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PDF peptide deformylase, mitochondrial [ Homo sapiens (human) ]

Gene ID: 64146, updated on 11-Sep-2019

Summary

Official Symbol
PDFprovided by HGNC
Official Full Name
peptide deformylase, mitochondrialprovided by HGNC
Primary source
HGNC:HGNC:30012
See related
Ensembl:ENSG00000258429
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Protein synthesis proceeds after formylation of methionine by methionyl-tRNA formyl transferase (FMT) and transfer of the charged initiator f-met tRNA to the ribosome. In eubacteria and eukaryotic organelles the product of this gene, peptide deformylase (PDF), removes the formyl group from the initiating methionine of nascent peptides. In eubacteria, deformylation of nascent peptides is required for subsequent cleavage of initiating methionines by methionine aminopeptidase. The discovery that a natural inhibitor of PDF, actinonin, acts as an antimicrobial agent in some bacteria has spurred intensive research into the design of bacterial-specific PDF inhibitors. In human cells, only mitochondrial proteins have N-formylation of initiating methionines. Protein inhibitors of PDF or siRNAs of PDF block the growth of cancer cell lines but have no effect on normal cell growth. In humans, PDF function may therefore be restricted to rapidly growing cells. [provided by RefSeq, Nov 2008]
Expression
Ubiquitous expression in kidney (RPKM 13.2), testis (RPKM 10.1) and 25 other tissues See more
Orthologs

Genomic context

See PDF in Genome Data Viewer
Location:
16q22.1
Exon count:
2
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (69326913..69330588, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (69362524..69364498, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 22, pseudogene Neighboring gene syntrophin beta 2 Neighboring gene zinc finger CCHC-type and RNA binding motif containing 1 pseudogene Neighboring gene vacuolar protein sorting 4 homolog A Neighboring gene component of oligomeric golgi complex 8 Neighboring gene nucleolar pre-rRNA processing protein NIP7 Neighboring gene transmembrane p24 trafficking protein 6

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
peptide deformylase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptide deformylase activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
N-terminal protein amino acid modification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
N-terminal protein amino acid modification IDA
Inferred from Direct Assay
more info
PubMed 
co-translational protein modification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-methionine modification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-methionine modification IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
translation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
peptide deformylase, mitochondrial
Names
peptide deformylase-like protein
polypeptide deformylase
NP_071736.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_033043.1 RefSeqGene

    Range
    5008..8683
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_022341.2NP_071736.1  peptide deformylase, mitochondrial precursor

    See identical proteins and their annotated locations for NP_071736.1

    Status: REVIEWED

    Source sequence(s)
    AC026464, AF239156
    Consensus CDS
    CCDS10875.1
    UniProtKB/Swiss-Prot
    Q9HBH1
    UniProtKB/TrEMBL
    A0A024R6Y3
    Related
    ENSP00000288022.1, ENST00000288022.2
    Conserved Domains (1) summary
    cd00487
    Location:67224
    Pep_deformylase; Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II) ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    69326913..69330588 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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