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1HIV
Asym. Unit
Info
Asym.Unit (39 KB)
Biol.Unit 1 (35 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A COMPLEX OF HIV-1 PROTEASE WITH A DIHYDROETHYLENE-CONTAINING INHIBITOR: COMPARISONS WITH MOLECULAR MODELING
Authors
:
N. Thanki, A. Wlodawer
Date
:
12 Feb 92 (Deposition) - 31 Oct 93 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Acid Proteinase, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Thanki, J. K. Rao, S. I. Foundling, W. J. Howe, J. B. Moon, J. O. Hui, A. G. Tomasselli, R. L. Heinrikson, S. Thaisrivongs, A. Wlodawer
Crystal Structure Of A Complex Of Hiv-1 Protease With A Dihydroxyethylene-Containing Inhibitor: Comparisons With Molecular Modeling.
Protein Sci. V. 1 1061 1992
[
close entry info
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: 4-[(2R)-3-{[(1S,2S,3R,4S)-1-(CYCLO... (1ZKa)
2a: S-HYDROXYCYSTEINE (CSOa)
2b: S-HYDROXYCYSTEINE (CSOb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1ZK
1
Ligand/Ion
4-[(2R)-3-{[(1S,2S,3R,4S)-1-(CYCLOHEXYLMETHYL)-2,3-DIHYDROXY-5-METHYL-4-({(1S,2R)-2-METHYL-1-[(PYRIDIN-2-YLMETHYL)CARBAMOYL]BUTYL}CARBAMOYL)HEXYL]AMINO}-2-{[(NAPHTHALEN-1-YLOXY)ACETYL]AMINO}-3-OXOPROPYL]-1H-IMIDAZOL-3-IUM
2
CSO
2
Mod. Amino Acid
S-HYDROXYCYSTEINE
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:8 , ASP A:25 , GLY A:27 , ALA A:28 , ASP A:29 , GLY A:48 , GLY A:49 , ILE A:50 , PRO A:81 , HOH A:301 , HOH A:339 , ASP B:25 , GLY B:27 , ALA B:28 , ASP B:29 , GLY B:48 , GLY B:49 , VAL B:82
BINDING SITE FOR RESIDUE 1ZK A 100
[
close Site info
]
SAPs(SNPs)/Variants
(68, 136)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_POL_HV1H2_001 (R8K, chain A/B, )
02: VAR_POL_HV1H2_002 (R8Q, chain A/B, )
03: VAR_POL_HV1H2_003 (L10F, chain A/B, )
04: VAR_POL_HV1H2_004 (L10I, chain A/B, )
05: VAR_POL_HV1H2_005 (L10R, chain A/B, )
06: VAR_POL_HV1H2_006 (L10V, chain A/B, )
07: VAR_POL_HV1H2_007 (L10Y, chain A/B, )
08: VAR_POL_HV1H2_008 (I15V, chain A/B, )
09: VAR_POL_HV1H2_009 (G16E, chain A/B, )
10: VAR_POL_HV1H2_010 (K20I, chain A/B, )
11: VAR_POL_HV1H2_011 (K20M, chain A/B, )
12: VAR_POL_HV1H2_012 (K20R, chain A/B, )
13: VAR_POL_HV1H2_013 (L23I, chain A/B, )
14: VAR_POL_HV1H2_014 (L24I, chain A/B, )
15: VAR_POL_HV1H2_015 (D30N, chain A/B, )
16: VAR_POL_HV1H2_016 (V32I, chain A/B, )
17: VAR_POL_HV1H2_017 (L33F, chain A/B, )
18: VAR_POL_HV1H2_018 (E34Q, chain A/B, )
19: VAR_POL_HV1H2_019 (E35D, chain A/B, )
20: VAR_POL_HV1H2_020 (M36I, chain A/B, )
21: VAR_POL_HV1H2_021 (M36L, chain A/B, )
22: VAR_POL_HV1H2_022 (S37D, chain A/B, )
23: VAR_POL_HV1H2_023 (R41K, chain A/B, )
24: VAR_POL_HV1H2_024 (K45I, chain A/B, )
25: VAR_POL_HV1H2_025 (M46F, chain A/B, )
26: VAR_POL_HV1H2_026 (M46I, chain A/B, )
27: VAR_POL_HV1H2_027 (M46L, chain A/B, )
28: VAR_POL_HV1H2_028 (I47V, chain A/B, )
29: VAR_POL_HV1H2_029 (G48V, chain A/B, )
30: VAR_POL_HV1H2_030 (I50L, chain A/B, )
31: VAR_POL_HV1H2_031 (I50V, chain A/B, )
32: VAR_POL_HV1H2_032 (F53L, chain A/B, )
33: VAR_POL_HV1H2_033 (F53Y, chain A/B, )
34: VAR_POL_HV1H2_034 (I54A, chain A/B, )
35: VAR_POL_HV1H2_035 (I54L, chain A/B, )
36: VAR_POL_HV1H2_036 (I54M, chain A/B, )
37: VAR_POL_HV1H2_037 (I54S, chain A/B, )
38: VAR_POL_HV1H2_038 (I54T, chain A/B, )
39: VAR_POL_HV1H2_039 (I54V, chain A/B, )
40: VAR_POL_HV1H2_040 (K55R, chain A/B, )
41: VAR_POL_HV1H2_041 (R57K, chain A/B, )
42: VAR_POL_HV1H2_042 (Q58E, chain A/B, )
43: VAR_POL_HV1H2_043 (D60E, chain A/B, )
44: VAR_POL_HV1H2_044 (Q61H, chain A/B, )
45: VAR_POL_HV1H2_045 (L63P, chain A/B, )
46: VAR_POL_HV1H2_046 (L63T, chain A/B, )
47: VAR_POL_HV1H2_047 (E65Q, chain A/B, )
48: VAR_POL_HV1H2_048 (I66F, chain A/B, )
49: VAR_POL_HV1H2_049 (H69Y, chain A/B, )
50: VAR_POL_HV1H2_050 (A71I, chain A/B, )
51: VAR_POL_HV1H2_051 (A71L, chain A/B, )
52: VAR_POL_HV1H2_052 (A71T, chain A/B, )
53: VAR_POL_HV1H2_053 (A71V, chain A/B, )
54: VAR_POL_HV1H2_054 (G73S, chain A/B, )
55: VAR_POL_HV1H2_055 (V77I, chain A/B, )
56: VAR_POL_HV1H2_056 (V82A, chain A/B, )
57: VAR_POL_HV1H2_057 (V82F, chain A/B, )
58: VAR_POL_HV1H2_058 (V82I, chain A/B, )
59: VAR_POL_HV1H2_059 (V82S, chain A/B, )
60: VAR_POL_HV1H2_060 (V82T, chain A/B, )
61: VAR_POL_HV1H2_061 (I84A, chain A/B, )
62: VAR_POL_HV1H2_062 (I84V, chain A/B, )
63: VAR_POL_HV1H2_063 (N88D, chain A/B, )
64: VAR_POL_HV1H2_064 (N88S, chain A/B, )
65: VAR_POL_HV1H2_065 (L89M, chain A/B, )
66: VAR_POL_HV1H2_066 (L90M, chain A/B, )
67: VAR_POL_HV1H2_067 (T91S, chain A/B, )
68: VAR_POL_HV1H2_068 (I93L, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_POL_HV1H2_001
*
R
496
K
POL_HV1H2
---
---
A/B
R
8
K
02
UniProt
VAR_POL_HV1H2_002
*
R
496
Q
POL_HV1H2
---
---
A/B
R
8
Q
03
UniProt
VAR_POL_HV1H2_003
*
L
498
F
POL_HV1H2
---
---
A/B
L
10
F
04
UniProt
VAR_POL_HV1H2_004
*
L
498
I
POL_HV1H2
---
---
A/B
L
10
I
05
UniProt
VAR_POL_HV1H2_005
*
L
498
R
POL_HV1H2
---
---
A/B
L
10
R
06
UniProt
VAR_POL_HV1H2_006
*
L
498
V
POL_HV1H2
---
---
A/B
L
10
V
07
UniProt
VAR_POL_HV1H2_007
*
L
498
Y
POL_HV1H2
---
---
A/B
L
10
Y
08
UniProt
VAR_POL_HV1H2_008
*
I
503
V
POL_HV1H2
---
---
A/B
I
15
V
09
UniProt
VAR_POL_HV1H2_009
*
G
504
E
POL_HV1H2
---
---
A/B
G
16
E
10
UniProt
VAR_POL_HV1H2_010
*
K
508
I
POL_HV1H2
---
---
A/B
K
20
I
11
UniProt
VAR_POL_HV1H2_011
*
K
508
M
POL_HV1H2
---
---
A/B
K
20
M
12
UniProt
VAR_POL_HV1H2_012
*
K
508
R
POL_HV1H2
---
---
A/B
K
20
R
13
UniProt
VAR_POL_HV1H2_013
*
L
511
I
POL_HV1H2
---
---
A/B
L
23
I
14
UniProt
VAR_POL_HV1H2_014
*
L
512
I
POL_HV1H2
---
---
A/B
L
24
I
15
UniProt
VAR_POL_HV1H2_015
*
D
518
N
POL_HV1H2
---
---
A/B
D
30
N
16
UniProt
VAR_POL_HV1H2_016
*
V
520
I
POL_HV1H2
---
---
A/B
V
32
I
17
UniProt
VAR_POL_HV1H2_017
*
L
521
F
POL_HV1H2
---
---
A/B
L
33
F
18
UniProt
VAR_POL_HV1H2_018
*
E
522
Q
POL_HV1H2
---
---
A/B
E
34
Q
19
UniProt
VAR_POL_HV1H2_019
*
E
523
D
POL_HV1H2
---
---
A/B
E
35
D
20
UniProt
VAR_POL_HV1H2_020
*
M
524
I
POL_HV1H2
---
---
A/B
M
36
I
21
UniProt
VAR_POL_HV1H2_021
*
M
524
L
POL_HV1H2
---
---
A/B
M
36
L
22
UniProt
VAR_POL_HV1H2_022
*
S
525
D
POL_HV1H2
---
---
A/B
S
37
D
23
UniProt
VAR_POL_HV1H2_023
*
R
529
K
POL_HV1H2
---
---
A/B
R
41
K
24
UniProt
VAR_POL_HV1H2_024
*
K
533
I
POL_HV1H2
---
---
A/B
K
45
I
25
UniProt
VAR_POL_HV1H2_025
*
M
534
F
POL_HV1H2
---
---
A/B
M
46
F
26
UniProt
VAR_POL_HV1H2_026
*
M
534
I
POL_HV1H2
---
---
A/B
M
46
I
27
UniProt
VAR_POL_HV1H2_027
*
M
534
L
POL_HV1H2
---
---
A/B
M
46
L
28
UniProt
VAR_POL_HV1H2_028
*
I
535
V
POL_HV1H2
---
---
A/B
I
47
V
29
UniProt
VAR_POL_HV1H2_029
*
G
536
V
POL_HV1H2
---
---
A/B
G
48
V
30
UniProt
VAR_POL_HV1H2_030
*
I
538
L
POL_HV1H2
---
---
A/B
I
50
L
31
UniProt
VAR_POL_HV1H2_031
*
I
538
V
POL_HV1H2
---
---
A/B
I
50
V
32
UniProt
VAR_POL_HV1H2_032
*
F
541
L
POL_HV1H2
---
---
A/B
F
53
L
33
UniProt
VAR_POL_HV1H2_033
*
F
541
Y
POL_HV1H2
---
---
A/B
F
53
Y
34
UniProt
VAR_POL_HV1H2_034
*
I
542
A
POL_HV1H2
---
---
A/B
I
54
A
35
UniProt
VAR_POL_HV1H2_035
*
I
542
L
POL_HV1H2
---
---
A/B
I
54
L
36
UniProt
VAR_POL_HV1H2_036
*
I
542
M
POL_HV1H2
---
---
A/B
I
54
M
37
UniProt
VAR_POL_HV1H2_037
*
I
542
S
POL_HV1H2
---
---
A/B
I
54
S
38
UniProt
VAR_POL_HV1H2_038
*
I
542
T
POL_HV1H2
---
---
A/B
I
54
T
39
UniProt
VAR_POL_HV1H2_039
*
I
542
V
POL_HV1H2
---
---
A/B
I
54
V
40
UniProt
VAR_POL_HV1H2_040
*
K
543
R
POL_HV1H2
---
---
A/B
K
55
R
41
UniProt
VAR_POL_HV1H2_041
*
R
545
K
POL_HV1H2
---
---
A/B
R
57
K
42
UniProt
VAR_POL_HV1H2_042
*
Q
546
E
POL_HV1H2
---
---
A/B
Q
58
E
43
UniProt
VAR_POL_HV1H2_043
*
D
548
E
POL_HV1H2
---
---
A/B
D
60
E
44
UniProt
VAR_POL_HV1H2_044
*
Q
549
H
POL_HV1H2
---
---
A/B
Q
61
H
45
UniProt
VAR_POL_HV1H2_045
*
L
551
P
POL_HV1H2
---
---
A/B
L
63
P
46
UniProt
VAR_POL_HV1H2_046
*
L
551
T
POL_HV1H2
---
---
A/B
L
63
T
47
UniProt
VAR_POL_HV1H2_047
*
E
553
Q
POL_HV1H2
---
---
A/B
E
65
Q
48
UniProt
VAR_POL_HV1H2_048
*
I
554
F
POL_HV1H2
---
---
A/B
I
66
F
49
UniProt
VAR_POL_HV1H2_049
*
H
557
Y
POL_HV1H2
---
---
A/B
H
69
Y
50
UniProt
VAR_POL_HV1H2_050
*
A
559
I
POL_HV1H2
---
---
A/B
A
71
I
51
UniProt
VAR_POL_HV1H2_051
*
A
559
L
POL_HV1H2
---
---
A/B
A
71
L
52
UniProt
VAR_POL_HV1H2_052
*
A
559
T
POL_HV1H2
---
---
A/B
A
71
T
53
UniProt
VAR_POL_HV1H2_053
*
A
559
V
POL_HV1H2
---
---
A/B
A
71
V
54
UniProt
VAR_POL_HV1H2_054
*
G
561
S
POL_HV1H2
---
---
A/B
G
73
S
55
UniProt
VAR_POL_HV1H2_055
*
V
565
I
POL_HV1H2
---
---
A/B
V
77
I
56
UniProt
VAR_POL_HV1H2_056
*
V
570
A
POL_HV1H2
---
---
A/B
V
82
A
57
UniProt
VAR_POL_HV1H2_057
*
V
570
F
POL_HV1H2
---
---
A/B
V
82
F
58
UniProt
VAR_POL_HV1H2_058
*
V
570
I
POL_HV1H2
---
---
A/B
V
82
I
59
UniProt
VAR_POL_HV1H2_059
*
V
570
S
POL_HV1H2
---
---
A/B
V
82
S
60
UniProt
VAR_POL_HV1H2_060
*
V
570
T
POL_HV1H2
---
---
A/B
V
82
T
61
UniProt
VAR_POL_HV1H2_061
*
I
572
A
POL_HV1H2
---
---
A/B
I
84
A
62
UniProt
VAR_POL_HV1H2_062
*
I
572
V
POL_HV1H2
---
---
A/B
I
84
V
63
UniProt
VAR_POL_HV1H2_063
*
N
576
D
POL_HV1H2
---
---
A/B
N
88
D
64
UniProt
VAR_POL_HV1H2_064
*
N
576
S
POL_HV1H2
---
---
A/B
N
88
S
65
UniProt
VAR_POL_HV1H2_065
*
L
577
M
POL_HV1H2
---
---
A/B
L
89
M
66
UniProt
VAR_POL_HV1H2_066
*
L
578
M
POL_HV1H2
---
---
A/B
L
90
M
67
UniProt
VAR_POL_HV1H2_067
*
T
579
S
POL_HV1H2
---
---
A/B
T
91
S
68
UniProt
VAR_POL_HV1H2_068
*
I
581
L
POL_HV1H2
---
---
A/B
I
93
L
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: ASP_PROT_RETROV (A:20-89,B:20-89)
2: ASP_PROTEASE (A:22-33,B:22-33)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ASP_PROT_RETROV
PS50175
Aspartyl protease, retroviral-type family profile.
POL_HV1H2
508-577
2
A:20-89
B:20-89
2
ASP_PROTEASE
PS00141
Eukaryotic and viral aspartyl proteases active site.
POL_HV1H2
510-521
2
A:22-33
B:22-33
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1hiva_ (A:)
1b: SCOP_d1hivb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Acid proteases
(1120)
Superfamily
:
Acid proteases
(1120)
Family
:
Retroviral protease (retropepsin)
(591)
Protein domain
:
Human immunodeficiency virus type 1 protease
(514)
Human immunodeficiency virus type 1 [TaxId: 11676]
(424)
1a
d1hiva_
A:
1b
d1hivb_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1hivA00 (A:1-99)
1b: CATH_1hivB00 (B:1-99)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Cathepsin D, subunit A; domain 1
(745)
Homologous Superfamily
:
Acid Proteases
(745)
Human immunodeficiency virus 1. Organism_taxid: 11676.
(108)
1a
1hivA00
A:1-99
1b
1hivB00
B:1-99
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
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Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
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Asym.Unit (39 KB)
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