP
25
A
ASP
25
23
1_555
A
GLY
27
A
GLY
27
23
1_555
A
ALA
28
A
ALA
28
23
1_555
A
ASP
29
A
ASP
29
23
1_555
A
ASP
30
A
ASP
30
23
1_555
A
ILE
47
A
ILE
47
23
1_555
A
GLY
48
A
GLY
48
23
1_555
A
GLY
49
A
GLY
49
23
1_555
A
ILE
50
A
ILE
50
23
1_555
A
LEU
76
A
LEU
76
23
1_555
A
PRO
81
A
PRO
81
23
1_555
A
VAL
82
A
VAL
82
23
1_555
A
ILE
84
A
ILE
84
23
1_555
A
HOH
511
G
HOH
23
1_555
B
LEU
23
B
LEU
23
23
1_555
B
ASP
25
B
ASP
25
23
1_555
B
GLY
27
B
GLY
27
23
1_555
B
ALA
28
B
ALA
28
23
1_555
B
ASP
29
B
ASP
29
23
1_555
B
GLY
48
B
GLY
48
23
1_555
B
GLY
49
B
GLY
49
23
1_555
B
VAL
82
B
VAL
82
23
1_555
B
ILE
84
B
ILE
84
23
1_555
B
TRP
6
B
TRP
6
28
1_455
D
ARG
8
C
ARG
8
28
1_555
D
ASP
25
C
ASP
25
28
1_555
D
GLY
27
C
GLY
27
28
1_555
D
ALA
28
C
ALA
28
28
1_555
D
ASP
29
C
ASP
29
28
1_555
D
ASP
30
C
ASP
30
28
1_555
D
GLY
48
C
GLY
48
28
1_555
D
ILE
50
C
ILE
50
28
1_555
D
PRO
81
C
PRO
81
28
1_555
D
VAL
82
C
VAL
82
28
1_555
D
ILE
84
C
ILE
84
28
1_555
D
HOH
1767
I
HOH
28
1_555
E
LEU
23
D
LEU
23
28
1_555
E
ASP
25
D
ASP
25
28
1_555
E
GLY
27
D
GLY
27
28
1_555
E
ALA
28
D
ALA
28
28
1_555
E
ASP
29
D
ASP
29
28
1_555
E
ASP
30
D
ASP
30
28
1_555
E
VAL
32
D
VAL
32
28
1_555
E
LYS
45
D
LYS
45
28
1_555
E
MET
46
D
MET
46
28
1_555
E
ILE
47
D
ILE
47
28
1_555
E
GLY
48
D
GLY
48
28
1_555
E
GLY
49
D
GLY
49
28
1_555
E
ILE
50
D
ILE
50
28
1_555
E
PHE
53
D
PHE
53
28
1_555
E
HOH
1511
J
HOH
28
1_555
4
P 1 1 21