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Q9Z1N7

- ARI3B_MOUSE

UniProt

Q9Z1N7 - ARI3B_MOUSE

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Protein

AT-rich interactive domain-containing protein 3B

Gene

Arid3b

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

Functioni

Transcription factor involved in the production of cranial mesenchymal tissues. Favors nuclear targeting of ARID3A.1 Publication

GO - Molecular functioni

  1. RNA polymerase II core promoter proximal region sequence-specific DNA binding Source: NTNU_SB
  2. RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: NTNU_SB
  3. RNA polymerase II distal enhancer sequence-specific DNA binding Source: NTNU_SB
  4. RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: NTNU_SB

GO - Biological processi

  1. multicellular organismal development Source: UniProtKB-KW
  2. positive regulation of transcription from RNA polymerase II promoter Source: NTNU_SB
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
AT-rich interactive domain-containing protein 3B
Short name:
ARID domain-containing protein 3B
Alternative name(s):
Bright and dead ringer protein
Bright-like protein
Gene namesi
Name:Arid3b
Synonyms:Bdp, Dril2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 9

Organism-specific databases

MGIiMGI:1930768. Arid3b.

Subcellular locationi

Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  1. nucleus Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Embryos die before E11.5 and display various abnormalities, including wavy neural tube, small branchial arches and defects of cardiovascular system.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 568568AT-rich interactive domain-containing protein 3BPRO_0000295163Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei87 – 871PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PRIDEiQ9Z1N7.

PTM databases

PhosphoSiteiQ9Z1N7.

Expressioni

Tissue specificityi

Expressed at high levels in testis. Also expressed in prostate, thyroid and thymus.1 Publication

Developmental stagei

First detected at E7. Strongly expressed in cranial mesenchyme and caudal mesoderm. Expression in cranial mesenchyme decreases starting from E10.5.1 Publication

Gene expression databases

BgeeiQ9Z1N7.
CleanExiMM_ARID3B.
ExpressionAtlasiQ9Z1N7. baseline and differential.
GenevestigatoriQ9Z1N7.

Interactioni

Subunit structurei

Heterodimer with ARID3A. Interacts with unphosphorylated RB1 (By similarity).By similarity

Protein-protein interaction databases

BioGridi207941. 3 interactions.
IntActiQ9Z1N7. 1 interaction.
STRINGi10090.ENSMUSP00000109802.

Structurei

3D structure databases

ProteinModelPortaliQ9Z1N7.
SMRiQ9Z1N7. Positions 174-326.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini213 – 30593ARIDPROSITE-ProRule annotationAdd
BLAST
Domaini425 – 52298REKLESPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni201 – 374174Interaction with RB1By similarityAdd
BLAST
Regioni495 – 51824Interaction with ARID3ABy similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi5 – 3733Gln-richAdd
BLAST
Compositional biasi88 – 936Poly-Glu
Compositional biasi339 – 36224Ala-richAdd
BLAST
Compositional biasi528 – 56740Ser-richAdd
BLAST

Sequence similaritiesi

Contains 1 ARID domain.PROSITE-ProRule annotation
Contains 1 REKLES domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG327790.
GeneTreeiENSGT00550000074575.
HOGENOMiHOG000236281.
HOVERGENiHBG103680.
InParanoidiQ9Z1N7.
OMAiFHVQKVA.
OrthoDBiEOG77DJ6W.
PhylomeDBiQ9Z1N7.
TreeFamiTF320364.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR001606. ARID/BRIGHT_DNA-bd.
IPR023334. REKLES_domain.
[Graphical view]
PfamiPF01388. ARID. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 1 hit.
PROSITEiPS51011. ARID. 1 hit.
PS51486. REKLES. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q9Z1N7-1) [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
MEPLQQQQQQ QQQKQPQQPL LQMDAREKQG PQTRESQFLY ASKLGTQPAL
60 70 80 90 100
LSITPGRPSG SSVLGPLARV PPATPVARMS EQSNVNSEPE EEEGGLEDED
110 120 130 140 150
GDDDVAEVAE KEAQAASKYF HMQKVTRQEP RATPMSSLLP VPGLSPQGQQ
160 170 180 190 200
TKEDHTKDAS KAPPSVPTAG QPSWSLDEQL KQNGALAWSD DADGGRGREI
210 220 230 240 250
SRDFAKLYEL DGDPERKEFL DDLFIFMQKR GTPINRIPIM AKQILDLYML
260 270 280 290 300
YKLVTEKGGL VEIINKKIWR EITKGLNLPT SITSAAFTLR TQYMKYLYAY
310 320 330 340 350
ECEKKALSSP AELQAAIDGN RREGRRPSYS SSLFGYSPAA AAAAAAAAAA
360 370 380 390 400
AAASAASAGT PALLSSPKIR FSILGLGSSS GTSASSPRIP PASTLRKGDG
410 420 430 440 450
VPVPVPNRLA VSGTLAGQQA GNRPGPLEHL RERLESGEPP EKKASRLSEE
460 470 480 490 500
EQRLVQQAFQ RNLFSMARQL PMKIRINGRE DRAEPSAPAL NLTTSNIGSI
510 520 530 540 550
NMSVDIDGTT YTGVLFAQKP VVHLIAGSTP QSIGSSASSS NSSSSHCSPS
560
PTSSRGTPSA EPSTSWSL
Length:568
Mass (Da):61,015
Last modified:May 1, 1999 - v1
Checksum:i70250959E6EAF526
GO
Isoform 2 (identifier: Q9Z1N7-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     234-282: INRIPIMAKQ...TKGLNLPTSI → SGASPAGIVL...VIAHGSLGRD
     283-568: Missing.

Show »
Length:282
Mass (Da):30,795
Checksum:iB18C5EB90DED77C4
GO
Isoform 3 (identifier: Q9Z1N7-3) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     232-287: TPINRIPIMA...LPTSITSAAF → DPAAAAECTA...QADPGPVHAV
     288-568: Missing.

Show »
Length:287
Mass (Da):31,376
Checksum:i6DFB9E26A48E6A6C
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti99 – 991E → G in BAE24019. (PubMed:16141072)Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei232 – 28756TPINR…TSAAF → DPAAAAECTAFLLPSLIVIK YPGTTQLSTIMQKGVWHPNQ PDSHHGQADPGPVHAV in isoform 3. 1 PublicationVSP_026775Add
BLAST
Alternative sequencei234 – 28249INRIP…LPTSI → SGASPAGIVLKATWPCGWPG QPPPLLCLVCILTRKKKKNV IAHGSLGRD in isoform 2. 1 PublicationVSP_026776Add
BLAST
Alternative sequencei283 – 568286Missing in isoform 2. 1 PublicationVSP_026777Add
BLAST
Alternative sequencei288 – 568281Missing in isoform 3. 1 PublicationVSP_026778Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF116847 mRNA. Translation: AAD09134.1.
AK139455 mRNA. Translation: BAE24019.1.
BC049776 mRNA. Translation: AAH49776.1.
CCDSiCCDS23233.1. [Q9Z1N7-1]
RefSeqiNP_062663.1. NM_019689.2. [Q9Z1N7-1]
XP_006511354.1. XM_006511291.1. [Q9Z1N7-1]
UniGeneiMm.425588.

Genome annotation databases

EnsembliENSMUST00000004780; ENSMUSP00000004780; ENSMUSG00000004661. [Q9Z1N7-1]
ENSMUST00000164035; ENSMUSP00000131677; ENSMUSG00000004661. [Q9Z1N7-3]
ENSMUST00000171444; ENSMUSP00000130173; ENSMUSG00000004661. [Q9Z1N7-1]
GeneIDi56380.
KEGGimmu:56380.
UCSCiuc009pvt.2. mouse. [Q9Z1N7-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF116847 mRNA. Translation: AAD09134.1 .
AK139455 mRNA. Translation: BAE24019.1 .
BC049776 mRNA. Translation: AAH49776.1 .
CCDSi CCDS23233.1. [Q9Z1N7-1 ]
RefSeqi NP_062663.1. NM_019689.2. [Q9Z1N7-1 ]
XP_006511354.1. XM_006511291.1. [Q9Z1N7-1 ]
UniGenei Mm.425588.

3D structure databases

ProteinModelPortali Q9Z1N7.
SMRi Q9Z1N7. Positions 174-326.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 207941. 3 interactions.
IntActi Q9Z1N7. 1 interaction.
STRINGi 10090.ENSMUSP00000109802.

PTM databases

PhosphoSitei Q9Z1N7.

Proteomic databases

PRIDEi Q9Z1N7.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000004780 ; ENSMUSP00000004780 ; ENSMUSG00000004661 . [Q9Z1N7-1 ]
ENSMUST00000164035 ; ENSMUSP00000131677 ; ENSMUSG00000004661 . [Q9Z1N7-3 ]
ENSMUST00000171444 ; ENSMUSP00000130173 ; ENSMUSG00000004661 . [Q9Z1N7-1 ]
GeneIDi 56380.
KEGGi mmu:56380.
UCSCi uc009pvt.2. mouse. [Q9Z1N7-1 ]

Organism-specific databases

CTDi 10620.
MGIi MGI:1930768. Arid3b.

Phylogenomic databases

eggNOGi NOG327790.
GeneTreei ENSGT00550000074575.
HOGENOMi HOG000236281.
HOVERGENi HBG103680.
InParanoidi Q9Z1N7.
OMAi FHVQKVA.
OrthoDBi EOG77DJ6W.
PhylomeDBi Q9Z1N7.
TreeFami TF320364.

Miscellaneous databases

ChiTaRSi Arid3b. mouse.
NextBioi 312460.
PROi Q9Z1N7.
SOURCEi Search...

Gene expression databases

Bgeei Q9Z1N7.
CleanExi MM_ARID3B.
ExpressionAtlasi Q9Z1N7. baseline and differential.
Genevestigatori Q9Z1N7.

Family and domain databases

Gene3Di 1.10.150.60. 1 hit.
InterProi IPR001606. ARID/BRIGHT_DNA-bd.
IPR023334. REKLES_domain.
[Graphical view ]
Pfami PF01388. ARID. 1 hit.
[Graphical view ]
SMARTi SM00501. BRIGHT. 1 hit.
[Graphical view ]
SUPFAMi SSF46774. SSF46774. 1 hit.
PROSITEi PS51011. ARID. 1 hit.
PS51486. REKLES. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Bdp, a new member of a family of DNA-binding proteins, associates with the retinoblastoma gene product."
    Numata S., Claudio P.P., Dean C., Giordano A., Croce C.M.
    Cancer Res. 59:3741-3747(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  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] (ISOFORM 3).
    Strain: C57BL/6J.
    Tissue: Brain cortex.
  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] (ISOFORM 2).
    Tissue: Embryo.
  4. "Microarray analysis of PDGFR alpha+ populations in ES cell differentiation culture identifies genes involved in differentiation of mesoderm and mesenchyme including ARID3b that is essential for development of embryonic mesenchymal cells."
    Takebe A., Era T., Okada M., Martin Jakt L., Kuroda Y., Nishikawa S.
    Dev. Biol. 293:25-37(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY, FUNCTION.

Entry informationi

Entry nameiARI3B_MOUSE
AccessioniPrimary (citable) accession number: Q9Z1N7
Secondary accession number(s): Q3UTG1, Q810L9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 10, 2007
Last sequence update: May 1, 1999
Last modified: November 26, 2014
This is version 82 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