PDBsum entry 8dch

Viral protein, hydrolase/inhibitor

PDB id: 8dch

Contents

Protein chains

99 a.a.

Ligands

G52

GOL

Metals

_CL ×2

Waters ×213

PDB id:

8dch

Name:

Viral protein, hydrolase/inhibitor

Title:

Crystal structure of a highly resistant HIV-1 protease clinical isolate pr10x with grl-0519 (tris-tetrahydrofuran as p2 ligand)

Structure:

Protease. Chain: a, b. Synonym: pr,retropepsin. Engineered: yes. Mutation: yes

Source:

Human immunodeficiency virus 1. Organism_taxid: 11676. Strain: clinical isolate pr76vmx. Gene: gag-pol. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008

Resolution:

1.25Å R-factor: not given

Authors:

A.E.Wong-Sam,Y.-F.Wang,I.T.Weber

Key ref:

A.Wong-Sam et al. (2022). Hiv-1 protease with 10 lopinavir and darunavir resist mutations exhibits altered inhibition, Structural rearrangements and extreme dynamics.. J mol graph model, 117, 08315. PubMed id: 36108568

Date:

16-Jun-22 Release date: 05-Oct-22

Protein chains

P03367  (POL_HV1BR) -  Gag-Pol polyprotein from Human immunodeficiency virus type 1 group M subtype B (isolate BRU/LAI)

Seq: 1447 a.a.

Struc: 99 a.a.*

* PDB and UniProt seqs differ at 23 residue positions (black crosses)

Enzyme reactions

• Enzyme class 1: E.C.2.7.7.49 - RNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 2: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 3: 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 4: E.C.3.1.26.13 - retroviral ribonuclease H.
• Enzyme class 5: 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