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rtcB RNA-splicing ligase [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947929, updated on 26-Mar-2025

Summary

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Official Symbol
rtcB
Official Full Name
RNA-splicing ligase
Primary source
ECOCYC:G7751
Locus tag
b3421
See related
ASAP:ABE-0011170
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as
ECK3407; yhgL
Summary
RtcB has similarity to proteins found in Eucarya, Bacteria, and Archaea . [More information is available at EcoCyc: G7751].
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Genomic context

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Sequence:
NC_000913.3 (3556853..3558079, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene DNA-binding transcriptional activator MalT Neighboring gene RNA 3'-terminal phosphate cyclase Neighboring gene DNA-binding transcriptional activator RtcR Neighboring gene pseudo Neighboring gene rhomboid protease GlpG

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Rewriting the rules for end joining via enzymatic splicing of DNA 3'-PO4 and 5'-OH ends. Das U, et al. Proc Natl Acad Sci U S A, 2013 Dec 17. PMID 24218597, Free PMC Article
  2. Sequential rescue and repair of stalled and damaged ribosome by bacterial PrfH and RtcB. Tian Y, et al. Proc Natl Acad Sci U S A, 2022 Jul 19. PMID 35858322, Free PMC Article
  3. The RNA ligase RtcB reverses MazF-induced ribosome heterogeneity in Escherichia coli. Temmel H, et al. Nucleic Acids Res, 2017 May 5. PMID 27789694, Free PMC Article
  4. RNA ligase RtcB splices 3'-phosphate and 5'-OH ends via covalent RtcB-(histidinyl)-GMP and polynucleotide-(3')pp(5')G intermediates. Chakravarty AK, et al. Proc Natl Acad Sci U S A, 2012 Apr 17. PMID 22474365, Free PMC Article
  5. Characterization of the Escherichia coli RNA 3'-terminal phosphate cyclase and its sigma54-regulated operon. Genschik P, et al. J Biol Chem, 1998 Sep 25. PMID 9738023

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Sequential rescue and repair of stalled and damaged ribosome by bacterial PrfH and RtcB.
    Title: Sequential rescue and repair of stalled and damaged ribosome by bacterial PrfH and RtcB.
  2. our findings not only provide a physiological function for the RNA ligase RtcB in bacteria but highlight the reversibility of ribosome heterogeneity, a crucial but hitherto undescribed concept for translational regulation.
    Title: The RNA ligase RtcB reverses MazF-induced ribosome heterogeneity in Escherichia coli.
  3. Data show that RtcB seals broken RNAs with 3'-phosphate and 5'-OH ends.
    Title: RNA ligase RtcB splices 3'-phosphate and 5'-OH ends via covalent RtcB-(histidinyl)-GMP and polynucleotide-(3')pp(5')G intermediates.
  4. RtcB, a novel RNA ligase, can catalyze tRNA splicing and HAC1 mRNA splicing in vivo
    Title: RtcB, a novel RNA ligase, can catalyze tRNA splicing and HAC1 mRNA splicing in vivo.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables DNA ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables GTP binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA ligase (GTP) activity IEA
Inferred from Electronic Annotation
more info
  
enables ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables manganese ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in DNA damage response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in DNA repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA repair IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in RNA processing IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in RNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within RNA repair EXP
Inferred from Experiment
more info
 PubMed 
involved_in RNA repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in RNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in RNA repair TAS
Traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
RNA-splicing ligase
NP_417879.1

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_000913.3 Reference assembly

    Range
    3556853..3558079 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417879.1 RNA-splicing ligase [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417879.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A376CXY1, A0A8T6Q6W5
    Conserved Domains (1) summary
    pfam01139
    Location:29 → 408
    RtcB; tRNA-splicing ligase RtcB
Nucleotide Protein
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