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Protein

5'-3' exoribonuclease 1

Gene

Xrn1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Major 5'-3' exoribonuclease involved in mRNA decay. Required for the 5'-3'-processing of the G4 tetraplex-containing DNA and RNA substrates. The kinetic of hydrolysis is faster for G4 RNA tetraplex than for G4 DNA tetraplex and monomeric RNA tetraplex. Binds to RNA and DNA. Plays a role in replication-dependent histone mRNA degradation (By similarity).By similarity1 Publication

GO - Molecular functioni

  • 5'-3' exoribonuclease activity Source: UniProtKB
  • DNA binding Source: UniProtKB-KW
  • poly(A) RNA binding Source: MGI

GO - Biological processi

  • cell aging Source: UniProtKB
  • histone mRNA catabolic process Source: UniProtKB
  • meiotic nuclear division Source: UniProtKB
  • nuclear mRNA surveillance Source: MGI
  • nuclear-transcribed mRNA catabolic process Source: MGI
  • RNA processing Source: UniProtKB
  • rRNA catabolic process Source: MGI
  • telomere maintenance Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Hydrolase, Nuclease

Keywords - Ligandi

DNA-binding, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
5'-3' exoribonuclease 1 (EC:3.1.13.-)
Short name:
mXRN1
Alternative name(s):
Protein Dhm2
Strand-exchange protein 1 homolog
Gene namesi
Name:Xrn1
Synonyms:Dhm2, Exo, Sep1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:891964. Xrn1.

Subcellular locationi

  • Cytoplasm 1 Publication

  • Note: Discrete foci at the inner surface of the cell membrane.

GO - Cellular componenti

  • cytoplasm Source: UniProtKB
  • cytoplasmic mRNA processing body Source: MGI
  • Golgi apparatus Source: MGI
  • intermediate filament cytoskeleton Source: MGI
  • membrane Source: MGI
  • nucleus Source: GOC
  • plasma membrane Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 171917195'-3' exoribonuclease 1PRO_0000071393Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1382 – 13821PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP97789.
PaxDbiP97789.
PeptideAtlasiP97789.
PRIDEiP97789.

PTM databases

iPTMnetiP97789.
PhosphoSiteiP97789.

Expressioni

Tissue specificityi

Expressed in heart, brain (spinal cord, dorsal root and superior cervical ganglia, neurons of the cerebrum and brain stem), peripheral nerve fibers in the skin and intestine, spleen, lung, liver, skeletal muscle, kidney and testis.3 Publications

Developmental stagei

Expressed in embryo between 7 and 17 dpc.1 Publication

Gene expression databases

CleanExiMM_XRN1.

Interactioni

Subunit structurei

Found in a mRNP complex with UPF1, UPF2, UPF3B and XRN1. Interacts with DIS3L2 (By similarity). Associates with alpha and beta tubulins. Interacts with ZC3HAV1 in an RNA-dependent manner (By similarity).By similarity

Protein-protein interaction databases

IntActiP97789. 1 interaction.
STRINGi10090.ENSMUSP00000034981.

Structurei

3D structure databases

ProteinModelPortaliP97789.
SMRiP97789. Positions 1-354, 433-600.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the 5'-3' exonuclease family.Curated

Phylogenomic databases

eggNOGiKOG2044. Eukaryota.
KOG2045. Eukaryota.
COG5049. LUCA.
HOGENOMiHOG000154879.
HOVERGENiHBG094164.
InParanoidiP97789.
PhylomeDBiP97789.

Family and domain databases

InterProiIPR027073. 5_3_exoribonuclease.
IPR004859. Put_53exo.
[Graphical view]
PANTHERiPTHR12341. PTHR12341. 3 hits.
PfamiPF03159. XRN_N. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P97789-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MGVPKFYRWI SERYPCLSEV VKEHQIPEFD NLYLDMNGII HQCSHPNDDD
60 70 80 90 100
VHFRISDDKI FTDIFHYLEV LFRIIKPRKV FFMAVDGVAP RAKMNQQRGR
110 120 130 140 150
RFRSAKEAED KIKKAIEKGE TLPTEARFDS NCITPGTEFM ARLHEHLKYF
160 170 180 190 200
VNMKISTDKS WQGVTIYFSG HETPGEGEHK IMEFIRSEKA KPDHDPNTRH
210 220 230 240 250
CLYGLDADLI MLGLTSHEAH FSLLREEVRF GGKKTQRVCA PEETTFHLLH
260 270 280 290 300
LSLMREYIDY EFSALKEKIT FKYDIEKIID DWILMGFLVG NDFIPHLPHL
310 320 330 340 350
HINHDALPLL YGTYIAILPE LGGYINESGH LNLPRFERYL VKLSDFDREH
360 370 380 390 400
FSEVFVDLKW FESKVGNKYL NEAAGAAAEE AKNCKEKRKP KGQENSLSWA
410 420 430 440 450
ALDKSEGEGV ASRDNFEDET EDDDLFETEF RQYKRTYYMT KMGVDVVSDE
460 470 480 490 500
FLANQAACYV QAIQWILHYY YHGVQSWSWY YPYHYAPFLS DIRSISTLKI
510 520 530 540 550
HFELGKPFKP FEQLLAVLPS ASKNLLPTCY QHLMTSEDSP IIEYYPPDFK
560 570 580 590 600
TDLNGKQQEW EAVVLIPFID ETRLLEAMET CNHSLKKEER KRNQHSECLM
610 620 630 640 650
CWYDRDTEFT YSSPWPEKFP AIERCCTRYK MISLDAWRVD INKNKITRVD
660 670 680 690 700
QKALYFCGFP TLKHIKHKFF LKKSGVQVFQ QSSRGENLML EISVNAEPDE
710 720 730 740 750
LRIENIASAV LGKAVFVNWP HLEEARVVAV SDGETKFYIE EPPGTQKVYL
760 770 780 790 800
GKTAPPSKVI QLTDKEQSNW TKEIQGISEQ YLRRKGIIIN ETSAVVYAQL
810 820 830 840 850
LTGRKYQISQ NGEVRLEKQW SKQILPFVYQ TIVKDIRAFD SRFSNIKTLD
860 870 880 890 900
DLFPPRTMVF MLGTPYYGCT GEVQDSGDLI TEGRIRVVFS IPCEPNLDAL
910 920 930 940 950
IQNQHKYSIK YNPGYVLAGR LGVSGYLVSR FTGSIFIGRG SRRNPHGDHK
960 970 980 990 1000
ANVGLNLKFN KKNEEVPGYT KKVGNEWMYS SAAEQLLAEY IERAPELFSY
1010 1020 1030 1040 1050
IAKNSQEDVF YEDDIWPGEN ENGAEKVQEI ITWLKGHPVS TLSRSSCDLH
1060 1070 1080 1090 1100
ILDAAIVEKI EEEVEKCKQR KSNKKVRVTV KPHLMYRPLE QQHGVIPDRD
1110 1120 1130 1140 1150
AEFRLFDRVV NVRESFSVPV GLRGTVIGIK GASREADVLF EVLFDEEFPG
1160 1170 1180 1190 1200
GLTIRCSPGR GYRLPTSALV NLSHGSRCET GNQKLTAIVK PQPSVSHCSA
1210 1220 1230 1240 1250
APSGHLGGLN HSPQSPFLPT QVPTKGDDEF CNIWQSLQGA GKTQHLQPTV
1260 1270 1280 1290 1300
QEKGAVLPQE ISQVTEGHKS GFTDHSVRHQ QRKHDSQRKF KEEYKSPKAE
1310 1320 1330 1340 1350
CQSQKLSSKQ TSGGSARCSI KLLKRNESPG TSEAQKVVTS YPNAVHKPPS
1360 1370 1380 1390 1400
GIENFLASLN LSKENEAQLP HHGEPPDEAD LSPQSFAMKG TRMLKEILKI
1410 1420 1430 1440 1450
DSPDTRDSKN DMKKSDNEAT VSSRRDERGV SAHPKPTCHM NKPHGTNEFQ
1460 1470 1480 1490 1500
NVASVDSVCW PGQMPPVSTP VTELSRICSL VGMPQPDFSF LRTTQTMTVC
1510 1520 1530 1540 1550
QVKLSNGLLV HGPQCHSESE AKERAALFAL QQLGSLGVSF PLPPPIFTNY
1560 1570 1580 1590 1600
PPAVPPGAVP PVFTQPTANI MPSSSHLFGS VSWRPPVPVA GNAFHYPSYP
1610 1620 1630 1640 1650
GTMPLAGGVP GGVHSQFIPL QVTKKRVANR KNFENKEAQS SQATPLQTNK
1660 1670 1680 1690 1700
PGSSEATKMT PQESPPASSS SSQAAQPVSS HVETASQGHV GSQPRSAPSS
1710
SKRKSRKLAV NFSVSKPSE
Length:1,719
Mass (Da):194,307
Last modified:May 1, 1997 - v1
Checksum:i4FE6C888E3FE2459
GO
Isoform 2 (identifier: P97789-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1568-1580: Missing.

Show »
Length:1,706
Mass (Da):192,978
Checksum:i53CD8A860D36DC3C
GO
Isoform 3 (identifier: P97789-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1436-1436: P → PSKKL
     1661-1719: PQESPPASSS...VNFSVSKPSE → EFPGWVHLPVTSLTYGLWWRLPG

Show »
Length:1,687
Mass (Da):191,416
Checksum:i9805496C9820F4DC
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti99 – 991G → A in BAA21563 (PubMed:9218715).Curated
Sequence conflicti172 – 1721E → D in BAE25024 (PubMed:16141072).Curated
Sequence conflicti193 – 1931D → G in BAE25024 (PubMed:16141072).Curated
Sequence conflicti1085 – 10851M → L in BAA21563 (PubMed:9218715).Curated
Sequence conflicti1243 – 12431T → I in BAA21563 (PubMed:9218715).Curated
Sequence conflicti1261 – 12611I → L in BAE41404 (PubMed:16141072).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1436 – 14361P → PSKKL in isoform 3. 1 PublicationVSP_016696
Alternative sequencei1568 – 158013Missing in isoform 2. 1 PublicationVSP_016697Add
BLAST
Alternative sequencei1661 – 171959PQESP…SKPSE → EFPGWVHLPVTSLTYGLWWR LPG in isoform 3. 1 PublicationVSP_016698Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D88026 mRNA. Translation: BAA21563.1.
X91617 mRNA. Translation: CAA62819.1.
X91617 mRNA. Translation: CAA62820.1.
AK142311 mRNA. Translation: BAE25024.1.
AK162848 mRNA. Translation: BAE37081.1.
AK169840 mRNA. Translation: BAE41404.1.
CCDSiCCDS81053.1. [P97789-1]
PIRiT30174.
T30175.
T30244.
UniGeneiMm.291179.
Mm.436819.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D88026 mRNA. Translation: BAA21563.1.
X91617 mRNA. Translation: CAA62819.1.
X91617 mRNA. Translation: CAA62820.1.
AK142311 mRNA. Translation: BAE25024.1.
AK162848 mRNA. Translation: BAE37081.1.
AK169840 mRNA. Translation: BAE41404.1.
CCDSiCCDS81053.1. [P97789-1]
PIRiT30174.
T30175.
T30244.
UniGeneiMm.291179.
Mm.436819.

3D structure databases

ProteinModelPortaliP97789.
SMRiP97789. Positions 1-354, 433-600.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP97789. 1 interaction.
STRINGi10090.ENSMUSP00000034981.

PTM databases

iPTMnetiP97789.
PhosphoSiteiP97789.

Proteomic databases

MaxQBiP97789.
PaxDbiP97789.
PeptideAtlasiP97789.
PRIDEiP97789.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Organism-specific databases

MGIiMGI:891964. Xrn1.

Phylogenomic databases

eggNOGiKOG2044. Eukaryota.
KOG2045. Eukaryota.
COG5049. LUCA.
HOGENOMiHOG000154879.
HOVERGENiHBG094164.
InParanoidiP97789.
PhylomeDBiP97789.

Miscellaneous databases

PROiP97789.
SOURCEiSearch...

Gene expression databases

CleanExiMM_XRN1.

Family and domain databases

InterProiIPR027073. 5_3_exoribonuclease.
IPR004859. Put_53exo.
[Graphical view]
PANTHERiPTHR12341. PTHR12341. 3 hits.
PfamiPF03159. XRN_N. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiXRN1_MOUSE
AccessioniPrimary (citable) accession number: P97789
Secondary accession number(s): O35651
, P97790, Q3TE44, Q3TRE9, Q3UQL5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: May 1, 1997
Last modified: September 7, 2016
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.