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Aliases for ABCF1 Gene

Aliases for ABCF1 Gene

  • ATP Binding Cassette Subfamily F Member 1 2 3 5
  • ATP-Binding Cassette, Sub-Family F (GCN20), Member 1 2 3
  • TNF-Alpha-Stimulated ABC Protein 3 4
  • ABC50 3 4
  • ATP-Binding Cassette 50 (TNF-Alpha Stimulated) 3
  • TNFalpha-Inducible ATP-Binding Protein 3
  • ATP-Binding Cassette 50 4
  • EC 3.6.3.17 63
  • EC 2.7.7.6 63
  • ABC27 3

External Ids for ABCF1 Gene

Previous HGNC Symbols for ABCF1 Gene

  • ABC50

Previous GeneCards Identifiers for ABCF1 Gene

  • GC06P030594
  • GC06P030309
  • GC06P030645
  • GC06P030647
  • GC06P030539
  • GC06P030339

Summaries for ABCF1 Gene

Entrez Gene Summary for ABCF1 Gene

  • The protein encoded by this gene is a member of the superfamily of ATP-binding cassette (ABC) transporters. ABC proteins transport various molecules across extra- and intra-cellular membranes. ABC genes are divided into seven distinct subfamilies (ABC1, MDR/TAP, MRP, ALD, OABP, GCN20, White). This protein is a member of the GCN20 subfamily. Unlike other members of the superfamily, this protein lacks the transmembrane domains which are characteristic of most ABC transporters. This protein may be regulated by tumor necrosis factor-alpha and play a role in enhancement of protein synthesis and the inflammation process. [provided by RefSeq, Jul 2008]

GeneCards Summary for ABCF1 Gene

ABCF1 (ATP Binding Cassette Subfamily F Member 1) is a Protein Coding gene. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and ABC-family proteins mediated transport. GO annotations related to this gene include poly(A) RNA binding and ribosome binding. An important paralog of this gene is ABCF3.

UniProtKB/Swiss-Prot for ABCF1 Gene

  • Isoform 2 is required for efficient Cap- and IRES-mediated mRNA translation initiation. Isoform 2 is not involved in the ribosome biogenesis.

Gene Wiki entry for ABCF1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ABCF1 Gene

Genomics for ABCF1 Gene

Regulatory Elements for ABCF1 Gene

Promoters for ABCF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around ABCF1 on UCSC Golden Path with GeneCards custom track

Genomic Location for ABCF1 Gene

Chromosome:
6
Start:
30,571,376 bp from pter
End:
30,597,179 bp from pter
Size:
25,804 bases
Orientation:
Plus strand

Genomic View for ABCF1 Gene

Genes around ABCF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ABCF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ABCF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for ABCF1 Gene

  • Protein details for ABCF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NE71-ABCF1_HUMAN
    Recommended name:
    ATP-binding cassette sub-family F member 1
    Protein Accession:
    Q8NE71
    Secondary Accessions:
    • A2BF75
    • O14897
    • Q69YP6

    Protein attributes for ABCF1 Gene

    Size:
    845 amino acids
    Molecular mass:
    95926 Da
    Quaternary structure:
    • Isoform 2 interacts (via N-terminus) with EIF2S1; the interaction is independent of its phosphorylated status. Isoform 2 associates (via both ABC transporter domains) with the ribosomes.

    Alternative splice isoforms for ABCF1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ABCF1 Gene

Proteomics data for ABCF1 Gene at MOPED

Selected DME Specific Peptides for ABCF1 Gene

Post-translational modifications for ABCF1 Gene

  • Isoform 2 is phosphorylated at phosphoserine and phosphothreonine. Isoform 2 phosphorylation on Ser-109 and Ser-140 by CK2; inhibits association of EIF2 with ribosomes.
  • Ubiquitination at Lys 39, Lys 451, Lys 573, Lys 582, and Lys 689
  • Modification sites at PhosphoSitePlus

Other Protein References for ABCF1 Gene

Antibody Products

Domains & Families for ABCF1 Gene

Gene Families for ABCF1 Gene

Protein Domains for ABCF1 Gene

Graphical View of Domain Structure for InterPro Entry

Q8NE71

UniProtKB/Swiss-Prot:

ABCF1_HUMAN :
  • Contains 2 ABC transporter domains.
  • Belongs to the ABC transporter superfamily. ABCF family. EF3 subfamily.
Domain:
  • Contains 2 ABC transporter domains.
Family:
  • Belongs to the ABC transporter superfamily. ABCF family. EF3 subfamily.
genes like me logo Genes that share domains with ABCF1: view

Function for ABCF1 Gene

Molecular function for ABCF1 Gene

GENATLAS Biochemistry:
ATP binding cassette superfamily,subfamily F (GCN20) member 1,widely expressed,putative ribosomal protein,involved in translation of mRNA,present in synoviocytes after TNFA induction,potentially involved in inflammatory process
UniProtKB/Swiss-Prot Function:
Isoform 2 is required for efficient Cap- and IRES-mediated mRNA translation initiation. Isoform 2 is not involved in the ribosome biogenesis.
UniProtKB/Swiss-Prot Induction:
By TNF in cultured synoviocytes.

Enzyme Numbers (IUBMB) for ABCF1 Gene

Gene Ontology (GO) - Molecular Function for ABCF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 17894550
GO:0016887 ATPase activity IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with ABCF1: view

Phenotypes for ABCF1 Gene

GenomeRNAi human phenotypes for ABCF1:
genes like me logo Genes that share phenotypes with ABCF1: view

Animal Model Products

miRNA for ABCF1 Gene

miRTarBase miRNAs that target ABCF1

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ABCF1 Gene

Localization for ABCF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ABCF1 Gene

Isoform 2: Cytoplasm. Nucleus, nucleoplasm. Nucleus envelope.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ABCF1 Gene COMPARTMENTS Subcellular localization image for ABCF1 gene
Compartment Confidence
cytosol 2

Gene Ontology (GO) - Cellular Components for ABCF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005635 nuclear envelope IEA --
GO:0005737 cytoplasm IDA 19570978
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with ABCF1: view

Pathways & Interactions for ABCF1 Gene

genes like me logo Genes that share pathways with ABCF1: view

Pathways by source for ABCF1 Gene

SIGNOR curated interactions for ABCF1 Gene

Other effect:

Gene Ontology (GO) - Biological Process for ABCF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006413 translational initiation IMP 19570978
GO:0008152 metabolic process IEA --
GO:0045727 positive regulation of translation IDA 19570978
genes like me logo Genes that share ontologies with ABCF1: view

Drugs & Compounds for ABCF1 Gene

(1) Drugs for ABCF1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0
genes like me logo Genes that share compounds with ABCF1: view

Transcripts for ABCF1 Gene

Unigene Clusters for ABCF1 Gene

ATP-binding cassette, sub-family F (GCN20), member 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for ABCF1 Gene

No ASD Table

Relevant External Links for ABCF1 Gene

GeneLoc Exon Structure for
ABCF1
ECgene alternative splicing isoforms for
ABCF1

Expression for ABCF1 Gene

mRNA expression in normal human tissues for ABCF1 Gene

Protein differential expression in normal tissues from HIPED for ABCF1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (14.4) and Lymph node (8.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MOPED, and MaxQB for ABCF1 Gene



SOURCE GeneReport for Unigene cluster for ABCF1 Gene Hs.655285

mRNA Expression by UniProt/SwissProt for ABCF1 Gene

Q8NE71-ABCF1_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with ABCF1: view

Protein tissue co-expression partners for ABCF1 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for ABCF1 Gene

Orthologs for ABCF1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for ABCF1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia ABCF1 35
  • 90.83 (n)
  • 96.78 (a)
ABCF1 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ABCF1 35
  • 90.24 (n)
  • 94.78 (a)
ABCF1 36
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Abcf1 35
  • 86.45 (n)
  • 92.02 (a)
Abcf1 16
Abcf1 36
  • 88 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia ABCF1 35
  • 99.38 (n)
  • 99.5 (a)
ABCF1 36
  • 97 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Abcf1 35
  • 85.83 (n)
  • 91.52 (a)
oppossum
(Monodelphis domestica)
Mammalia ABCF1 36
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ABCF1 36
  • 65 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ABCF1 36
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia abcf1 35
  • 73.09 (n)
  • 82.32 (a)
Str.1025 35
zebrafish
(Danio rerio)
Actinopterygii abcf1 35
  • 72.77 (n)
  • 81.68 (a)
abcf1 36
  • 71 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG1703 37
  • 65 (a)
CG1703 35
  • 63.18 (n)
  • 64.55 (a)
CG1703 36
  • 47 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea F18E2.2 37
  • 61 (a)
abcf-1 35
  • 58.84 (n)
  • 62.37 (a)
abcf-1 36
  • 56 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes GCN20 36
  • 29 (a)
OneToMany
-- 38
thale cress
(Arabidopsis thaliana)
eudicotyledons GCN4 35
  • 52.79 (n)
  • 50 (a)
rice
(Oryza sativa)
Liliopsida Os03g0441500 35
  • 55.93 (n)
  • 52.17 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 57 (a)
OneToOne
Species with no ortholog for ABCF1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for ABCF1 Gene

ENSEMBL:
Gene Tree for ABCF1 (if available)
TreeFam:
Gene Tree for ABCF1 (if available)

Paralogs for ABCF1 Gene

Paralogs for ABCF1 Gene

(2) SIMAP similar genes for ABCF1 Gene using alignment to 8 proteins:

genes like me logo Genes that share paralogs with ABCF1: view

Variants for ABCF1 Gene

Sequence variations from dbSNP and Humsavar for ABCF1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs6902544 - 30,580,433(+) TGGAC(A/G)ATGAA reference, missense
rs9671 -- 30,591,257(+) GCTGC(C/T)GAACT utr-variant-3-prime
rs732229 -- 30,577,164(-) gggat(C/T)atagc intron-variant
rs1044242 -- 30,591,042(+) TGCCT(C/T)TGATT utr-variant-3-prime
rs1264435 -- 30,587,558(-) tcctg(A/G)gttca intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ABCF1 Gene

Variant ID Type Subtype PubMed ID
esv2731791 CNV Deletion 23290073
nsv884086 CNV Gain 21882294
esv2670269 CNV Deletion 23128226
nsv884091 CNV Loss 21882294
nsv5244 CNV Loss 18451855
nsv830626 CNV Loss 17160897

Variation tolerance for ABCF1 Gene

Residual Variation Intolerance Score: 65.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.39; 54.13% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ABCF1 Gene

HapMap Linkage Disequilibrium report
ABCF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ABCF1 Gene

Disorders for ABCF1 Gene

Relevant External Links for ABCF1

Genetic Association Database (GAD)
ABCF1
Human Genome Epidemiology (HuGE) Navigator
ABCF1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ABCF1

No disorders were found for ABCF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ABCF1 Gene

Publications for ABCF1 Gene

  1. ABC50, a novel human ATP-binding cassette protein found in tumor necrosis factor-alpha-stimulated synoviocytes. (PMID: 9790762) Richard M. … Beaulieu A.D. (Genomics 1998) 2 3 4 67
  2. The N-terminal region of ABC50 interacts with eukaryotic initiation factor eIF2 and is a target for regulatory phosphorylation by CK2. (PMID: 17894550) Paytubi S. … Proud C.G. (Biochem. J. 2008) 3 23
  3. ABC50 mutants modify translation start codon selection. (PMID: 25597744) Stewart J.D. … Proud C.G. (Biochem. J. 2015) 3
  4. ABCE1 is a highly conserved RNA silencing suppressor. (PMID: 25659154) KAorblane K. … Sarmiento C. (PLoS ONE 2015) 3
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3

Products for ABCF1 Gene

Sources for ABCF1 Gene

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