HAMAP logo

HAMAP rule MF_00846

Send feedback

General rule information [?]

Accession MF_00846
Dates 18-NOV-2019 (Created)
17-FEB-2023 (Last updated, Version 6)
Name VmlR
Bacteria; Actinomycetota
Bacteria; Bacillota
Bacteria; Mycoplasmatota
Template P39115 (VMLR_BACSU)

Propagated annotation [?]

Identifier, protein and gene names [?]

Protein name
RecName: Full=Ribosome protection protein VmlR;
Gene name

Comments [?]

Function Recognizes and binds in the vacant E-site of ribosomes stalled by some peptidyltransferase center (PTC)-targeting antibiotics. Makes contact with the PTC and both ribosomal subunits. Induces conformational changes in the P-site, which allows it to dislodge the antibiotic from its PTC binding site.
Subunit Binds within the E-site of the 70S ribosome, where it contacts ribosomal proteins of the large and small subunit, the 16 and 23S rRNAs and the acceptor arm of the P-site tRNA.
Subcellular location Cytoplasm. Note=Does not stably associate with ribosomes.
Domain The antibiotic resistance domain (ARD) is packed between the 23S rRNA and the acceptor arm of the P-site tRNA and inserts into the peptidyltransferase center (PTC). The C-terminal extension (CTE) contacts the small ribosomal subunit, positioned in the Shine-Dalgarno-anti-Shine-Dalgarno cavity.
Similarity Belongs to the ABC transporter superfamily. ABCF family. ARE2 subfamily.

Keywords [?]

Gene Ontology [?]

GO:0005524; Molecular function: ATP binding.
GO:0005737; Cellular component: cytoplasm.
GO:0072344; Biological process: rescue of stalled ribosome.
GO:0019843; Molecular function: rRNA binding.
GO:0000049; Molecular function: tRNA binding.

Cross-references [?]

Pfam PF00005; ABC_tran; 3;
PF12848; ABC_tran_Xtn; 1;

Computed features [?]

General Coiled_coil; -; 0-unlimited; trigger=yes;

Features [?]

From: VMLR_BACSU (P39115)
Key     From     To       Description   Tag   Condition   FTGroup
DOMAIN     5     200       ABC transporter 1        
DOMAIN     292     504       ABC transporter 2        
BINDING     37     44       /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" /ligand_label="1     G-x-N-G-[ATV]-G-K-[ST]  
BINDING     324     331       /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" /ligand_label="2     G-x-N-G-[SICA]-G-K-[TS]  
REGION     183     289       Antibiotic resistance domain (ARD)        
REGION     483     547       C-terminal extension (CTE)        

Additional information [?]

Size range 530-560 amino acids
Related rules None
Fusion None