PDBsum entry 6t6e

Viral protein

PDB id: 6t6e

Contents

Protein chain

56 a.a.

Metals

_NI

Waters ×68

PDB id:

6t6e

Name:

Viral protein

Title:

Crystal structure of thE C-terminal domain of the HIV-1 integrase (pnl4-3)

Structure:

Pol protein. Chain: a. Engineered: yes

Source:

Human immunodeficiency virus 1. Organism_taxid: 11676. Gene: pol. Expressed in: escherichia coli. Expression_system_taxid: 562

Resolution:

1.30Å R-factor: 0.180 R-free: 0.219

Authors:

M.Ruff,M.Negroni

Key ref:

m.ruff and m.negroni (2020). NKNK: a New Essential Motif in the C-Terminal Domain of HIV-1 Group M Integrases. J.Virol., 94, . PubMed id: 32727879

Date:

18-Oct-19 Release date: 22-Jul-20

Protein chain

P12497  (POL_HV1N5) -  Gag-Pol polyprotein from Human immunodeficiency virus type 1 group M subtype B (isolate NY5)

Seq: 1435 a.a.

Struc: 56 a.a.*

* PDB and UniProt seqs differ at 5 residue positions (black crosses)

Enzyme reactions

• Enzyme class 1: E.C.2.7.7.- - ?????
• Enzyme class 2: E.C.2.7.7.49 - RNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 3: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 4: E.C.3.1.-.-
• Enzyme class 5: E.C.3.1.13.2 - exoribonuclease H.
• Reaction: Exonucleolytic cleavage to 5'-phosphomonoester oligonucleotides in both 5'- to 3'- and 3'- to 5'-directions.
• Enzyme class 6: E.C.3.1.26.13 - retroviral ribonuclease H.
• Enzyme class 7: E.C.3.4.23.16 - HIV-1 retropepsin.
• Reaction: Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro.

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

J.Virol. 94: (2020)

PubMed id: 32727879

NKNK: a New Essential Motif in the C-Terminal Domain of HIV-1 Group M Integrases.

m.ruff, m.negroni.

ABSTRACT

No abstract given.