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3EKP
Asym. Unit
Info
Asym.Unit (82 KB)
Biol.Unit 1 (37 KB)
Biol.Unit 2 (37 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE INHIBITOR AMPRENAVIR (APV) IN COMPLEX WITH A MULTI-DRUG RESISTANT HIV-1 PROTEASE VARIANT (L10I/G48V/I54V/V64I/V82A)REFER: FLAP+ IN CITATION
Authors
:
M. Prabu-Jayabalan, N. M. King, R. M. Bandaranayake
Date
:
19 Sep 08 (Deposition) - 01 Sep 09 (Release) - 17 Oct 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Hiv-1, Protease, Multi-Drug Resistance, Amprenavir, Aids, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. M. King, M. Prabu-Jeyabalan, R. M. Bandaranayake, M. N. Nalam, E. A. Nalivaika, A. Ozen, N. K. Yilmaz, C. A. Schiffer
Extreme Entropy-Enthalpy Compensation In A Drug-Resistant Variant Of Hiv-1 Protease.
Acs Chem. Biol. V. 7 1536 2012
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Hetero Components
(3, 18)
Info
All Hetero Components
1a: {3-[(4-AMINO-BENZENESULFONYL)-ISOB... (478a)
1b: {3-[(4-AMINO-BENZENESULFONYL)-ISOB... (478b)
2a: ACETATE ION (ACTa)
2b: ACETATE ION (ACTb)
2c: ACETATE ION (ACTc)
2d: ACETATE ION (ACTd)
2e: ACETATE ION (ACTe)
2f: ACETATE ION (ACTf)
2g: ACETATE ION (ACTg)
2h: ACETATE ION (ACTh)
2i: ACETATE ION (ACTi)
2j: ACETATE ION (ACTj)
2k: ACETATE ION (ACTk)
2l: ACETATE ION (ACTl)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
3c: PHOSPHATE ION (PO4c)
3d: PHOSPHATE ION (PO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
478
2
Ligand/Ion
{3-[(4-AMINO-BENZENESULFONYL)-ISOBUTYL-AMINO]-1-BENZYL-2-HYDROXY-PROPYL}-CARBAMIC ACID TETRAHYDRO-FURAN-3-YLESTER
2
ACT
12
Ligand/Ion
ACETATE ION
3
PO4
4
Ligand/Ion
PHOSPHATE ION
[
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Sites
(18, 18)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:14 , GLY A:16 , GLY A:17 , PRO A:63 , HOH A:665 , MET D:46
BINDING SITE FOR RESIDUE PO4 A 501
02
AC2
SOFTWARE
THR A:12 , GLU A:65 , CYS A:67 , GLY A:68
BINDING SITE FOR RESIDUE ACT A 601
03
AC3
SOFTWARE
ALA A:71 , ILE A:72 , GLN A:92 , ARG C:8
BINDING SITE FOR RESIDUE ACT A 602
04
AC4
SOFTWARE
ARG A:8 , HOH A:668
BINDING SITE FOR RESIDUE ACT A 603
05
AC5
SOFTWARE
ASP A:25 , GLY A:27 , ALA A:28 , ASP A:30 , VAL A:32 , GLY A:49 , ILE A:50 , ILE A:84 , ASP B:25 , GLY B:27 , ALA B:28 , ASP B:30 , VAL B:32 , VAL B:48 , GLY B:49 , ILE B:50 , PRO B:81 , HOH B:666 , HOH B:670
BINDING SITE FOR RESIDUE 478 B 200
06
AC6
SOFTWARE
LYS B:7 , ARG B:8 , HOH B:658
BINDING SITE FOR RESIDUE PO4 B 502
07
AC7
SOFTWARE
ARG B:14 , GLY B:16 , GLY B:17 , PRO B:63 , HOH B:620
BINDING SITE FOR RESIDUE PO4 B 503
08
AC8
SOFTWARE
THR B:12 , ILE B:13 , ARG B:14 , LEU B:19 , GLU B:65 , ILE B:66 , CYS B:67 , GLY B:68
BINDING SITE FOR RESIDUE PO4 B 505
09
AC9
SOFTWARE
THR B:91 , GLN B:92 , HOH B:628 , GLU D:34 , ALA D:82 , ASN D:83
BINDING SITE FOR RESIDUE ACT B 604
10
BC1
SOFTWARE
ALA B:71 , ILE B:72 , GLN B:92 , HOH B:643 , ARG D:8
BINDING SITE FOR RESIDUE ACT B 605
11
BC2
SOFTWARE
GLY B:73 , THR B:74 , ASN B:88
BINDING SITE FOR RESIDUE ACT B 606
12
BC3
SOFTWARE
ASP C:25 , GLY C:27 , ALA C:28 , ASP C:30 , VAL C:32 , VAL C:48 , GLY C:49 , ILE C:50 , PRO C:81 , ILE C:84 , HOH C:683 , ASP D:25 , GLY D:27 , ALA D:28 , ASP D:30 , VAL D:32 , VAL D:48 , GLY D:49 , ILE D:50 , ILE D:84
BINDING SITE FOR RESIDUE 478 C 200
13
BC4
SOFTWARE
THR C:12 , ILE C:13 , ARG C:14 , GLU C:65 , CYS C:67 , GLY C:68
BINDING SITE FOR RESIDUE ACT C 601
14
BC5
SOFTWARE
THR A:91 , GLN A:92 , GLU C:34 , ALA C:82 , ASN C:83
BINDING SITE FOR RESIDUE ACT C 603
15
BC6
SOFTWARE
GLY A:68 , HIS A:69 , LYS A:70 , PRO C:81
BINDING SITE FOR RESIDUE ACT C 604
16
BC7
SOFTWARE
LYS C:7 , ARG C:8 , HOH C:624
BINDING SITE FOR RESIDUE ACT C 605
17
BC8
SOFTWARE
THR D:12 , GLU D:65 , ILE D:66 , CYS D:67 , GLY D:68
BINDING SITE FOR RESIDUE ACT D 602
18
BC9
SOFTWARE
ILE D:72 , GLY D:73 , THR D:74 , ASN D:88
BINDING SITE FOR RESIDUE ACT D 606
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: ASP_PROT_RETROV (A:20-89,B:20-89,C:20-89,D:20-89)
2: ASP_PROTEASE (A:22-33,B:22-33,C:22-33,D:22-33)
;
View:
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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_HV1A2
510-579
4
A:20-89
B:20-89
C:20-89
D:20-89
2
ASP_PROTEASE
PS00141
Eukaryotic and viral aspartyl proteases active site.
POL_HV1A2
512-523
4
A:22-33
B:22-33
C:22-33
D:22-33
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3ekpa_ (A:)
1b: SCOP_d3ekpb_ (B:)
1c: SCOP_d3ekpc_ (C:)
1d: SCOP_d3ekpd_ (D:)
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Protein Domains
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(
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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)
Hiv-1 m:b_arv2/sf2 [TaxId: 11685]
(17)
1a
d3ekpa_
A:
1b
d3ekpb_
B:
1c
d3ekpc_
C:
1d
d3ekpd_
D:
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_3ekpA00 (A:1-99)
1b: CATH_3ekpC00 (C:1-99)
1c: CATH_3ekpD00 (D:1-99)
1d: CATH_3ekpB00 (B:1-99)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Cathepsin D, subunit A; domain 1
(745)
Homologous Superfamily
:
Acid Proteases
(745)
Hiv-1 m:b_arv2/sf2. Hiv-1. Organism_taxid: 11685.
(4)
1a
3ekpA00
A:1-99
1b
3ekpC00
C:1-99
1c
3ekpD00
D:1-99
1d
3ekpB00
B:1-99
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Pfam Domains
(0, 0)
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all PFAM domains
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Chain D
Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (82 KB)
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