0.017182
0.000000
0.000000
0.000000
0.011639
0.000000
0.000000
0.000000
0.021612
0.00000
0.00000
0.00000
Joshi, A.
Veron, J.B.
Unge, J.
Rosenquist, A.
Wallberg, H.
Samuelsson, B.
Hallberg, A.
Larhed, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
58.200
85.920
46.270
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
Cl -1
35.453
CHLORIDE 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
C36 H50 Br N5 O6
728.716
methyl N-[(2S)-1-[2-[(4-bromophenyl)methyl]-2-[3-[(3Z,8S,11R)-11-oxidanyl-7,10-bis(oxidanylidene)-8-propan-2-yl-6,9-diazabicyclo[11.2.2]heptadeca-1(16),3,13(17),14-tetraen-11-yl]propyl]hydrazinyl]-3,3-dimethyl-1-oxidanylidene-butan-2-yl]carbamate
non-polymer
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
US
J.Med.Chem.
JMCMAR
0151
0022-2623
56
8999
10.1021/JM400811D
24160253
Design and Synthesis of P1-P3 Macrocyclic Tertiary Alcohol Comprising HIV-1 Protease Inhibitors
2013
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
MIRRORS
CCD
2012-04-19
MARRESEARCH
DCM
SINGLE WAVELENGTH
M
x-ray
1
1.0
1.0
I911-3
MAX II
1.0
SYNCHROTRON
MAX II BEAMLINE I911-3
INHIBITOR COMPLEX
10775.659
PROTEASE
3.4.23.16
2
man
polymer
35.453
CHLORIDE ION
3
syn
non-polymer
728.716
methyl N-[(2S)-1-[2-[(4-bromophenyl)methyl]-2-[3-[(3Z,8S,11R)-11-oxidanyl-7,10-bis(oxidanylidene)-8-propan-2-yl-6,9-diazabicyclo[11.2.2]heptadeca-1(16),3,13(17),14-tetraen-11-yl]propyl]hydrazinyl]-3,3-dimethyl-1-oxidanylidene-butan-2-yl]carbamate
1
syn
non-polymer
18.015
water
281
nat
water
PR, RETROPEPSIN
no
no
PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKMIGGIGGFIKVRQYDQIPIEICGHKAIGTVLVGPT
PTNVIGRNLLTQIGCTLNF
PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKMIGGIGGFIKVRQYDQIPIEICGHKAIGTVLVGPT
PTNVIGRNLLTQIGCTLNF
A,B
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
D10
sample
11676
HUMAN IMMUNODEFICIENCY VIRUS 1
511693
ESCHERICHIA COLI
BL21
ROSETTA
PET11D
PLASMID
1
2.68
54.17
NONE
diffrn_source
repository
Initial release
Database references
Data collection
1
0
2013-11-06
1
1
2013-12-11
1
2
2018-01-17
_diffrn_source.pdbx_synchrotron_site
DESIGN AND SYNTHESIS OF P1-P3 MACROCYCLIC TERTIARY ALCOHOL COMPRISING HIV-1 PROTEASE INHIBITORS
DESIGN AND SYNTHESIS OF P1-P3 MACROCYCLIC TERTIARY ALCOHOL COMPRISING HIV-1 PROTEASE INHIBITORS
SHEET
DETERMINATION METHOD: DSSP
THE SHEETS PRESENTED AS "AB" IN EACH CHAIN ON SHEET RECORDS
BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY
A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS
ARE IDENTICAL.
THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS
BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY
A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS
ARE IDENTICAL.
PDBE
Y
PDBE
2013-03-01
REL
1
A
O
HOH
2114
6.01
1
B
O
HOH
2001
6.15
1
B
O
HOH
2021
6.18
1
B
O
HOH
2122
9.30
1
B
O
HOH
2123
9.33
1
B
O
HOH
2124
7.21
CL
CHLORIDE ION
M8Y
methyl N-[(2S)-1-[2-[(4-bromophenyl)methyl]-2-[3-[(3Z,8S,11R)-11-oxidanyl-7,10-bis(oxidanylidene)-8-propan-2-yl-6,9-diazabicyclo[11.2.2]heptadeca-1(16),3,13(17),14-tetraen-11-yl]propyl]hydrazinyl]-3,3-dimethyl-1-oxidanylidene-butan-2-yl]carbamate
HOH
water
CL
1100
2
CL
CL
1100
A
CL
1200
2
CL
CL
1200
B
CL
1201
2
CL
CL
1201
B
M8Y
1202
3
M8Y
M8Y
1202
B
HOH
2001
4
HOH
HOH
2001
A
HOH
2002
4
HOH
HOH
2002
A
HOH
2003
4
HOH
HOH
2003
A
HOH
2004
4
HOH
HOH
2004
A
HOH
2005
4
HOH
HOH
2005
A
HOH
2006
4
HOH
HOH
2006
A
HOH
2007
4
HOH
HOH
2007
A
HOH
2008
4
HOH
HOH
2008
A
HOH
2009
4
HOH
HOH
2009
A
HOH
2010
4
HOH
HOH
2010
A
HOH
2011
4
HOH
HOH
2011
A
HOH
2012
4
HOH
HOH
2012
A
HOH
2013
4
HOH
HOH
2013
A
HOH
2014
4
HOH
HOH
2014
A
HOH
2015
4
HOH
HOH
2015
A
HOH
2016
4
HOH
HOH
2016
A
HOH
2017
4
HOH
HOH
2017
A
HOH
2018
4
HOH
HOH
2018
A
HOH
2019
4
HOH
HOH
2019
A
HOH
2020
4
HOH
HOH
2020
A
HOH
2021
4
HOH
HOH
2021
A
HOH
2022
4
HOH
HOH
2022
A
HOH
2023
4
HOH
HOH
2023
A
HOH
2024
4
HOH
HOH
2024
A
HOH
2025
4
HOH
HOH
2025
A
HOH
2026
4
HOH
HOH
2026
A
HOH
2027
4
HOH
HOH
2027
A
HOH
2028
4
HOH
HOH
2028
A
HOH
2029
4
HOH
HOH
2029
A
HOH
2030
4
HOH
HOH
2030
A
HOH
2031
4
HOH
HOH
2031
A
HOH
2032
4
HOH
HOH
2032
A
HOH
2033
4
HOH
HOH
2033
A
HOH
2034
4
HOH
HOH
2034
A
HOH
2035
4
HOH
HOH
2035
A
HOH
2036
4
HOH
HOH
2036
A
HOH
2037
4
HOH
HOH
2037
A
HOH
2038
4
HOH
HOH
2038
A
HOH
2039
4
HOH
HOH
2039
A
HOH
2040
4
HOH
HOH
2040
A
HOH
2041
4
HOH
HOH
2041
A
HOH
2042
4
HOH
HOH
2042
A
HOH
2043
4
HOH
HOH
2043
A
HOH
2044
4
HOH
HOH
2044
A
HOH
2045
4
HOH
HOH
2045
A
HOH
2046
4
HOH
HOH
2046
A
HOH
2047
4
HOH
HOH
2047
A
HOH
2048
4
HOH
HOH
2048
A
HOH
2049
4
HOH
HOH
2049
A
HOH
2050
4
HOH
HOH
2050
A
HOH
2051
4
HOH
HOH
2051
A
HOH
2052
4
HOH
HOH
2052
A
HOH
2053
4
HOH
HOH
2053
A
HOH
2054
4
HOH
HOH
2054
A
HOH
2055
4
HOH
HOH
2055
A
HOH
2056
4
HOH
HOH
2056
A
HOH
2057
4
HOH
HOH
2057
A
HOH
2058
4
HOH
HOH
2058
A
HOH
2059
4
HOH
HOH
2059
A
HOH
2060
4
HOH
HOH
2060
A
HOH
2061
4
HOH
HOH
2061
A
HOH
2062
4
HOH
HOH
2062
A
HOH
2063
4
HOH
HOH
2063
A
HOH
2064
4
HOH
HOH
2064
A
HOH
2065
4
HOH
HOH
2065
A
HOH
2066
4
HOH
HOH
2066
A
HOH
2067
4
HOH
HOH
2067
A
HOH
2068
4
HOH
HOH
2068
A
HOH
2069
4
HOH
HOH
2069
A
HOH
2070
4
HOH
HOH
2070
A
HOH
2071
4
HOH
HOH
2071
A
HOH
2072
4
HOH
HOH
2072
A
HOH
2073
4
HOH
HOH
2073
A
HOH
2074
4
HOH
HOH
2074
A
HOH
2075
4
HOH
HOH
2075
A
HOH
2076
4
HOH
HOH
2076
A
HOH
2077
4
HOH
HOH
2077
A
HOH
2078
4
HOH
HOH
2078
A
HOH
2079
4
HOH
HOH
2079
A
HOH
2080
4
HOH
HOH
2080
A
HOH
2081
4
HOH
HOH
2081
A
HOH
2082
4
HOH
HOH
2082
A
HOH
2083
4
HOH
HOH
2083
A
HOH
2084
4
HOH
HOH
2084
A
HOH
2085
4
HOH
HOH
2085
A
HOH
2086
4
HOH
HOH
2086
A
HOH
2087
4
HOH
HOH
2087
A
HOH
2088
4
HOH
HOH
2088
A
HOH
2089
4
HOH
HOH
2089
A
HOH
2090
4
HOH
HOH
2090
A
HOH
2091
4
HOH
HOH
2091
A
HOH
2092
4
HOH
HOH
2092
A
HOH
2093
4
HOH
HOH
2093
A
HOH
2094
4
HOH
HOH
2094
A
HOH
2095
4
HOH
HOH
2095
A
HOH
2096
4
HOH
HOH
2096
A
HOH
2097
4
HOH
HOH
2097
A
HOH
2098
4
HOH
HOH
2098
A
HOH
2099
4
HOH
HOH
2099
A
HOH
2100
4
HOH
HOH
2100
A
HOH
2101
4
HOH
HOH
2101
A
HOH
2102
4
HOH
HOH
2102
A
HOH
2103
4
HOH
HOH
2103
A
HOH
2104
4
HOH
HOH
2104
A
HOH
2105
4
HOH
HOH
2105
A
HOH
2106
4
HOH
HOH
2106
A
HOH
2107
4
HOH
HOH
2107
A
HOH
2108
4
HOH
HOH
2108
A
HOH
2109
4
HOH
HOH
2109
A
HOH
2110
4
HOH
HOH
2110
A
HOH
2111
4
HOH
HOH
2111
A
HOH
2112
4
HOH
HOH
2112
A
HOH
2113
4
HOH
HOH
2113
A
HOH
2114
4
HOH
HOH
2114
A
HOH
2115
4
HOH
HOH
2115
A
HOH
2116
4
HOH
HOH
2116
A
HOH
2117
4
HOH
HOH
2117
A
HOH
2118
4
HOH
HOH
2118
A
HOH
2119
4
HOH
HOH
2119
A
HOH
2120
4
HOH
HOH
2120
A
HOH
2121
4
HOH
HOH
2121
A
HOH
2122
4
HOH
HOH
2122
A
HOH
2123
4
HOH
HOH
2123
A
HOH
2124
4
HOH
HOH
2124
A
HOH
2125
4
HOH
HOH
2125
A
HOH
2126
4
HOH
HOH
2126
A
HOH
2127
4
HOH
HOH
2127
A
HOH
2128
4
HOH
HOH
2128
A
HOH
2129
4
HOH
HOH
2129
A
HOH
2130
4
HOH
HOH
2130
A
HOH
2131
4
HOH
HOH
2131
A
HOH
2132
4
HOH
HOH
2132
A
HOH
2133
4
HOH
HOH
2133
A
HOH
2134
4
HOH
HOH
2134
A
HOH
2135
4
HOH
HOH
2135
A
HOH
2136
4
HOH
HOH
2136
A
HOH
2137
4
HOH
HOH
2137
A
HOH
2138
4
HOH
HOH
2138
A
HOH
2139
4
HOH
HOH
2139
A
HOH
2140
4
HOH
HOH
2140
A
HOH
2141
4
HOH
HOH
2141
A
HOH
2142
4
HOH
HOH
2142
A
HOH
2143
4
HOH
HOH
2143
A
HOH
2144
4
HOH
HOH
2144
A
HOH
2145
4
HOH
HOH
2145
A
HOH
2146
4
HOH
HOH
2146
A
HOH
2147
4
HOH
HOH
2147
A
HOH
2148
4
HOH
HOH
2148
A
HOH
2149
4
HOH
HOH
2149
A
HOH
2150
4
HOH
HOH
2150
A
HOH
2151
4
HOH
HOH
2151
A
HOH
2152
4
HOH
HOH
2152
A
HOH
2153
4
HOH
HOH
2153
A
HOH
2154
4
HOH
HOH
2154
A
HOH
2155
4
HOH
HOH
2155
A
HOH
2156
4
HOH
HOH
2156
A
HOH
2157
4
HOH
HOH
2157
A
HOH
2001
4
HOH
HOH
2001
B
HOH
2002
4
HOH
HOH
2002
B
HOH
2003
4
HOH
HOH
2003
B
HOH
2004
4
HOH
HOH
2004
B
HOH
2005
4
HOH
HOH
2005
B
HOH
2006
4
HOH
HOH
2006
B
HOH
2007
4
HOH
HOH
2007
B
HOH
2008
4
HOH
HOH
2008
B
HOH
2009
4
HOH
HOH
2009
B
HOH
2010
4
HOH
HOH
2010
B
HOH
2011
4
HOH
HOH
2011
B
HOH
2012
4
HOH
HOH
2012
B
HOH
2013
4
HOH
HOH
2013
B
HOH
2014
4
HOH
HOH
2014
B
HOH
2015
4
HOH
HOH
2015
B
HOH
2016
4
HOH
HOH
2016
B
HOH
2017
4
HOH
HOH
2017
B
HOH
2018
4
HOH
HOH
2018
B
HOH
2019
4
HOH
HOH
2019
B
HOH
2020
4
HOH
HOH
2020
B
HOH
2021
4
HOH
HOH
2021
B
HOH
2022
4
HOH
HOH
2022
B
HOH
2023
4
HOH
HOH
2023
B
HOH
2024
4
HOH
HOH
2024
B
HOH
2025
4
HOH
HOH
2025
B
HOH
2026
4
HOH
HOH
2026
B
HOH
2027
4
HOH
HOH
2027
B
HOH
2028
4
HOH
HOH
2028
B
HOH
2029
4
HOH
HOH
2029
B
HOH
2030
4
HOH
HOH
2030
B
HOH
2031
4
HOH
HOH
2031
B
HOH
2032
4
HOH
HOH
2032
B
HOH
2033
4
HOH
HOH
2033
B
HOH
2034
4
HOH
HOH
2034
B
HOH
2035
4
HOH
HOH
2035
B
HOH
2036
4
HOH
HOH
2036
B
HOH
2037
4
HOH
HOH
2037
B
HOH
2038
4
HOH
HOH
2038
B
HOH
2039
4
HOH
HOH
2039
B
HOH
2040
4
HOH
HOH
2040
B
HOH
2041
4
HOH
HOH
2041
B
HOH
2042
4
HOH
HOH
2042
B
HOH
2043
4
HOH
HOH
2043
B
HOH
2044
4
HOH
HOH
2044
B
HOH
2045
4
HOH
HOH
2045
B
HOH
2046
4
HOH
HOH
2046
B
HOH
2047
4
HOH
HOH
2047
B
HOH
2048
4
HOH
HOH
2048
B
HOH
2049
4
HOH
HOH
2049
B
HOH
2050
4
HOH
HOH
2050
B
HOH
2051
4
HOH
HOH
2051
B
HOH
2052
4
HOH
HOH
2052
B
HOH
2053
4
HOH
HOH
2053
B
HOH
2054
4
HOH
HOH
2054
B
HOH
2055
4
HOH
HOH
2055
B
HOH
2056
4
HOH
HOH
2056
B
HOH
2057
4
HOH
HOH
2057
B
HOH
2058
4
HOH
HOH
2058
B
HOH
2059
4
HOH
HOH
2059
B
HOH
2060
4
HOH
HOH
2060
B
HOH
2061
4
HOH
HOH
2061
B
HOH
2062
4
HOH
HOH
2062
B
HOH
2063
4
HOH
HOH
2063
B
HOH
2064
4
HOH
HOH
2064
B
HOH
2065
4
HOH
HOH
2065
B
HOH
2066
4
HOH
HOH
2066
B
HOH
2067
4
HOH
HOH
2067
B
HOH
2068
4
HOH
HOH
2068
B
HOH
2069
4
HOH
HOH
2069
B
HOH
2070
4
HOH
HOH
2070
B
HOH
2071
4
HOH
HOH
2071
B
HOH
2072
4
HOH
HOH
2072
B
HOH
2073
4
HOH
HOH
2073
B
HOH
2074
4
HOH
HOH
2074
B
HOH
2075
4
HOH
HOH
2075
B
HOH
2076
4
HOH
HOH
2076
B
HOH
2077
4
HOH
HOH
2077
B
HOH
2078
4
HOH
HOH
2078
B
HOH
2079
4
HOH
HOH
2079
B
HOH
2080
4
HOH
HOH
2080
B
HOH
2081
4
HOH
HOH
2081
B
HOH
2082
4
HOH
HOH
2082
B
HOH
2083
4
HOH
HOH
2083
B
HOH
2084
4
HOH
HOH
2084
B
HOH
2085
4
HOH
HOH
2085
B
HOH
2086
4
HOH
HOH
2086
B
HOH
2087
4
HOH
HOH
2087
B
HOH
2088
4
HOH
HOH
2088
B
HOH
2089
4
HOH
HOH
2089
B
HOH
2090
4
HOH
HOH
2090
B
HOH
2091
4
HOH
HOH
2091
B
HOH
2092
4
HOH
HOH
2092
B
HOH
2093
4
HOH
HOH
2093
B
HOH
2094
4
HOH
HOH
2094
B
HOH
2095
4
HOH
HOH
2095
B
HOH
2096
4
HOH
HOH
2096
B
HOH
2097
4
HOH
HOH
2097
B
HOH
2098
4
HOH
HOH
2098
B
HOH
2099
4
HOH
HOH
2099
B
HOH
2100
4
HOH
HOH
2100
B
HOH
2101
4
HOH
HOH
2101
B
HOH
2102
4
HOH
HOH
2102
B
HOH
2103
4
HOH
HOH
2103
B
HOH
2104
4
HOH
HOH
2104
B
HOH
2105
4
HOH
HOH
2105
B
HOH
2106
4
HOH
HOH
2106
B
HOH
2107
4
HOH
HOH
2107
B
HOH
2108
4
HOH
HOH
2108
B
HOH
2109
4
HOH
HOH
2109
B
HOH
2110
4
HOH
HOH
2110
B
HOH
2111
4
HOH
HOH
2111
B
HOH
2112
4
HOH
HOH
2112
B
HOH
2113
4
HOH
HOH
2113
B
HOH
2114
4
HOH
HOH
2114
B
HOH
2115
4
HOH
HOH
2115
B
HOH
2116
4
HOH
HOH
2116
B
HOH
2117
4
HOH
HOH
2117
B
HOH
2118
4
HOH
HOH
2118
B
HOH
2119
4
HOH
HOH
2119
B
HOH
2120
4
HOH
HOH
2120
B
HOH
2121
4
HOH
HOH
2121
B
HOH
2122
4
HOH
HOH
2122
B
HOH
2123
4
HOH
HOH
2123
B
HOH
2124
4
HOH
HOH
2124
B
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
GLN
7
n
7
GLN
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
LEU
33
n
33
LEU
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
PRO
63
n
63
PRO
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
THR
82
n
82
THR
82
A
ASN
83
n
83
ASN
83
A
VAL
84
n
84
VAL
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
101
n
1
PRO
101
B
GLN
102
n
2
GLN
102
B
ILE
103
n
3
ILE
103
B
THR
104
n
4
THR
104
B
LEU
105
n
5
LEU
105
B
TRP
106
n
6
TRP
106
B
GLN
107
n
7
GLN
107
B
ARG
108
n
8
ARG
108
B
PRO
109
n
9
PRO
109
B
LEU
110
n
10
LEU
110
B
VAL
111
n
11
VAL
111
B
THR
112
n
12
THR
112
B
ILE
113
n
13
ILE
113
B
LYS
114
n
14
LYS
114
B
ILE
115
n
15
ILE
115
B
GLY
116
n
16
GLY
116
B
GLY
117
n
17
GLY
117
B
GLN
118
n
18
GLN
118
B
LEU
119
n
19
LEU
119
B
LYS
120
n
20
LYS
120
B
GLU
121
n
21
GLU
121
B
ALA
122
n
22
ALA
122
B
LEU
123
n
23
LEU
123
B
LEU
124
n
24
LEU
124
B
ASP
125
n
25
ASP
125
B
THR
126
n
26
THR
126
B
GLY
127
n
27
GLY
127
B
ALA
128
n
28
ALA
128
B
ASP
129
n
29
ASP
129
B
ASP
130
n
30
ASP
130
B
THR
131
n
31
THR
131
B
VAL
132
n
32
VAL
132
B
LEU
133
n
33
LEU
133
B
GLU
134
n
34
GLU
134
B
GLU
135
n
35
GLU
135
B
MET
136
n
36
MET
136
B
SER
137
n
37
SER
137
B
LEU
138
n
38
LEU
138
B
PRO
139
n
39
PRO
139
B
GLY
140
n
40
GLY
140
B
ARG
141
n
41
ARG
141
B
TRP
142
n
42
TRP
142
B
LYS
143
n
43
LYS
143
B
PRO
144
n
44
PRO
144
B
LYS
145
n
45
LYS
145
B
MET
146
n
46
MET
146
B
ILE
147
n
47
ILE
147
B
GLY
148
n
48
GLY
148
B
GLY
149
n
49
GLY
149
B
ILE
150
n
50
ILE
150
B
GLY
151
n
51
GLY
151
B
GLY
152
n
52
GLY
152
B
PHE
153
n
53
PHE
153
B
ILE
154
n
54
ILE
154
B
LYS
155
n
55
LYS
155
B
VAL
156
n
56
VAL
156
B
ARG
157
n
57
ARG
157
B
GLN
158
n
58
GLN
158
B
TYR
159
n
59
TYR
159
B
ASP
160
n
60
ASP
160
B
GLN
161
n
61
GLN
161
B
ILE
162
n
62
ILE
162
B
PRO
163
n
63
PRO
163
B
ILE
164
n
64
ILE
164
B
GLU
165
n
65
GLU
165
B
ILE
166
n
66
ILE
166
B
CYS
167
n
67
CYS
167
B
GLY
168
n
68
GLY
168
B
HIS
169
n
69
HIS
169
B
LYS
170
n
70
LYS
170
B
ALA
171
n
71
ALA
171
B
ILE
172
n
72
ILE
172
B
GLY
173
n
73
GLY
173
B
THR
174
n
74
THR
174
B
VAL
175
n
75
VAL
175
B
LEU
176
n
76
LEU
176
B
VAL
177
n
77
VAL
177
B
GLY
178
n
78
GLY
178
B
PRO
179
n
79
PRO
179
B
THR
180
n
80
THR
180
B
PRO
181
n
81
PRO
181
B
THR
182
n
82
THR
182
B
ASN
183
n
83
ASN
183
B
VAL
184
n
84
VAL
184
B
ILE
185
n
85
ILE
185
B
GLY
186
n
86
GLY
186
B
ARG
187
n
87
ARG
187
B
ASN
188
n
88
ASN
188
B
LEU
189
n
89
LEU
189
B
LEU
190
n
90
LEU
190
B
THR
191
n
91
THR
191
B
GLN
192
n
92
GLN
192
B
ILE
193
n
93
ILE
193
B
GLY
194
n
94
GLY
194
B
CYS
195
n
95
CYS
195
B
THR
196
n
96
THR
196
B
LEU
197
n
97
LEU
197
B
ASN
198
n
98
ASN
198
B
PHE
199
n
99
PHE
199
B
author_and_software_defined_assembly
PISA
2
dimeric
4330
-47.3
9320
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
N
ILE
3
A
N
ILE
3
B
O
LEU
197
B
O
LEU
97
B
N
ASN
198
B
N
ASN
98
A
O
THR
96
A
O
THR
96
A
N
LEU
97
A
N
LEU
97
B
O
ILE
103
B
O
ILE
3
A
N
ILE
15
A
N
ILE
15
A
O
GLN
18
A
O
GLN
18
A
O
LEU
23
A
O
LEU
23
A
N
ILE
85
A
N
ILE
85
A
N
VAL
84
A
N
VAL
84
A
O
VAL
32
A
O
VAL
32
A
N
LEU
33
A
N
LEU
33
A
O
LEU
76
A
O
LEU
76
A
N
VAL
77
A
N
VAL
77
A
O
ARG
57
A
O
ARG
57
B
N
ILE
115
B
N
ILE
15
B
O
GLN
118
B
O
GLN
18
B
O
LEU
123
B
O
LEU
23
B
N
ILE
185
B
N
ILE
85
B
N
VAL
184
B
N
VAL
84
B
O
VAL
132
B
O
VAL
32
B
N
LEU
133
B
N
LEU
33
B
O
LEU
176
B
O
LEU
76
B
N
VAL
177
B
N
VAL
77
B
O
ARG
157
B
O
ARG
57
1
B
B
O
O
HOH
HOH
2103
2104
0.82
1
B
B
O
O
HOH
HOH
2089
2093
1.49
1
A
B
O
O
HOH
HOH
2004
2116
1.54
1
B
B
O
O
HOH
HOH
2011
2052
1.60
1
A
B
CD2
O
LEU
HOH
97
2115
1.61
1
A
A
CG2
O
THR
HOH
4
2027
1.73
1
A
A
O
O
HOH
HOH
2003
2119
1.77
1
A
A
O
O
HOH
HOH
2013
2022
1.84
1
B
B
O
O
HOH
HOH
2030
2118
1.85
1
A
A
O
O
HOH
HOH
2109
2110
1.90
1
A
B
O
O
HOH
HOH
2148
2117
1.91
1
B
B
O
O
HOH
HOH
2075
2078
1.94
1
A
A
NE
O
ARG
HOH
41
2084
1.94
1
A
A
O
O
HOH
HOH
2112
2114
1.94
1
A
B
OD1
OD1
ASP
ASP
25
125
1.95
1
A
A
O
O
HOH
HOH
2117
2136
2.01
1
B
B
O
O
HOH
HOH
2015
2017
2.02
1
A
A
O
O
HOH
HOH
2110
2113
2.05
1
B
B
O
O
HOH
HOH
2118
2121
2.05
1
A
A
O
O
HOH
HOH
2002
2005
2.05
1
B
B
O
O
HOH
HOH
2118
2119
2.06
1
B
B
O
O
HOH
HOH
2069
2097
2.08
1
B
B
O
O
HOH
HOH
2029
2030
2.10
1
A
B
O
O
HOH
HOH
2143
2035
2.10
1
A
A
O
O
HOH
HOH
2096
2097
2.10
1
A
B
O
O
HOH
HOH
2019
2114
2.10
1
A
A
O
O
HOH
HOH
2004
2005
2.10
1
A
A
CE
O
LYS
HOH
14
2046
2.13
1
A
A
O
O
HOH
HOH
2001
2003
2.14
1
B
B
O
O
HOH
HOH
2035
2117
2.16
1
A
A
O
O
HOH
HOH
2035
2055
2.17
1
A
A
O
O
HOH
HOH
2014
2016
2.17
1
A
A
O
O
HOH
HOH
2115
2116
2.18
1
A
A
O
O
HOH
HOH
2012
2025
2.19
1
A
B
O
O
HOH
HOH
2034
2109
0.84
1_555
4_555
1
A
B
O
O
HOH
HOH
2135
2019
1.87
1_555
3_555
13.333
0.25
0.00
0.00
-0.58
0.00
0.33
0.908
0.905
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
0.24185
0.22373
0.22465
1.54
29.10
1799
33511
5.1
99.73
1.334
0.051
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.093
0.089
0.80
0.80
1.40
MAXIMUM LIKELIHOOD
MASK
1.54
29.10
281
1844
51
0
1512
0.009
0.022
1597
1.110
2.019
2171
6.634
5.000
196
40.122
24.815
54
13.558
15.000
281
19.824
15.000
8
0.091
0.200
257
0.021
0.021
1152
1.796
1.500
980
2.973
2.000
1600
5.058
3.000
617
7.444
4.500
571
0.291
0.274
1.575
137
2416
20
99.22
1.54
29.10
3ZPT
35356
2.0
0.11
1
11.10
6.7
99.8
0.29
1.54
1.62
5.60
1
6.0
99.3
refinement
REFMAC
5.5.0109
data reduction
MOSFLM
data scaling
SCALA
phasing
REFMAC
PROTEASE (E.C.3.4.23.16)
Design and Synthesis of P1-P3 Macrocyclic Tertiary Alcohol Comprising HIV-1 Protease Inhibitors
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
3
N
N
4
N
N
4
N
N
A
GLY
86
A
GLY
86
HELX_P
A
THR
91
A
THR
91
1
1
6
A
GLN
92
A
GLN
92
HELX_P
A
GLY
94
A
GLY
94
5
2
3
B
GLY
186
B
GLY
86
HELX_P
B
THR
191
B
THR
91
1
3
6
HYDROLASE
HYDROLASE, RATIONAL DRUG DESIGN, MACROCYCLIC TERTIARY ALCOHOL
POL_HV1B1
UNP
1
P03366
501
599
3ZPT
1
99
P03366
A
1
1
99
501
599
3ZPT
101
199
P03366
B
1
1
99
1
LEU
conflict
PRO
63
3ZPT
A
P03366
UNP
563
63
1
VAL
conflict
THR
82
3ZPT
A
P03366
UNP
582
82
1
ILE
conflict
VAL
84
3ZPT
A
P03366
UNP
584
84
2
LEU
conflict
PRO
163
3ZPT
B
P03366
UNP
563
63
2
VAL
conflict
THR
182
3ZPT
B
P03366
UNP
582
82
2
ILE
conflict
VAL
184
3ZPT
B
P03366
UNP
584
84
4
8
8
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
A
GLN
2
A
GLN
2
A
ILE
3
A
ILE
3
B
THR
196
B
THR
96
B
ASN
198
B
ASN
98
A
THR
96
A
THR
96
A
ASN
98
A
ASN
98
B
GLN
102
B
GLN
2
B
ILE
103
B
ILE
3
A
LEU
10
A
LEU
10
A
ILE
15
A
ILE
15
A
GLN
18
A
GLN
18
A
LEU
24
A
LEU
24
A
VAL
84
A
VAL
84
A
ILE
85
A
ILE
85
A
VAL
32
A
VAL
32
A
LEU
33
A
LEU
33
A
HIS
69
A
HIS
69
A
VAL
77
A
VAL
77
A
GLY
52
A
GLY
52
A
ILE
66
A
ILE
66
A
LEU
10
A
LEU
10
A
ILE
15
A
ILE
15
B
LEU
110
B
LEU
10
B
ILE
115
B
ILE
15
B
GLN
118
B
GLN
18
B
LEU
124
B
LEU
24
B
VAL
184
B
VAL
84
B
ILE
185
B
ILE
85
B
VAL
132
B
VAL
32
B
LEU
133
B
LEU
33
B
HIS
169
B
HIS
69
B
VAL
177
B
VAL
77
B
GLY
152
B
GLY
52
B
ILE
166
B
ILE
66
B
LEU
110
B
LEU
10
B
ILE
115
B
ILE
15
BINDING SITE FOR RESIDUE CL B 1200
Software
2
BINDING SITE FOR RESIDUE CL A 1100
Software
4
BINDING SITE FOR RESIDUE CL B 1201
Software
3
BINDING SITE FOR RESIDUE M8Y B 1202
Software
17
B
TRP
106
B
TRP
6
2
1_555
B
HOH
2095
H
HOH
2
3_555
A
THR
74
A
THR
74
4
1_555
A
ASN
88
A
ASN
88
4
1_555
A
HOH
2043
G
HOH
4
1_555
B
ARG
141
B
ARG
41
4
3_555
B
THR
174
B
THR
74
3
1_555
B
ASN
188
B
ASN
88
3
1_555
B
HOH
2111
H
HOH
3
1_555
A
ARG
8
A
ARG
8
17
1_555
A
ASP
25
A
ASP
25
17
1_555
A
GLY
27
A
GLY
27
17
1_555
A
ALA
28
A
ALA
28
17
1_555
A
ASP
29
A
ASP
29
17
1_555
A
GLY
48
A
GLY
48
17
1_555
A
GLY
49
A
GLY
49
17
1_555
A
HOH
2094
G
HOH
17
1_555
B
ARG
108
B
ARG
8
17
1_555
B
LEU
123
B
LEU
23
17
1_555
B
ASP
125
B
ASP
25
17
1_555
B
GLY
127
B
GLY
27
17
1_555
B
ALA
128
B
ALA
28
17
1_555
B
ASP
129
B
ASP
29
17
1_555
B
GLY
148
B
GLY
48
17
1_555
B
GLY
149
B
GLY
49
17
1_555
B
THR
182
B
THR
82
17
1_555
18
P 21 21 2