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Q9GZR2

- REXO4_HUMAN

UniProt

Q9GZR2 - REXO4_HUMAN

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Protein
RNA exonuclease 4
Gene
REXO4, PMC2, XPMC2H
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

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
Complete GO annotation...

GO - Biological processi

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

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
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA37414.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 422422RNA exonuclease 4
PRO_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.

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

Belongs to the REXO4 family.
Contains 1 exonuclease domain.

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.

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.
VSP_014796Add
BLAST
Alternative sequencei133 – 304172Missing in isoform 2.
VSP_014797Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti202 – 2021A → P1 Publication
Sequence conflicti202 – 2021A → P1 Publication

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.
ENST00000562216; ENSP00000457846; ENSG00000261493.
ENST00000568937; ENSP00000456472; ENSG00000261493. [Q9GZR2-1]
ENST00000569763; ENSP00000454220; ENSG00000261493.
ENST00000570226; ENSP00000456823; ENSG00000261493.
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...

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 .
ENST00000562216 ; ENSP00000457846 ; ENSG00000261493 .
ENST00000568937 ; ENSP00000456472 ; ENSG00000261493 . [Q9GZR2-1 ]
ENST00000569763 ; ENSP00000454220 ; ENSG00000261493 .
ENST00000570226 ; ENSP00000456823 ; ENSG00000261493 .
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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 110 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

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