Seroatlas · Human Serome Atlas

UPF2

Regulator of nonsense transcripts 2

Also known as: DKFZP434D222, KIAA1408, RENT2, RENT2_HUMAN, smg-3

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: Q9HAU5
Gene: UPF2
Ensembl: ENSG00000151461
Chromosome: 10
Canonical length: 1272 aa
Protein class: Plasma proteins, Predicted intracellular proteins
Subcellular location: Cytosol,Cytoplasmic bodies

OverviewNCBI Gene

This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein is located in the perinuclear area. It interacts with translation release factors and the proteins that are functional homologs of yeast Upf1p and Upf3p. Two splice variants have been found for this gene; both variants encode the same protein. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

1272 residues, UniProt reviewed canonical sequence.

>Q9HAU5|UPF2
     1  MPAERKKPAS MEEKDSLPNN KEKDCSERRT VSSKERPKDD IKLTAKKEVS KAPEDKKKRL
    61  EDDKRKKEDK ERKKKDEEKV KAEEESKKKE EEEKKKHQEE ERKKQEEQAK RQQEEEAAAQ
   121  MKEKEESIQL HQEAWERHHL RKELRSKNQN APDSRPEENF FSRLDSSLKK NTAFVKKLKT
   181  ITEQQRDSLS HDFNGLNLSK YIAEAVASIV EAKLKISDVN CAVHLCSLFH QRYADFAPSL
   241  LQVWKKHFEA RKEEKTPNIT KLRTDLRFIA ELTIVGIFTD KEGLSLIYEQ LKNIINADRE
   301  SHTHVSVVIS FCRHCGDDIA GLVPRKVKSA AEKFNLSFPP SEIISPEKQQ PFQNLLKEYF
   361  TSLTKHLKRD HRELQNTERQ NRRILHSKGE LSEDRHKQYE EFAMSYQKLL ANSQSLADLL
   421  DENMPDLPQD KPTPEEHGPG IDIFTPGKPG EYDLEGGIWE DEDARNFYEN LIDLKAFVPA
   481  ILFKDNEKSC QNKESNKDDT KEAKESKENK EVSSPDDLEL ELENLEINDD TLELEGGDEA
   541  EDLTKKLLDE QEQEDEEAST GSHLKLIVDA FLQQLPNCVN RDLIDKAAMD FCMNMNTKAN
   601  RKKLVRALFI VPRQRLDLLP FYARLVATLH PCMSDVAEDL CSMLRGDFRF HVRKKDQINI
   661  ETKNKTVRFI GELTKFKMFT KNDTLHCLKM LLSDFSHHHI EMACTLLETC GRFLFRSPES
   721  HLRTSVLLEQ MMRKKQAMHL DARYVTMVEN AYYYCNPPPA EKTVKKKRPP LQEYVRKLLY
   781  KDLSKVTTEK VLRQMRKLPW QDQEVKDYVI CCMINIWNVK YNSIHCVANL LAGLVLYQED
   841  VGIHVVDGVL EDIRLGMEVN QPKFNQRRIS SAKFLGELYN YRMVESAVIF RTLYSFTSFG
   901  VNPDGSPSSL DPPEHLFRIR LVCTILDTCG QYFDRGSSKR KLDCFLVYFQ RYVWWKKSLE
   961  VWTKDHPFPI DIDYMISDTL ELLRPKIKLC NSLEESIRQV QDLEREFLIK LGLVNDKDSK
  1021  DSMTEGENLE EDEEEEEGGA ETEEQSGNES EVNEPEEEEG SDNDDDEGEE EEEENTDYLT
  1081  DSNKENETDE ENTEVMIKGG GLKHVPCVED EDFIQALDKM MLENLQQRSG ESVKVHQLDV
  1141  AIPLHLKSQL RKGPPLGGGE GEAESADTMP FVMLTRKGNK QQFKILNVPM SSQLAANHWN
  1201  QQQAEQEERM RMKKLTLDIN ERQEQEDYQE MLQSLAQRPA PANTNRERRP RYQHPKGAPN
  1261  ADLIFKTGGR RR

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against UPF2 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.39
Highest tissue expression: 21 nTPM

Expression across tissuesHPA

Tissue

skeletal muscle: 21 nTPM
thymus: 20 nTPM
tongue: 20 nTPM
bone marrow: 20 nTPM
testis: 18 nTPM
lymph node: 18 nTPM

Single-cell type

neutrophils: 282 nCPM
early primary spermatocytes: 258 nCPM
sertoli cells: 243 nCPM
hematopoietic stem cells: 225 nCPM
erythrocyte progenitors: 206 nCPM
neutrophil progenitors: 197 nCPM

Immune cell

neutrophil: 30 nTPM
basophil: 14 nTPM
plasmacytoid DC: 12 nTPM
memory B-cell: 11 nTPM
naive B-cell: 11 nTPM
eosinophil: 10 nTPM

Brain region

cerebellum: 26 nTPM
cerebral cortex: 21 nTPM
hypothalamus: 21 nTPM
basal ganglia: 21 nTPM
white matter: 20 nTPM
choroid plexus: 19 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance): 0.1
gnomAD pLI: 1
gnomAD missense Z: 3.19
DepMap mean gene effect: -1.35
DepMap dependency class: pan

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 7% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

MIF4G-like, type 3
Armadillo-type fold
MIF4G domain
Up-frameshift suppressor 2, C-terminal
Nonsense-mediated mRNA decay protein Nmd2/UPF2
Up-frameshift suppressor 2

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of UPF2 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads UPF2 as an antibody target. Whether an autoantibody or antibody against UPF2 could matter depends on whether native UPF2 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

UPF2 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label UPF2 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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