P04586 · POL_HV1Z6

Function

function

Integrase

Catalyzes viral DNA integration into the host chromosome, by performing a series of DNA cutting and joining reactions. This enzyme activity takes place after virion entry into a cell and reverse transcription of the RNA genome in dsDNA. The first step in the integration process is 3' processing. This step requires a complex comprising the viral genome, matrix protein, Vpr and integrase. This complex is called the pre-integration complex (PIC). The integrase protein removes 2 nucleotides from each 3' end of the viral DNA, leaving recessed CA OH's at the 3' ends. In the second step, the PIC enters cell nucleus. This process is mediated through integrase and Vpr proteins, and allows the virus to infect a non dividing cell. This ability to enter the nucleus is specific of lentiviruses, other retroviruses cannot and rely on cell division to access cell chromosomes. In the third step, termed strand transfer, the integrase protein joins the previously processed 3' ends to the 5' ends of strands of target cellular DNA at the site of integration. The 5'-ends are produced by integrase-catalyzed staggered cuts, 5 bp apart. A Y-shaped, gapped, recombination intermediate results, with the 5'-ends of the viral DNA strands and the 3' ends of target DNA strands remaining unjoined, flanking a gap of 5 bp. The last step is viral DNA integration into host chromosome. This involves host DNA repair synthesis in which the 5 bp gaps between the unjoined strands are filled in and then ligated. Since this process occurs at both cuts flanking the HIV genome, a 5 bp duplication of host DNA is produced at the ends of HIV-1 integration. Alternatively, Integrase may catalyze the excision of viral DNA just after strand transfer, this is termed disintegration.

Features

Showing features for binding site, dna binding.

TypeIDPosition(s)Description
Binding site12Mg2+ (UniProtKB | ChEBI); catalytic; for integrase activity
DNA binding83-130Integrase-type

GO annotations

AspectTerm
Molecular FunctionDNA binding
Molecular Functionendonuclease activity
Molecular Functionlipid binding
Molecular Functionmetal ion binding
Molecular Functionnucleotidyltransferase activity
Biological ProcessDNA integration
Biological ProcessDNA recombination
Biological Processestablishment of integrated proviral latency
Biological Processsymbiont entry into host cell
Biological Processsymbiont-mediated suppression of host gene expression
Biological Processviral genome integration into host DNA

Keywords

Protein family/group databases

Names & Taxonomy

Protein names

Gene names

    • Name
      gag-pol

Organism names

Accessions

  • Primary accession
    P04586

Phenotypes & Variants

Keywords

PTM/Processing

Features

Showing features for chain.

TypeIDPosition(s)Description
ChainPRO_00002612891-148Gag-Pol polyprotein
ChainPRO_00000424481-148Integrase

Post-translational modification

Specific enzymatic cleavages by the viral protease yield mature proteins.

Interaction

Subunit

Integrase

Homotetramer; may further associate as a homohexadecamer (By similarity).
Part of the pre-integration complex (PIC) which is composed of viral genome, matrix protein, Vpr and integrase. Interacts with human SMARCB1/INI1 and human PSIP1/LEDGF isoform 1. Interacts with human KPNA3; this interaction might play a role in nuclear import of the pre-integration complex (By similarity).
Interacts with human NUP153; this interaction might play a role in nuclear import of the pre-integration complex (By similarity).

Structure

Family & Domains

Features

Showing features for domain.

TypeIDPosition(s)Description
Domain1-64Integrase catalytic

Family and domain databases

Sequence

  • Sequence status
    Fragment
  • Length
    148
  • Mass (Da)
    16,840
  • Last updated
    1987-08-13 v1
  • Checksum
    A0DD31618CF0FC0E
IPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIIDIIATDIQTKELQKQITKIQNFRVYYRDSRDPIWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKVKIIRDYGKQMAGDDCVASRQDED

Features

Showing features for non-terminal residue.

TypeIDPosition(s)Description
Non-terminal residue1

Keywords

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
K03458
EMBL· GenBank· DDBJ
AAA45376.1
EMBL· GenBank· DDBJ
Genomic RNA

Similar Proteins

Disclaimer

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