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Q9GZR2

- REXO4_HUMAN

UniProt

Q9GZR2 - REXO4_HUMAN

Protein

RNA exonuclease 4

Gene

REXO4

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
    • BLAST
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    • Format
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    • History
      Entry version 111 (01 Oct 2014)
      Sequence version 2 (19 Jul 2005)
      Previous versions | rss
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    Functioni

    GO - Molecular functioni

    1. exonuclease activity Source: UniProtKB-KW
    2. poly(A) RNA binding Source: UniProtKB
    3. sequence-specific DNA binding transcription factor activity Source: UniProtKB

    GO - Biological processi

    1. regulation of transcription, DNA-templated Source: UniProtKB

    Keywords - Molecular functioni

    Exonuclease, Hydrolase, Nuclease

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    RNA exonuclease 4 (EC:3.1.-.-)
    Alternative name(s):
    Exonuclease XPMC2
    Prevents mitotic catastrophe 2 protein homolog
    Short name:
    hPMC2
    Gene namesi
    Name:REXO4
    Synonyms:PMC2, XPMC2H
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 9

    Organism-specific databases

    HGNCiHGNC:12820. REXO4.

    Subcellular locationi

    Nucleusnucleolus 2 Publications

    GO - Cellular componenti

    1. nucleolus Source: LIFEdb
    2. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA37414.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 422422RNA exonuclease 4PRO_0000131703Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei15 – 151Phosphoserine1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiQ9GZR2.
    PaxDbiQ9GZR2.
    PRIDEiQ9GZR2.

    2D gel databases

    SWISS-2DPAGEQ9GZR2.

    PTM databases

    PhosphoSiteiQ9GZR2.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9GZR2.
    BgeeiQ9GZR2.
    CleanExiHS_REXO4.
    GenevestigatoriQ9GZR2.

    Organism-specific databases

    HPAiHPA047006.

    Interactioni

    Subunit structurei

    Can bind ESR1 and ESR2. This interaction is abrogated by estrogen and augmented by tamoxifen treatment.

    Protein-protein interaction databases

    BioGridi121375. 4 interactions.
    IntActiQ9GZR2. 1 interaction.
    MINTiMINT-3065177.
    STRINGi9606.ENSP00000361010.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9GZR2.
    SMRiQ9GZR2. Positions 244-399.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini243 – 394152ExonucleaseAdd
    BLAST

    Sequence similaritiesi

    Belongs to the REXO4 family.Curated
    Contains 1 exonuclease domain.Curated

    Phylogenomic databases

    eggNOGiCOG0847.
    HOGENOMiHOG000231626.
    HOVERGENiHBG000999.
    InParanoidiQ9GZR2.
    KOiK18327.
    OMAiLVISQMG.
    OrthoDBiEOG7WHHB0.
    PhylomeDBiQ9GZR2.
    TreeFamiTF313504.

    Family and domain databases

    Gene3Di3.30.420.10. 1 hit.
    InterProiIPR006055. Exonuclease.
    IPR013520. Exonuclease_RNaseT/DNA_pol3.
    IPR012337. RNaseH-like_dom.
    [Graphical view]
    PfamiPF00929. RNase_T. 1 hit.
    [Graphical view]
    SMARTiSM00479. EXOIII. 1 hit.
    [Graphical view]
    SUPFAMiSSF53098. SSF53098. 1 hit.

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q9GZR2-1) [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

    MGKAKVPASK RAPSSPVAKP GPVKTLTRKK NKKKKRFWKS KAREVSKKPA    50
    SGPGAVVRPP KAPEDFSQNW KALQEWLLKQ KSQAPEKPLV ISQMGSKKKP 100
    KIIQQNKKET SPQVKGEEMP AGKDQEASRG SVPSGSKMDR RAPVPRTKAS 150
    GTEHNKKGTK ERTNGDIVPE RGDIEHKKRK AKEAAPAPPT EEDIWFDDVD 200
    PADIEAAIGP EAAKIARKQL GQSEGSVSLS LVKEQAFGGL TRALALDCEM 250
    VGVGPKGEES MAARVSIVNQ YGKCVYDKYV KPTEPVTDYR TAVSGIRPEN 300
    LKQGEELEVV QKEVAEMLKG RILVGHALHN DLKVLFLDHP KKKIRDTQKY 350
    KPFKSQVKSG RPSLRLLSEK ILGLQVQQAE HCSIQDAQAA MRLYVMVKKE 400
    WESMARDRRP LLTAPDHCSD DA 422
    Length:422
    Mass (Da):46,672
    Last modified:July 19, 2005 - v2
    Checksum:i5994D59678B17C21
    GO
    Isoform 2 (identifier: Q9GZR2-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         76-132: WLLKQKSQAP...KDQEASRGSV → VPRWTGGRQY...RRQPQPHPPR
         133-304: Missing.

    Note: Gene prediction based on EST data. No experimental confirmation available.

    Show »
    Length:250
    Mass (Da):28,390
    Checksum:iF2F05F07242D6EFE
    GO

    Sequence cautioni

    The sequence CAI12845.1 differs from that shown. Reason: Erroneous gene model prediction.
    The sequence CAI12847.1 differs from that shown. Reason: Erroneous gene model prediction.
    The sequence CAI12848.1 differs from that shown. Reason: Erroneous gene model prediction.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti202 – 2021A → P(PubMed:9325058)Curated
    Sequence conflicti202 – 2021A → P(PubMed:10908561)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti141 – 1411R → K.
    Corresponds to variant rs6597630 [ dbSNP | Ensembl ].
    VAR_023067
    Natural varianti283 – 2831T → A.1 Publication
    Corresponds to variant rs2285487 [ dbSNP | Ensembl ].
    VAR_023068

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei76 – 13257WLLKQ…SRGSV → VPRWTGGRQYLAPRPVEQST IRKEPRKGQMVILFQNEGTS SIRSGKLRRQPQPHPPR in isoform 2. CuratedVSP_014796Add
    BLAST
    Alternative sequencei133 – 304172Missing in isoform 2. CuratedVSP_014797Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF295774 mRNA. Translation: AAG02123.1.
    AF273304 mRNA. Translation: AAF98162.1.
    AL136894 mRNA. Translation: CAB66828.1.
    AK025493 mRNA. Translation: BAB15152.1.
    AK314333 mRNA. Translation: BAG36979.1.
    AL158826 Genomic DNA. Translation: CAI12845.1. Sequence problems.
    AL158826 Genomic DNA. Translation: CAI12847.1. Sequence problems.
    AL158826 Genomic DNA. Translation: CAI12848.1. Sequence problems.
    AL158826 Genomic DNA. Translation: CAI12849.1.
    CH471090 Genomic DNA. Translation: EAW88082.1.
    BC009274 mRNA. Translation: AAH09274.1.
    CCDSiCCDS65179.1. [Q9GZR2-2]
    CCDS6969.1. [Q9GZR2-1]
    RefSeqiNP_001266278.1. NM_001279349.1. [Q9GZR2-2]
    NP_001266279.1. NM_001279350.1.
    NP_001266280.1. NM_001279351.1.
    NP_065118.2. NM_020385.3. [Q9GZR2-1]
    UniGeneiHs.438409.

    Genome annotation databases

    EnsembliENST00000371935; ENSP00000361003; ENSG00000148300. [Q9GZR2-2]
    ENST00000371942; ENSP00000361010; ENSG00000148300. [Q9GZR2-1]
    ENST00000445916; ENSP00000391534; ENSG00000148300.
    ENST00000454825; ENSP00000394229; ENSG00000148300.
    GeneIDi57109.
    KEGGihsa:57109.
    UCSCiuc004cdm.3. human. [Q9GZR2-1]

    Polymorphism databases

    DMDMi71153418.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF295774 mRNA. Translation: AAG02123.1 .
    AF273304 mRNA. Translation: AAF98162.1 .
    AL136894 mRNA. Translation: CAB66828.1 .
    AK025493 mRNA. Translation: BAB15152.1 .
    AK314333 mRNA. Translation: BAG36979.1 .
    AL158826 Genomic DNA. Translation: CAI12845.1 . Sequence problems.
    AL158826 Genomic DNA. Translation: CAI12847.1 . Sequence problems.
    AL158826 Genomic DNA. Translation: CAI12848.1 . Sequence problems.
    AL158826 Genomic DNA. Translation: CAI12849.1 .
    CH471090 Genomic DNA. Translation: EAW88082.1 .
    BC009274 mRNA. Translation: AAH09274.1 .
    CCDSi CCDS65179.1. [Q9GZR2-2 ]
    CCDS6969.1. [Q9GZR2-1 ]
    RefSeqi NP_001266278.1. NM_001279349.1. [Q9GZR2-2 ]
    NP_001266279.1. NM_001279350.1.
    NP_001266280.1. NM_001279351.1.
    NP_065118.2. NM_020385.3. [Q9GZR2-1 ]
    UniGenei Hs.438409.

    3D structure databases

    ProteinModelPortali Q9GZR2.
    SMRi Q9GZR2. Positions 244-399.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 121375. 4 interactions.
    IntActi Q9GZR2. 1 interaction.
    MINTi MINT-3065177.
    STRINGi 9606.ENSP00000361010.

    PTM databases

    PhosphoSitei Q9GZR2.

    Polymorphism databases

    DMDMi 71153418.

    2D gel databases

    SWISS-2DPAGE Q9GZR2.

    Proteomic databases

    MaxQBi Q9GZR2.
    PaxDbi Q9GZR2.
    PRIDEi Q9GZR2.

    Protocols and materials databases

    DNASUi 57109.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000371935 ; ENSP00000361003 ; ENSG00000148300 . [Q9GZR2-2 ]
    ENST00000371942 ; ENSP00000361010 ; ENSG00000148300 . [Q9GZR2-1 ]
    ENST00000445916 ; ENSP00000391534 ; ENSG00000148300 .
    ENST00000454825 ; ENSP00000394229 ; ENSG00000148300 .
    GeneIDi 57109.
    KEGGi hsa:57109.
    UCSCi uc004cdm.3. human. [Q9GZR2-1 ]

    Organism-specific databases

    CTDi 57109.
    GeneCardsi GC09M136271.
    HGNCi HGNC:12820. REXO4.
    HPAi HPA047006.
    MIMi 602930. gene.
    neXtProti NX_Q9GZR2.
    PharmGKBi PA37414.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG0847.
    HOGENOMi HOG000231626.
    HOVERGENi HBG000999.
    InParanoidi Q9GZR2.
    KOi K18327.
    OMAi LVISQMG.
    OrthoDBi EOG7WHHB0.
    PhylomeDBi Q9GZR2.
    TreeFami TF313504.

    Miscellaneous databases

    GeneWikii REXO4.
    GenomeRNAii 57109.
    NextBioi 62959.
    PROi Q9GZR2.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9GZR2.
    Bgeei Q9GZR2.
    CleanExi HS_REXO4.
    Genevestigatori Q9GZR2.

    Family and domain databases

    Gene3Di 3.30.420.10. 1 hit.
    InterProi IPR006055. Exonuclease.
    IPR013520. Exonuclease_RNaseT/DNA_pol3.
    IPR012337. RNaseH-like_dom.
    [Graphical view ]
    Pfami PF00929. RNase_T. 1 hit.
    [Graphical view ]
    SMARTi SM00479. EXOIII. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53098. SSF53098. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Human XPMC2H: cDNA cloning, mapping to 9q34, genomic structure, and evaluation as TSC1."
      Kwiatkowska J., Slomski R., Jozwiak S., Short M.P., Kwiatkowski D.J.
      Genomics 44:350-354(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT ALA-283.
    2. "Identification and characterization of a novel factor that regulates quinone reductase gene transcriptional activity."
      Montano M.M., Wittmann B.M., Bianco N.R.
      J. Biol. Chem. 275:34306-34313(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), SUBCELLULAR LOCATION, INTERACTION WITH ESR1 AND ESR2.
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Testis.
    4. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    5. "DNA sequence and analysis of human chromosome 9."
      Humphray S.J., Oliver K., Hunt A.R., Plumb R.W., Loveland J.E., Howe K.L., Andrews T.D., Searle S., Hunt S.E., Scott C.E., Jones M.C., Ainscough R., Almeida J.P., Ambrose K.D., Ashwell R.I.S., Babbage A.K., Babbage S., Bagguley C.L.
      , Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beasley H., Beasley O., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burford D., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Chen Y., Clarke G., Clark S.Y., Clee C.M., Clegg S., Collier R.E., Corby N., Crosier M., Cummings A.T., Davies J., Dhami P., Dunn M., Dutta I., Dyer L.W., Earthrowl M.E., Faulkner L., Fleming C.J., Frankish A., Frankland J.A., French L., Fricker D.G., Garner P., Garnett J., Ghori J., Gilbert J.G.R., Glison C., Grafham D.V., Gribble S., Griffiths C., Griffiths-Jones S., Grocock R., Guy J., Hall R.E., Hammond S., Harley J.L., Harrison E.S.I., Hart E.A., Heath P.D., Henderson C.D., Hopkins B.L., Howard P.J., Howden P.J., Huckle E., Johnson C., Johnson D., Joy A.A., Kay M., Keenan S., Kershaw J.K., Kimberley A.M., King A., Knights A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C., Lloyd D.M., Lovell J., Martin S., Mashreghi-Mohammadi M., Matthews L., McLaren S., McLay K.E., McMurray A., Milne S., Nickerson T., Nisbett J., Nordsiek G., Pearce A.V., Peck A.I., Porter K.M., Pandian R., Pelan S., Phillimore B., Povey S., Ramsey Y., Rand V., Scharfe M., Sehra H.K., Shownkeen R., Sims S.K., Skuce C.D., Smith M., Steward C.A., Swarbreck D., Sycamore N., Tester J., Thorpe A., Tracey A., Tromans A., Thomas D.W., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Williams S.A., Wilming L., Wray P.W., Young L., Ashurst J.L., Coulson A., Blocker H., Durbin R.M., Sulston J.E., Hubbard T., Jackson M.J., Bentley D.R., Beck S., Rogers J., Dunham I.
      Nature 429:369-374(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] (ISOFORM 2).
    6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    7. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    8. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
      Tissue: Cervix carcinoma.
    9. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-15, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Cervix carcinoma.
    10. "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
      Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
      Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    11. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiREXO4_HUMAN
    AccessioniPrimary (citable) accession number: Q9GZR2
    Secondary accession number(s): B2RAT2
    , Q5T8S4, Q5T8S5, Q5T8S6, Q9GZW3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 19, 2005
    Last sequence update: July 19, 2005
    Last modified: October 1, 2014
    This is version 111 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 9
      Human chromosome 9: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3