2j9j
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 2j9j |SIZE=350|CAPTION= <scene name='initialview01'>2j9j</scene>, resolution 1.04Å | |PDB= 2j9j |SIZE=350|CAPTION= <scene name='initialview01'>2j9j</scene>, resolution 1.04Å | ||
|SITE= <scene name='pdbsite=AC1:Act+Binding+Site+For+Chain+B'>AC1</scene> | |SITE= <scene name='pdbsite=AC1:Act+Binding+Site+For+Chain+B'>AC1</scene> | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=ABA:ALPHA-AMINOBUTYRIC+ACID'>ABA</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene>, <scene name='pdbligand=PHM:PHENYLALANYLMETHANE'>PHM</scene>, <scene name='pdbligand=SLZ:L-THIALYSINE'>SLZ</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=VME:METHYL+L-VALINATE'>VME</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2j9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2j9j OCA], [http://www.ebi.ac.uk/pdbsum/2j9j PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2j9j RCSB]</span> | ||
}} | }} | ||
| Line 26: | Line 29: | ||
[[Category: Shen, Y.]] | [[Category: Shen, Y.]] | ||
[[Category: Tang, W J.]] | [[Category: Tang, W J.]] | ||
| - | [[Category: ACT]] | ||
| - | [[Category: GOL]] | ||
| - | [[Category: SO4]] | ||
[[Category: aspartyl protease]] | [[Category: aspartyl protease]] | ||
[[Category: crystallography]] | [[Category: crystallography]] | ||
| Line 37: | Line 37: | ||
[[Category: rna-directed dna polymerase]] | [[Category: rna-directed dna polymerase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:54:58 2008'' |
Revision as of 00:54, 31 March 2008
| |||||||
| , resolution 1.04Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | |||||||
| Ligands: | , , , , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
ATOMIC-RESOLUTION CRYSTAL STRUCTURE OF CHEMICALLY-SYNTHESIZED HIV-1 PROTEASE COMPLEXED WITH INHIBITOR JG-365
Overview
The human immunodeficiency virus 1 (HIV-1) protease (PR) is an aspartyl protease essential for HIV-1 viral infectivity. HIV-1 PR has one catalytic site formed by the homodimeric enzyme. We chemically synthesized fully active HIV-1 PR using modern ligation methods. When complexed with the classic substrate-derived inhibitors JG-365 and MVT-101, the synthetic HIV-1 PR formed crystals that diffracted to 1.04- and 1.2-A resolution, respectively. These atomic-resolution structures revealed additional structural details of the HIV-1 PR's interactions with its active site ligands. Heptapeptide inhibitor JG-365, which has a hydroxyethylamine moiety in place of the scissile bond, binds in two equivalent antiparallel orientations within the catalytic groove, whereas the reduced isostere hexapeptide MVT-101 binds in a single orientation. When JG-365 was converted into the natural peptide substrate for molecular dynamic simulations, we found putative catalytically competent reactant states for both lytic water and direct nucleophilic attack mechanisms. Moreover, free energy perturbation calculations indicated that the insertion of catalytic water into the catalytic site is an energetically favorable process.
About this Structure
2J9J is a Protein complex structure of sequences from Human immunodeficiency virus 1. Full crystallographic information is available from OCA.
Reference
Insights from atomic-resolution X-ray structures of chemically synthesized HIV-1 protease in complex with inhibitors., Johnson EC, Malito E, Shen Y, Pentelute B, Rich D, Florian J, Tang WJ, Kent SB, J Mol Biol. 2007 Oct 26;373(3):573-86. Epub 2007 Aug 2. PMID:17869270
Page seeded by OCA on Mon Mar 31 03:54:58 2008
