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IKI3 Elongator subunit IKI3 [ Saccharomyces cerevisiae S288C ]

Gene ID: 851100, updated on 4-Jan-2025

Summary

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Official Symbol
IKI3
Official Full Name
Elongator subunit IKI3
Primary source
SGD:S000004376
Locus tag
YLR384C
See related
AllianceGenome:SGD:S000004376; FungiDB:YLR384C; VEuPathDB:YLR384C
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Saccharomyces cerevisiae S288C (strain: S288C)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as
ELP1; KTI7; TOT1
Summary
Enables tRNA binding activity. Involved in regulation of transcription by RNA polymerase II and tRNA wobble uridine modification. Located in cytoplasm and nucleus. Part of elongator holoenzyme complex. Used to study Riley-Day syndrome. Human ortholog(s) of this gene implicated in Riley-Day syndrome; asthma; kyphosis; medulloblastoma; and scoliosis. Orthologous to human ELP1 (elongator acetyltransferase complex subunit 1). [provided by Alliance of Genome Resources, Jan 2025]
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Genomic context

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See IKI3 in Genome Data Viewer
Location:
chromosome: XII
Exon count:
1
Sequence:
Chromosome: XII; NC_001144.5 (888851..892900, complement)

Chromosome XII - NC_001144.5Genomic Context describing neighboring genes Neighboring gene leucine--tRNA ligase NAM2 Neighboring gene DNA repair protein SMC6 Neighboring gene Swc7p Neighboring gene Vac14p

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_001144.5

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Isolation and genetic characterization of pGKL killer-insensitive mutants (iki) from Saccharomyces cerevisiae. Kishida M, et al. Biosci Biotechnol Biochem, 1996 May. PMID 8704309
  2. Characterization of IKI1 and IKI3 genes conferring pGKL killer sensitivity on Saccharomyces cerevisiae. Yajima H, et al. Biosci Biotechnol Biochem, 1997 Apr. PMID 9145530
  3. Mutations in ABO1/ELO2, a subunit of holo-Elongator, increase abscisic acid sensitivity and drought tolerance in Arabidopsis thaliana. Chen Z, et al. Mol Cell Biol, 2006 Sep. PMID 16943431, Free PMC Article
  4. Elongator function in tRNA wobble uridine modification is conserved between yeast and plants. Mehlgarten C, et al. Mol Microbiol, 2010 Jun 1. PMID 20398216, Free PMC Article
  5. Molecular basis of tRNA recognition by the Elongator complex. Dauden MI, et al. Sci Adv, 2019 Jul. PMID 31309145, Free PMC Article

See all (156) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. N-terminal truncation of Elp1p is not likely to regulate elongator complex activity.
    Title: Yeast Elongator protein Elp1p does not undergo proteolytic processing in exponentially growing cells.
  2. The formation of the Elp1 dimer contributes to its stability in vitro and in vivo and is required for the assembly of yeast Elongator complexes.
    Title: Dimerization of elongator protein 1 is essential for Elongator complex assembly.
  3. Thus the conserved basic region in Elp1 may be essential for tRNA wobble uridine modification by acting as tRNA binding motif.
    Title: A conserved and essential basic region mediates tRNA binding to the Elp1 subunit of the Saccharomyces cerevisiae Elongator complex.
  4. These data suggest that rather than directly targeting Elp1, the Hrr25 kinase indirectly affects Elp1 phosphorylation states through control of Sit4-dependent dephosphorylation of Elp1.
    Title: Elongator function depends on antagonistic regulation by casein kinase Hrr25 and protein phosphatase Sit4.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by SGD

Function Evidence Code Pubs
enables tRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables tRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in tRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA wobble base 5-methoxycarbonylmethyl-2-thiouridinylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in tRNA wobble uridine modification IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA wobble uridine modification IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of elongator holoenzyme complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of elongator holoenzyme complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of elongator holoenzyme complex IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Elongator subunit IKI3
NP_013488.3
  • Subunit of Elongator complex; Elongator is required for modification of wobble nucleosides in tRNA; maintains structural integrity of Elongator; homolog of human IKAP, mutations in which cause familial dysautonomia (FD)

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_001144.5 Reference assembly

    Range
    888851..892900 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001182273.3 → NP_013488.3  TPA: Elongator subunit IKI3 [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_013488.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6VZ19, O00036, Q06706
    UniProtKB/TrEMBL
    A7A1Q9
    Conserved Domains (2) summary
    COG5290
    Location:18 → 1348
    COG5290; IkappaB kinase complex, IKAP component [Transcription]
    sd00006
    Location:1004 → 1034
    TPR; TPR repeat [structural motif]
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q06706.1

Gene LinkOut

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