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A2AKX3

- SETX_MOUSE

UniProt

A2AKX3 - SETX_MOUSE

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Protein
Probable helicase senataxin
Gene
Setx, Als4, Kiaa0625
Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Probable helicase involved in RNA maturation. Required for the 3' transcriptional termination of PER1 and CRY2, plays an important role in the circadian rhythm regulation. Involved in DNA double-strand breaks damage response generated by oxidative stress.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi1939 – 19468ATP Reviewed prediction

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. helicase activity Source: UniProtKB-KW
  3. protein binding Source: MGI

GO - Biological processi

  1. circadian rhythm Source: MGI
  2. double-strand break repair Source: UniProtKB
  3. termination of RNA polymerase II transcription Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Biological rhythms, DNA damage, DNA repair

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Probable helicase senataxin (EC:3.6.4.-)
Alternative name(s):
Amyotrophic lateral sclerosis 4 protein homolog
SEN1 homolog
Gene namesi
Name:Setx
Synonyms:Als4, Kiaa0625
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 2

Organism-specific databases

MGIiMGI:2443480. Setx.

Subcellular locationi

Nucleusnucleoplasm. Nucleusnucleolus. Cytoplasm
Note: Most abundant in the nucleus By similarity. Detected in granules By similarity. Colocalized in cycling cells with FBL in the nucleolus By similarity. May be detected in the nucleolus only in cycling cells.1 Publication

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB
  2. nucleolus Source: UniProtKB-SubCell
  3. nucleoplasm Source: UniProtKB
  4. nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 26462646Probable helicase senataxin
PRO_0000307777Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1002 – 10021Phosphoserine By similarity
Modified residuei1004 – 10041Phosphoserine By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiA2AKX3.
PRIDEiA2AKX3.

PTM databases

PhosphoSiteiA2AKX3.

Expressioni

Tissue specificityi

Expressed in cerebellum, hippocampus, olfactory bulb, Bergmann glial fibers, stellate cells and Purkinje cells. Expressed in the epithelial cells of the lens but not in mature lens fiber cells. Expressed in the retina (highly expressed in inner and outer segments of photoreceptors and outer plexiform layer cells but weakly expressed in the inner plexiform and ganglion cell layers). Expressed in the kidney.1 Publication

Gene expression databases

BgeeiA2AKX3.
CleanExiMM_SETX.
GenevestigatoriA2AKX3.

Interactioni

Subunit structurei

Interacts with PER2; the interaction inhibits termination of circadian target genes.1 Publication

Protein-protein interaction databases

BioGridi234629. 4 interactions.
DIPiDIP-56995N.
IntActiA2AKX3. 3 interactions.

Structurei

3D structure databases

ProteinModelPortaliA2AKX3.
SMRiA2AKX3. Positions 1907-2437.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2632 – 264615Necessary for nuclear localization By similarity
Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi2046 – 206318Bipartite nuclear localization signal By similarity
Add
BLAST

Sequence similaritiesi

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG1112.
GeneTreeiENSGT00730000110642.
HOVERGENiHBG108476.
InParanoidiA2AKX3.
KOiK10706.
OMAiDMDLCSQ.
OrthoDBiEOG7JX33B.
PhylomeDBiA2AKX3.
TreeFamiTF324634.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027417. P-loop_NTPase.
IPR026121. Senataxin.
[Graphical view]
PANTHERiPTHR10887:SF336. PTHR10887:SF336. 1 hit.
SUPFAMiSSF52540. SSF52540. 2 hits.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: A2AKX3-1) [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

MSTCCWCTPG GSSTIDVLKR YASSTGSSEF QTADEDLCYC LECVAEYHRA     50
RDEVPFLHEV LWELETLRLV SHFEKSMKAE AEDDDDLYIV DNNGEEQLFD 100
CSGQDFENKL RVPLFEILKY PYLLLHERVN ELCVEALCRM EQNNCSFQVF 150
DKYPGIYLFL VHPNEMVRRW AILTARNLGK VDRDDYYDLQ EVLTCLFKVI 200
ELGLLESPDI YTSSVLEKGK LILLPAHMYD TTNYKNYWLG ICMLLTILEE 250
QAMDSLLLGS DKQNDFMQSI LHTMEKQSDD DSMDPFWPAL HCFMVILDRL 300
GSKVWGQLID PIEAFQTIIN NESYNREIQN IRNSSIRTKL EPEPHFDDMV 350
TCSQIVYNFN PEKTKKDSGW RSAICPDYCP NMYEEMETLA NVLQSDIGQD 400
MRVHNSTFLW FIPFVQSLMD LKDLGVAYIV EVIHHLYSEV KDVLNQTDAV 450
CDKVTEFFIL ILISVIELHR NKKCLHLLWV SSQQWVEAVV KCAKLPTTAF 500
VRSCEKSPGS TSRGAAIMSS LALHSVQSNS VQLACVQLIR GLLKEGYQLG 550
QQTLCKRFWD KLNLFLRGNL SLGWQLTGQE THELQMCLKQ IIRNIKFKMP 600
QYSTFGDSTS TFKTPPSFKE ESDKIDRKHK KNIYCLENCS PVSSKEPMKA 650
DTHRVLMKVN TTEEENFKQH YIDLNEEEQE PLPAELCLKQ KSEALFSESA 700
QEQVKISAEK SGKESSSYAP SNSTSRNGPE WGCDRGVIMS AHSLTDSSSD 750
FMEQVSTSNE DVSLKDGSVG KTSKPSFKLQ KDEICAKLSH VIKKQIRKST 800
LVDNIIDLEE NTAISDLENC SGTDGGALKE DSIGHNVPSD PVLDDKHEEQ 850
KSQNSSLFKK EIKSEELDNS SSDDEDKLQI QEGRADDDLV SFTEVTDTLV 900
KAPCEGHVKM VVESRDKEMR ESTALTSNLV EGQVPHDSSK PLVAGRQIDL 950
CNITLISQTT VIQFPSGLSK QNSFQLQKGD KRCLTANQNS AATCRGQVIV 1000
ISDSDEEEDE DEDERSSSEE NIKQSKACIG KDCSEHRSLA VNASVEKQLV 1050
KEEERYPVEF EDSESQVFEF ESSSEVFSVW QDHKIDSKNS LQGEQKSYVT 1100
HVADSTNNNL GCGDSVSEEV VRNKAEGVKE HAGPHSSVSA EEFCKTGVKK 1150
PKRKRYDKVT AEDPQRPSSS VGTDQLPDRR DLTESDLKSA DMGMATPSSS 1200
VERDSTILQK STKSRTHSKP VRKVPASKAT KKTHSDTRRG QSKSSCYISC 1250
RTSPAIVPPK KLRQCPEPTS TVEKLGLKKA PRKAFELSQR SLECIVQLRD 1300
HGKTVGVVDA PKKAKLISPQ TLSIKNNKKL LTSQDLQFQR LMRSRSHKKR 1350
DFDYKNTDTV RVSRIVQGSD VLEADSDEPD DHRVSEPLAI SNEKQLAKCM 1400
LSKTEVAEAS SDPWVTGITC LVNQCESRVL SGGVPTDVVM VSASEDPVDG 1450
GAVTVQVGEV ASVKAAEPAS SSDTDDDDNL FLTQHDPQDM DLCSQLENKT 1500
IIVAHKKDTV QREDSLSRPQ LESLSITKCK YKDCVETTKN QGEYCPRHSE 1550
AKAADDGLFR KPGLPLSVAR PLRPTTTKIF SSSSASRTAN LSKSLESTTL 1600
QQSALKNKSS GAQPNLKVTP PSSMGSQKPV AEVKSLCNIF HFQTPSSSSK 1650
QSCKLTFSEN RPTSAASPVN ILLPSQSIFD TFIKEVLKWK YQMFLNFDKC 1700
GAPTSLCQSI SRPVPVRFQD CAEYFNVFLP LIILNAFETV AQEWLSSPNK 1750
ENFYQLQLRK FPADYKKYWE FLIYLNESEL AKQLHPKEND LVFLAPEKSY 1800
MDRHGMQDCS HYYCGYVHKF RRTSVMRSGK AECSLCIQTQ DTLPASVKNL 1850
TRCIVISSLV TTQRKLKAMS LLSSRNQLAR AVLNPNPMDF CTKDLLTTTS 1900
ERIVAYLKDF NEDQKKAIET AYAMVKHSPS VAKICLIHGP PGTGKSKTIV 1950
GLLYRLLTEN QRKGHSDENF NAKIKQNRVL VCAPSNAAVD ELMKKIILEF 2000
KEKCKDKKNP LGNCGDINLV RLGPEKSINT EVLKFSLDSQ VNHRMKKDLP 2050
SHIQEMLRRK EILDAQLDEL SRQRALCRGG REMQRQELDE HIAIVSKERQ 2100
ELASKIKEVQ GRPQRAQNTI ILESHVICCT LSTSGGLLLE SAFRGQGGVP 2150
FSCVIVDEAG QSCEVETLSP LIHRCNKLIL VGDPKQLPPT VISMKAQEYG 2200
YDQSMMARFC KLLEENVEQN MIGRLPVLQL TIQYRMHPDI CLFPSNYVYN 2250
KNLKTNRLTE SIRCSSEWPF QPYLVFDVGD GSERRDNDSY INVQEIKLVM 2300
EIIKLIKEKR KDISFRNIGI ITHYKAQKTM IQKDLEKEFD KKGPAEVDTV 2350
DAFQGRQKDC IIVTCVRASA VQGSIGFLAS LQRLNVTITR AKYSLFILGH 2400
LRTLMENQHW YELIQDAQKR GAIIKTSDPN YRHDAMKILK LKPVLQRSLT 2450
HPPATAPEAP RPQGGLPSNR LDSGLATTSF AASLYHTPSD TVTSKGPERP 2500
LLQDRLRDPR LLRRLDAEAK GTFLKDPQPV SPQLPGVVHL LGEPGFPVVF 2550
QDLGFVVPPS TAIVAPLGSH RSPMQAEPPP AHPAAAASTS KRKYSDPDAG 2600
LSHKREPRAF SGEQGRHGSV THHVLRSTDW DRRRLDDSSA KRRQFL 2646
Length:2,646
Mass (Da):297,589
Last modified:February 20, 2007 - v1
Checksum:i3036F84EFED4A098
GO
Isoform 2 (identifier: A2AKX3-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-381: Missing.

Note: No experimental confirmation available.

Show »
Length:2,265
Mass (Da):253,320
Checksum:iAA0DCF08E90FAEED
GO

Sequence cautioni

The sequence BAC97987.1 differs from that shown. Reason: The sequence differs from that shown because it is derived from pre-RNA.
The sequence BAC32054.1 differs from that shown. Reason: Frameshift at position 699.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 381381Missing in isoform 2.
VSP_028827Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti644 – 6441S → C in BAC32054. 1 Publication
Sequence conflicti1048 – 10481Q → R in BAC33309. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AL772379, AL845267 Genomic DNA. Translation: CAM16246.1.
AL845267, AL772379 Genomic DNA. Translation: CAM23971.1.
AL845267 Genomic DNA. Translation: CAM23973.2.
AK044730 mRNA. Translation: BAC32054.1. Frameshift.
AK048354 mRNA. Translation: BAC33309.2.
AK077911 mRNA. Translation: BAC37058.1.
BC046382 mRNA. Translation: AAH46382.1.
BC058109 mRNA. Translation: AAH58109.2.
BC079604 mRNA. Translation: AAH79604.2.
AK129177 Transcribed RNA. Translation: BAC97987.1. Sequence problems.
BK001523 mRNA. Translation: DAA01946.1.
CCDSiCCDS38090.1. [A2AKX3-1]
RefSeqiNP_932150.2. NM_198033.2. [A2AKX3-1]
UniGeneiMm.41867.

Genome annotation databases

EnsembliENSMUST00000061578; ENSMUSP00000051492; ENSMUSG00000043535. [A2AKX3-1]
GeneIDi269254.
KEGGimmu:269254.
UCSCiuc008izm.1. mouse. [A2AKX3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AL772379 , AL845267 Genomic DNA. Translation: CAM16246.1 .
AL845267 , AL772379 Genomic DNA. Translation: CAM23971.1 .
AL845267 Genomic DNA. Translation: CAM23973.2 .
AK044730 mRNA. Translation: BAC32054.1 . Frameshift.
AK048354 mRNA. Translation: BAC33309.2 .
AK077911 mRNA. Translation: BAC37058.1 .
BC046382 mRNA. Translation: AAH46382.1 .
BC058109 mRNA. Translation: AAH58109.2 .
BC079604 mRNA. Translation: AAH79604.2 .
AK129177 Transcribed RNA. Translation: BAC97987.1 . Sequence problems.
BK001523 mRNA. Translation: DAA01946.1 .
CCDSi CCDS38090.1. [A2AKX3-1 ]
RefSeqi NP_932150.2. NM_198033.2. [A2AKX3-1 ]
UniGenei Mm.41867.

3D structure databases

ProteinModelPortali A2AKX3.
SMRi A2AKX3. Positions 1907-2437.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 234629. 4 interactions.
DIPi DIP-56995N.
IntActi A2AKX3. 3 interactions.

PTM databases

PhosphoSitei A2AKX3.

Proteomic databases

PaxDbi A2AKX3.
PRIDEi A2AKX3.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000061578 ; ENSMUSP00000051492 ; ENSMUSG00000043535 . [A2AKX3-1 ]
GeneIDi 269254.
KEGGi mmu:269254.
UCSCi uc008izm.1. mouse. [A2AKX3-1 ]

Organism-specific databases

CTDi 23064.
MGIi MGI:2443480. Setx.
Rougei Search...

Phylogenomic databases

eggNOGi COG1112.
GeneTreei ENSGT00730000110642.
HOVERGENi HBG108476.
InParanoidi A2AKX3.
KOi K10706.
OMAi DMDLCSQ.
OrthoDBi EOG7JX33B.
PhylomeDBi A2AKX3.
TreeFami TF324634.

Miscellaneous databases

NextBioi 392760.
PROi A2AKX3.
SOURCEi Search...

Gene expression databases

Bgeei A2AKX3.
CleanExi MM_SETX.
Genevestigatori A2AKX3.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027417. P-loop_NTPase.
IPR026121. Senataxin.
[Graphical view ]
PANTHERi PTHR10887:SF336. PTHR10887:SF336. 1 hit.
SUPFAMi SSF52540. SSF52540. 2 hits.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  2. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-1050 (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-858 (ISOFORM 1), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 2464-2646.
    Strain: C57BL/6J.
    Tissue: Head, Retina and Testis.
  3. "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] OF 1745-2646 (ISOFORM 1).
    Strain: 129 and C57BL/6.
    Tissue: Brain and Mammary tumor.
  4. "Prediction of the coding sequences of mouse homologues of KIAA gene: III. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Nagase T., Ohara O., Koga H.
    DNA Res. 10:167-180(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1915-2646 (ISOFORM 1).
    Tissue: Embryonic tail.
  5. Cited for: IDENTIFICATION (ISOFORM 1).
    Strain: C57BL/6J.
  6. "Senataxin, the yeast Sen1p orthologue: characterization of a unique protein in which recessive mutations cause ataxia and dominant mutations cause motor neuron disease."
    Chen Y.-Z., Hashemi S.H., Anderson S.K., Huang Y., Moreira M.-C., Lynch D.R., Glass I.A., Chance P.F., Bennett C.L.
    Neurobiol. Dis. 23:97-108(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  7. "Feedback regulation of transcriptional termination by the mammalian circadian clock PERIOD complex."
    Padmanabhan K., Robles M.S., Westerling T., Weitz C.J.
    Science 337:599-602(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN CIRCADIAN RHYTHMS, INTERACTION WITH PER2.

Entry informationi

Entry nameiSETX_MOUSE
AccessioniPrimary (citable) accession number: A2AKX3
Secondary accession number(s): A2AKX4
, A2AR33, Q6IMG6, Q6PED8, Q6ZQ81, Q80V90, Q8C5P1, Q8C859, Q8C8P6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 23, 2007
Last sequence update: February 20, 2007
Last modified: July 9, 2014
This is version 60 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

External Data

Dasty 3

Similar proteinsi