0.015898
0.009179
0.000000
0.000000
0.018358
0.000000
0.000000
0.000000
0.012003
0.00000
0.00000
0.00000
Kervinen, J.
Lubkowski, J.
Zdanov, A.
Wlodawer, A.
Gustchina, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
62.900
62.900
83.310
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
C45 H58 N6 O7
794.978
4-[2-(2-ACETYLAMINO-3-NAPHTALEN-1-YL-PROPIONYLAMINO)-4-METHYL-PENTANOYLAMINO]-3-HYDROXY-6-METHYL-HEPTANOIC ACID [1-(1-CARBAMOYL-2-NAPHTHALEN-1-YL-ETHYLCARBAMOYL)-PROPYL]-AMIDE
non-polymer
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
US
Protein Sci.
PRCIEI
0795
0961-8368
7
2314
2323
9827997
Toward a universal inhibitor of retroviral proteases: comparative analysis of the interactions of LP-130 complexed with proteases from HIV-1, FIV, and EIAV.
1998
10.2210/pdb1ody/pdb
pdb_00001ody
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
1997-07-11
MACSCIENCE
NI FILTER
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
ENRAF-NONIUS FR591
10703.613
HIV-1 PROTEASE
3.4.23.16
2
man
polymer
794.978
4-[2-(2-ACETYLAMINO-3-NAPHTALEN-1-YL-PROPIONYLAMINO)-4-METHYL-PENTANOYLAMINO]-3-HYDROXY-6-METHYL-HEPTANOIC ACID [1-(1-CARBAMOYL-2-NAPHTHALEN-1-YL-ETHYLCARBAMOYL)-PROPYL]-AMIDE
1
syn
non-polymer
18.015
water
145
nat
water
HIV-1 PR, RETROPEPSIN
no
no
PQVTLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGAWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
PQVTLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGAWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
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
Lentivirus
Human immunodeficiency virus 1
Escherichia
sample
11706
HIV-1 M:B_HXB2R
562
Escherichia coli
HXB2
1
2.22
44.62
6.2
pH 6.2
database_2
pdbx_database_status
pdbx_initial_refinement_model
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
Refinement description
1
0
1999-02-16
1
1
2008-03-24
1
2
2011-07-13
1
3
2023-08-09
_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
1998-07-13
REL
REL
LP1
4-[2-(2-ACETYLAMINO-3-NAPHTALEN-1-YL-PROPIONYLAMINO)-4-METHYL-PENTANOYLAMINO]-3-HYDROXY-6-METHYL-HEPTANOIC ACID [1-(1-CARBAMOYL-2-NAPHTHALEN-1-YL-ETHYLCARBAMOYL)-PROPYL]-AMIDE
HOH
water
LP-130 (HET ID LP1): ACE-NAL-VAL-STA-ABU-NAL-NH2 WHERE
NAL IS NAPHTHYLALANINE, STA IS STATINE, AND ABU IS
2-AMINOBUTYRIC ACID. THE KI VALUE OF LP-130 FOR HIV-1
PR IS 8 NM.
1ODX
PDB ENTRY 1ODX
PDB
experimental model
LP1
201
2
LP1
LP1
201
A
HOH
301
3
HOH
HOH
301
A
HOH
303
3
HOH
HOH
303
A
HOH
305
3
HOH
HOH
305
A
HOH
310
3
HOH
HOH
310
A
HOH
312
3
HOH
HOH
312
A
HOH
314
3
HOH
HOH
314
A
HOH
316
3
HOH
HOH
316
A
HOH
318
3
HOH
HOH
318
A
HOH
319
3
HOH
HOH
319
A
HOH
322
3
HOH
HOH
322
A
HOH
323
3
HOH
HOH
323
A
HOH
324
3
HOH
HOH
324
A
HOH
327
3
HOH
HOH
327
A
HOH
328
3
HOH
HOH
328
A
HOH
329
3
HOH
HOH
329
A
HOH
330
3
HOH
HOH
330
A
HOH
332
3
HOH
HOH
332
A
HOH
336
3
HOH
HOH
336
A
HOH
337
3
HOH
HOH
337
A
HOH
339
3
HOH
HOH
339
A
HOH
340
3
HOH
HOH
340
A
HOH
341
3
HOH
HOH
341
A
HOH
343
3
HOH
HOH
343
A
HOH
344
3
HOH
HOH
344
A
HOH
345
3
HOH
HOH
345
A
HOH
346
3
HOH
HOH
346
A
HOH
353
3
HOH
HOH
353
A
HOH
354
3
HOH
HOH
354
A
HOH
356
3
HOH
HOH
356
A
HOH
357
3
HOH
HOH
357
A
HOH
358
3
HOH
HOH
358
A
HOH
360
3
HOH
HOH
360
A
HOH
362
3
HOH
HOH
362
A
HOH
363
3
HOH
HOH
363
A
HOH
364
3
HOH
HOH
364
A
HOH
365
3
HOH
HOH
365
A
HOH
366
3
HOH
HOH
366
A
HOH
371
3
HOH
HOH
371
A
HOH
372
3
HOH
HOH
372
A
HOH
373
3
HOH
HOH
373
A
HOH
374
3
HOH
HOH
374
A
HOH
380
3
HOH
HOH
380
A
HOH
384
3
HOH
HOH
384
A
HOH
386
3
HOH
HOH
386
A
HOH
387
3
HOH
HOH
387
A
HOH
388
3
HOH
HOH
388
A
HOH
390
3
HOH
HOH
390
A
HOH
392
3
HOH
HOH
392
A
HOH
393
3
HOH
HOH
393
A
HOH
394
3
HOH
HOH
394
A
HOH
395
3
HOH
HOH
395
A
HOH
396
3
HOH
HOH
396
A
HOH
400
3
HOH
HOH
400
A
HOH
401
3
HOH
HOH
401
A
HOH
404
3
HOH
HOH
404
A
HOH
405
3
HOH
HOH
405
A
HOH
407
3
HOH
HOH
407
A
HOH
408
3
HOH
HOH
408
A
HOH
409
3
HOH
HOH
409
A
HOH
410
3
HOH
HOH
410
A
HOH
411
3
HOH
HOH
411
A
HOH
413
3
HOH
HOH
413
A
HOH
414
3
HOH
HOH
414
A
HOH
417
3
HOH
HOH
417
A
HOH
421
3
HOH
HOH
421
A
HOH
422
3
HOH
HOH
422
A
HOH
426
3
HOH
HOH
426
A
HOH
427
3
HOH
HOH
427
A
HOH
428
3
HOH
HOH
428
A
HOH
429
3
HOH
HOH
429
A
HOH
431
3
HOH
HOH
431
A
HOH
432
3
HOH
HOH
432
A
HOH
433
3
HOH
HOH
433
A
HOH
435
3
HOH
HOH
435
A
HOH
438
3
HOH
HOH
438
A
HOH
441
3
HOH
HOH
441
A
HOH
445
3
HOH
HOH
445
A
HOH
302
3
HOH
HOH
302
B
HOH
304
3
HOH
HOH
304
B
HOH
306
3
HOH
HOH
306
B
HOH
307
3
HOH
HOH
307
B
HOH
308
3
HOH
HOH
308
B
HOH
309
3
HOH
HOH
309
B
HOH
311
3
HOH
HOH
311
B
HOH
313
3
HOH
HOH
313
B
HOH
315
3
HOH
HOH
315
B
HOH
317
3
HOH
HOH
317
B
HOH
320
3
HOH
HOH
320
B
HOH
321
3
HOH
HOH
321
B
HOH
325
3
HOH
HOH
325
B
HOH
326
3
HOH
HOH
326
B
HOH
331
3
HOH
HOH
331
B
HOH
333
3
HOH
HOH
333
B
HOH
334
3
HOH
HOH
334
B
HOH
335
3
HOH
HOH
335
B
HOH
338
3
HOH
HOH
338
B
HOH
342
3
HOH
HOH
342
B
HOH
347
3
HOH
HOH
347
B
HOH
348
3
HOH
HOH
348
B
HOH
349
3
HOH
HOH
349
B
HOH
350
3
HOH
HOH
350
B
HOH
351
3
HOH
HOH
351
B
HOH
352
3
HOH
HOH
352
B
HOH
355
3
HOH
HOH
355
B
HOH
359
3
HOH
HOH
359
B
HOH
361
3
HOH
HOH
361
B
HOH
367
3
HOH
HOH
367
B
HOH
368
3
HOH
HOH
368
B
HOH
369
3
HOH
HOH
369
B
HOH
370
3
HOH
HOH
370
B
HOH
375
3
HOH
HOH
375
B
HOH
376
3
HOH
HOH
376
B
HOH
377
3
HOH
HOH
377
B
HOH
378
3
HOH
HOH
378
B
HOH
379
3
HOH
HOH
379
B
HOH
381
3
HOH
HOH
381
B
HOH
382
3
HOH
HOH
382
B
HOH
383
3
HOH
HOH
383
B
HOH
385
3
HOH
HOH
385
B
HOH
389
3
HOH
HOH
389
B
HOH
391
3
HOH
HOH
391
B
HOH
397
3
HOH
HOH
397
B
HOH
398
3
HOH
HOH
398
B
HOH
399
3
HOH
HOH
399
B
HOH
402
3
HOH
HOH
402
B
HOH
403
3
HOH
HOH
403
B
HOH
406
3
HOH
HOH
406
B
HOH
412
3
HOH
HOH
412
B
HOH
415
3
HOH
HOH
415
B
HOH
416
3
HOH
HOH
416
B
HOH
418
3
HOH
HOH
418
B
HOH
419
3
HOH
HOH
419
B
HOH
420
3
HOH
HOH
420
B
HOH
423
3
HOH
HOH
423
B
HOH
424
3
HOH
HOH
424
B
HOH
425
3
HOH
HOH
425
B
HOH
430
3
HOH
HOH
430
B
HOH
434
3
HOH
HOH
434
B
HOH
436
3
HOH
HOH
436
B
HOH
437
3
HOH
HOH
437
B
HOH
439
3
HOH
HOH
439
B
HOH
440
3
HOH
HOH
440
B
HOH
442
3
HOH
HOH
442
B
HOH
443
3
HOH
HOH
443
B
HOH
444
3
HOH
HOH
444
B
PRO
1
n
1
PRO
1
A
GLN
2
n
2
GLN
2
A
VAL
3
n
3
VAL
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
ALA
41
n
41
ALA
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
LEU
63
n
63
LEU
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
VAL
3
n
3
VAL
3
B
THR
4
n
4
THR
4
B
LEU
5
n
5
LEU
5
B
TRP
6
n
6
TRP
6
B
GLN
7
n
7
GLN
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
LEU
33
n
33
LEU
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
ALA
41
n
41
ALA
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
ALA
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
LEU
63
n
63
LEU
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
author_and_software_defined_assembly
PISA
2
dimeric
5320
-36
8900
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
43
A
O
LYS
43
A
N
GLN
58
A
N
GLN
58
A
O
ARG
57
A
O
ARG
57
A
N
VAL
77
A
N
VAL
77
B
O
GLN
18
B
O
GLN
18
B
N
ILE
15
B
N
ILE
15
B
O
LYS
14
B
O
LYS
14
B
N
GLU
65
B
N
GLU
65
B
O
ILE
62
B
O
ILE
62
B
N
GLY
73
B
N
GLY
73
B
O
LYS
43
B
O
LYS
43
B
N
GLN
58
B
N
GLN
58
B
O
ARG
57
B
O
ARG
57
B
N
VAL
77
B
N
VAL
77
1
B
CG
MET
46
B
CG
MET
46
1
Y
1
B
SD
MET
46
B
SD
MET
46
1
Y
1
B
CE
MET
46
B
CE
MET
46
1
Y
1
B
B
O
O
ILE
HOH
50
367
2.19
1
-13.96
1.90
110.20
96.24
A
A
A
CB
CA
C
LEU
LEU
LEU
10
10
10
N
1
-17.00
2.20
111.50
94.50
A
A
A
N
CA
CB
VAL
VAL
VAL
11
11
11
N
1
-16.74
2.00
111.60
94.86
A
A
A
CB
CA
C
ILE
ILE
ILE
15
15
15
N
1
-13.62
2.20
113.40
99.78
A
A
A
CA
CB
CG
LYS
LYS
LYS
20
20
20
N
1
7.95
0.90
118.30
126.25
A
A
A
CB
CG
OD1
ASP
ASP
ASP
25
25
25
N
1
-7.42
0.90
118.30
110.88
A
A
A
CB
CG
OD2
ASP
ASP
ASP
29
29
29
N
1
23.58
2.70
114.20
137.78
A
A
A
CB
CG
CD
GLU
GLU
GLU
34
34
34
N
1
-11.76
1.20
123.30
111.54
A
A
A
OE1
CD
OE2
GLU
GLU
GLU
34
34
34
N
1
11.63
1.20
123.30
134.93
A
A
A
OE1
CD
OE2
GLU
GLU
GLU
65
65
65
N
1
-12.43
2.00
110.40
97.97
A
A
A
CB
CA
C
HIS
HIS
HIS
69
69
69
N
1
-16.07
1.90
111.40
95.33
A
A
A
CB
CA
C
VAL
VAL
VAL
82
82
82
N
1
-4.34
0.50
120.30
115.96
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
87
87
87
N
1
-14.04
1.80
110.60
96.56
A
A
A
N
CA
CB
CYS
CYS
CYS
95
95
95
N
1
11.55
1.90
110.30
121.85
B
B
B
N
CA
CB
THR
THR
THR
4
4
4
N
1
3.80
0.50
120.30
124.10
B
B
B
NE
CZ
NH1
ARG
ARG
ARG
8
8
8
N
1
-13.69
2.20
111.50
97.81
B
B
B
N
CA
CB
VAL
VAL
VAL
11
11
11
N
1
-16.81
2.00
111.60
94.79
B
B
B
CB
CA
C
ILE
ILE
ILE
15
15
15
N
1
14.69
2.20
113.40
128.09
B
B
B
CA
CB
CG
GLU
GLU
GLU
21
21
21
N
1
5.49
0.90
118.30
123.79
B
B
B
CB
CG
OD1
ASP
ASP
ASP
25
25
25
N
1
6.14
0.90
118.30
124.44
B
B
B
CB
CG
OD2
ASP
ASP
ASP
29
29
29
N
1
-9.08
1.20
123.30
114.22
B
B
B
OE1
CD
OE2
GLU
GLU
GLU
34
34
34
N
1
14.10
2.20
113.40
127.50
B
B
B
CA
CB
CG
LYS
LYS
LYS
43
43
43
N
1
21.10
2.30
110.80
131.90
B
B
B
N
CA
CB
ILE
ILE
ILE
54
54
54
N
1
-13.46
1.90
111.40
97.94
B
B
B
CB
CA
C
VAL
VAL
VAL
82
82
82
N
1
-3.51
0.50
120.30
116.79
B
B
B
NE
CZ
NH2
ARG
ARG
ARG
87
87
87
N
1
-12.24
2.00
110.40
98.16
B
B
B
N
CA
CB
LEU
LEU
LEU
97
97
97
N
1
A
GLU
34
-49.63
169.58
1
A
SER
37
-66.96
96.72
1
A
PRO
79
-87.04
43.08
1
B
PHE
53
-103.44
-164.89
1
B
PRO
79
-53.74
47.57
0.167
2.0
8.0
11058
1
3.
RIGID BODY REFINEMENT
PDB ENTRY 1ODX
2.0
8.0
145
1710
58
0
1507
0.021
0.020
0.055
0.035
0.062
0.050
1.514
1.500
2.455
2.000
3.863
3.000
5.638
4.000
0.016
0.022
0.221
0.130
0.231
0.300
0.239
0.300
0.232
0.300
3.0
3.0
21.4
10.0
14.9
20.0
2.0
20.0
1ODY
12082
1.0
0.067
1
4.7
95.0
0.429
2.00
2.07
85.1
model building
X-PLOR
refinement
PROFFT
refinement
X-PLOR
data reduction
DENZO
data scaling
SCALEPACK
phasing
X-PLOR
HIV-1 PROTEASE COMPLEXED WITH AN INHIBITOR LP-130
1
N
N
1
N
N
2
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
ARG
87
B
ARG
87
HELX_P
B
LEU
90
B
LEU
90
1
2
4
ASPARTIC PROTEASE
ASPARTIC PROTEASE, RETROPEPSIN, RETROVIRUS, HIV, AIDS
S63716
PIR
1
1
S63716
PQVTLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
1
99
1ODY
1
99
S63716
A
1
1
99
1
99
1ODY
1
99
S63716
B
1
1
99
1
ARG
conflict
ALA
41
1ODY
A
S63716
PIR
41
41
2
ARG
conflict
ALA
41
1ODY
B
S63716
PIR
41
41
2
MET
conflict
MET
46
1ODY
B
S63716
PIR
46
46
4
3
4
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-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
LYS
70
A
LYS
70
A
GLY
73
A
GLY
73
A
LYS
43
A
LYS
43
A
GLY
48
A
GLY
48
A
PHE
53
A
PHE
53
A
TYR
59
A
TYR
59
A
VAL
75
A
VAL
75
A
GLY
78
A
GLY
78
B
GLN
18
B
GLN
18
B
LEU
23
B
LEU
23
B
LEU
10
B
LEU
10
B
ILE
15
B
ILE
15
B
ILE
62
B
ILE
62
B
ILE
66
B
ILE
66
B
HIS
69
B
HIS
69
B
GLY
73
B
GLY
73
B
LYS
43
B
LYS
43
B
GLY
48
B
GLY
48
B
PHE
53
B
PHE
53
B
TYR
59
B
TYR
59
B
VAL
75
B
VAL
75
B
GLY
78
B
GLY
78
BINDING SITE FOR RESIDUE LP1 A 201
A
LP1
201
Software
22
A
ARG
8
A
ARG
8
22
1_555
A
ASP
25
A
ASP
25
22
1_555
A
GLY
27
A
GLY
27
22
1_555
A
ALA
28
A
ALA
28
22
1_555
A
ASP
29
A
ASP
29
22
1_555
A
ILE
47
A
ILE
47
22
1_555
A
GLY
48
A
GLY
48
22
1_555
A
GLY
49
A
GLY
49
22
1_555
A
ILE
50
A
ILE
50
22
1_555
A
PRO
81
A
PRO
81
22
1_555
A
VAL
82
A
VAL
82
22
1_555
A
ILE
84
A
ILE
84
22
1_555
A
HOH
301
D
HOH
22
1_555
B
ASP
25
B
ASP
25
22
1_555
B
GLY
27
B
GLY
27
22
1_555
B
ALA
28
B
ALA
28
22
1_555
B
ASP
29
B
ASP
29
22
1_555
B
ILE
47
B
ILE
47
22
1_555
B
GLY
48
B
GLY
48
22
1_555
B
GLY
49
B
GLY
49
22
1_555
B
VAL
82
B
VAL
82
22
1_555
B
HOH
440
E
HOH
22
1_555
169
P 61