XRN1

Protein identityUniProt · HPA

UniProt accession

Q8IZH2

Gene

XRN1

Ensembl

ENSG00000114127

Chromosome

3

Canonical length

1706 aa

Protein class

Predicted intracellular proteins

Subcellular location

Plasma membrane,Cytosol

OverviewNCBI Gene

This gene encodes a member of the 5'-3' exonuclease family. The encoded protein may be involved in replication-dependent histone mRNA degradation, and interacts directly with the enhancer of mRNA-decapping protein 4. In addition to mRNA metabolism, a similar protein in yeast has been implicated in a variety of nuclear and cytoplasmic functions, including homologous recombination, meiosis, telomere maintenance, and microtubule assembly. Mutations in this gene are associated with osteosarcoma, suggesting that the encoded protein may also play a role in bone formation. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2013]

Canonical amino-acid sequenceUniProt

1706 residues, UniProt reviewed canonical sequence.

>Q8IZH2|XRN1
     1  MGVPKFYRWI SERYPCLSEV VKEHQIPEFD NLYLDMNGII HQCSHPNDDD VHFRISDDKI
    61  FTDIFHYLEV LFRIIKPRKV FFMAVDGVAP RAKMNQQRGR RFRSAKEAED KIKKAIEKGE
   121  TLPTEARFDS NCITPGTEFM ARLHEHLKYF VNMKISTDKS WQGVTIYFSG HETPGEGEHK
   181  IMEFIRSEKA KPDHDPNTRH CLYGLDADLI MLGLTSHEAH FSLLREEVRF GGKKTQRVCA
   241  PEETTFHLLH LSLMREYIDY EFSVLKEKIT FKYDIERIID DWILMGFLVG NDFIPHLPHL
   301  HINHDALPLL YGTYVTILPE LGGYINESGH LNLPRFEKYL VKLSDFDREH FSEVFVDLKW
   361  FESKVGNKYL NEAAGVAAEE ARNYKEKKKL KGQENSLCWT ALDKNEGEMI TSKDNLEDET
   421  EDDDLFETEF RQYKRTYYMT KMGVDVVSDD FLADQAACYV QAIQWILHYY YHGVQSWSWY
   481  YPYHYAPFLS DIHNISTLKI HFELGKPFKP FEQLLAVLPA ASKNLLPACY QHLMTNEDSP
   541  IIEYYPPDFK TDLNGKQQEW EAVVLIPFID EKRLLEAMET CNHSLKKEER KRNQHSECLM
   601  CWYDRDTEFI YPSPWPEKFP AIERCCTRYK IISLDAWRVD INKNKITRID QKALYFCGFP
   661  TLKHIRHKFF LKKSGVQVFQ QSSRGENMML EILVDAESDE LTVENVASSV LGKSVFVNWP
   721  HLEEARVVAV SDGETKFYLE EPPGTQKLYS GRTAPPSKVV HLGDKEQSNW AKEVQGISEH
   781  YLRRKGIIIN ETSAVVYAQL LTGRKYQINQ NGEVRLEKQW SKQVVPFVYQ TIVKDIRAFD
   841  SRFSNIKTLD DLFPLRSMVF MLGTPYYGCT GEVQDSGDVI TEGRIRVIFS IPCEPNLDAL
   901  IQNQHKYSIK YNPGYVLASR LGVSGYLVSR FTGSIFIGRG SRRNPHGDHK ANVGLNLKFN
   961  KKNEEVPGYT KKVGSEWMYS SAAEQLLAEY LERAPELFSY IAKNSQEDVF YEDDIWPGEN
  1021  ENGAEKVQEI ITWLKGHPVS TLSRSSCDLQ ILDAAIVEKI EEEVEKCKQR KNNKKVRVTV
  1081  KPHLLYRPLE QQHGVIPDRD AEFCLFDRVV NVRENFSVPV GLRGTIIGIK GANREADVLF
  1141  EVLFDEEFPG GLTIRCSPGR GYRLPTSALV NLSHGSRSET GNQKLTAIVK PQPAVHQHSS
  1201  SSSVSSGHLG ALNHSPQSLF VPTQVPTKDD DEFCNIWQSL QGSGKMQYFQ PTIQEKGAVL
  1261  PQEISQVNQH HKSGFNDNSV KYQQRKHDPH RKFKEECKSP KAECWSQKMS NKQPNSGIEN
  1321  FLASLNISKE NEVQSSHHGE PPSEEHLSPQ SFAMGTRMLK EILKIDGSNT VDHKNEIKQI
  1381  ANEIPVSSNR RDEYGLPSQP KQNKKLASYM NKPHSANEYH NVQSMDNMCW PAPSQIPPVS
  1441  TPVTELSRIC SLVGMPQPDF SFLRMPQTMT VCQVKLSNGL LVHGPQCHSE NEAKEKAALF
  1501  ALQQLGSLGM NFPLPSQVFA NYPSAVPPGT IPPAFPPPTG WDHYGSNYAL GAANIMPSSS
  1561  HLFGSMPWGP SVPVPGKPFH HTLYSGTMPM AGGIPGGVHN QFIPLQVTKK RVANKKNFEN
  1621  KEAQSSQATP VQTSQPDSSN IVKVSPRESS SASLKSSPIA QPASSFQVET ASQGHSISHH
  1681  KSTPISSSRR KSRKLAVNFG VSKPSE

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against XRN1 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)

0.38

Highest tissue expression

20 nTPM

Expression across tissuesHPA

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)

0.2

gnomAD pLI

1

gnomAD missense Z

2.11

DepMap mean gene effect

-0.77

DepMap dependency class

common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 8% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

• histone mRNA catabolic process
• negative regulation of telomere maintenance via telomerase
• negative regulation of translation
• nuclear mRNA surveillance
• nuclear-transcribed mRNA catabolic process
• response to testosterone
• rRNA catabolic process
• cellular response to cycloheximide
• cellular response to puromycin

Molecular functions

• 5'-3' RNA exonuclease activity
• G-quadruplex DNA binding
• G-quadruplex RNA binding
• RNA binding
• telomerase RNA binding

Cellular components

• cytosol
• dendrite
• membrane
• neuronal cell body
• nucleus
• P-body
• plasma membrane

Protein domainsUniProt · Pfam · InterPro

• Xrn1, N-terminal
• 5'-3' exoribonuclease
• Xrn1, helical domain
• XRN 5'-3' exonuclease N-terminus
• Xrn1 helical domain
• 5'-3' exoribonuclease 1
• 5'-3' exoribonuclease 1, D1 domain
• Exoribonuclease Xrn1, D2/D3 domain
• 5'-3' exoribonuclease 1, SH3-like domain
• 5'-3' exoribonuclease 1, D1 domain superfamily
• 5'-3' exoribonuclease 1, SH3-like domain superfamily
• Xrn1 SH3-like domain
• Exoribonuclease Xrn1 D1 domain
• Exoribonuclease Xrn1 D2/D3 domain

KeywordsUniProt

• Cytoplasm
• DNA-binding
• Exonuclease
• Hydrolase
• Nuclease
• Phosphoprotein
• RNA-binding
• Tumor suppressor

InteractionsUniProt · HPA

Protein binding partners of XRN1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

• DHX34
• DIS3L2
• TRIM71
• YTHDC2
• ZC3HAV1
• ZFP36L1
• AGO2
• ZFP36
• EDC4
• RPS16