HIV Recipe and Ingredient Parameters and Resources: Surface Ingredients | | Data sources | Category | Gene | Key Role | Reference | Notes | Spike | Surface protein gp120 (SU) & Transmembrane protein gp41 (TM) | Custom | Structural | env gp120 env gp41 | Membrane binding & penetration | | | MA | p17 Matrix protein | Custom | Structural | gag p17 | Budding | | | Nef | Negative regulatory factor | Custom | Accessory | | Regulation | | | Vpu | Viral Protein U | 1pi7+1vpu | Accessory | | | | | | | | | | | | | Matrix Ingredients | | | | | | | | Vif | Viral Infectivity Factor | 3dcg bio2 | Accessory | | Regulation | | | Vpr | Viral protein r | 1esx | Accessory | | Transactivation | | | RT | Reverse transcriptase | 1hys–chainB | Viral enzyme | pol | Uses viralRNA to make hostCell-compatibleDNA | | | IN | Integrase | 1ex4 | Viral enzyme | pol | Inserts ViralDNA from RT into hostCell genome. Dormancy time-bomb | | | PR | HIV protease | 1hpv | Viral enzyme | pol | Viral maturation: cuts one long gene product, gag-pol) produced during the HIV-RNA to HostDNA transcription/translation cycle into many small functional proteins. Including dimerization with a neighbor and removal of itself from this long chain. | | | p6 | | | | | Budding and Vpr recruitment, ¿RNA binding? | | | | | | | | | | | NucleoCapsid Ingredients | | | | | | | | CA | p24 Capsid protein (same gene/protein, makes a 6mer & 5mer to form the cone) | | | gag p24 | RNA delivery | | | CA6 | Capsid protein hexametric | 3h47 | Structural Protein | | | Yeager notes | | CA5 | Capsid protein pentameric | 3p05 | Structural Protein | | | Yeager notes | | NC | Nucleocapsid protein | 1a1t | Structural Protein | gag p7 | RNA protection | | | Tat | | | | | Transactivation: upregulates transcription of HIV dsDNA with explosive (+)feedback loop. | | | Rev | | | | | Transactivation | | | | | | | | | | | Uncategorized | | | | | | | | SP1 | Spacer peptide 1 | | | gag p2 | | | | SP2 | Spacer peptide 2 | | | gag p1 | | | | Tev | Similar to Tat, HIV-1 only | | | tat/env/rev | | | | | | | | | | | | Host Proteins | | | | | | | | HLA | | | | | | | | ICAM | | | | | | | | CD55 | | | | | | | | Actin | | | | | | | | Cyclophilin | | | | | | | |
Note: Many proteins will be found in both compartments including excess copies of the nuclear Capsid protein as well as RT and IN bound to the RNA.
gag– called "assemblin", the gag precursor p55 myristoylated protein is processed into p17 (MAtrix), p7 (NucleoCapsid), and p6 protein by viral protease. pol– encodes the viral enzymes protease, reverse transcriptase, and integrate produces as a gag-pol precursor polyprotein which is then processed by the viral protease env http://www.callutheran.edu/BioDev/omm/exhibits.htm
A beautiful and useful visual reference:
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