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O88609

- LMX1B_MOUSE

UniProt

O88609 - LMX1B_MOUSE

Protein

LIM homeobox transcription factor 1-beta

Gene

Lmx1b

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 126 (01 Oct 2014)
      Sequence version 3 (01 May 2013)
      Previous versions | rss
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    Functioni

    Essential for the specification of dorsal limb fate at both the zeugopodal and autopodal levels.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi219 – 27860HomeoboxPROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. sequence-specific DNA binding Source: InterPro
    2. sequence-specific DNA binding transcription factor activity Source: InterPro
    3. zinc ion binding Source: InterPro

    GO - Biological processi

    1. camera-type eye development Source: MGI
    2. cell proliferation Source: MGI
    3. central nervous system neuron development Source: MGI
    4. cerebellum morphogenesis Source: MGI
    5. collagen fibril organization Source: MGI
    6. dopaminergic neuron differentiation Source: MGI
    7. dorsal/ventral pattern formation Source: UniProtKB
    8. embryonic limb morphogenesis Source: UniProtKB
    9. limb morphogenesis Source: MGI
    10. midbrain development Source: MGI
    11. neuron differentiation Source: MGI
    12. neuron migration Source: MGI
    13. organ growth Source: MGI
    14. positive regulation of transcription from RNA polymerase II promoter Source: MGI
    15. regulation of gene expression Source: MGI
    16. regulation of transcription from RNA polymerase II promoter Source: MGI
    17. trabecular meshwork development Source: MGI
    18. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Activator, Developmental protein

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding, Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    LIM homeobox transcription factor 1-beta
    Alternative name(s):
    LIM/homeobox protein 1.2
    Short name:
    LMX-1.2
    LIM/homeobox protein LMX1B
    Gene namesi
    Name:Lmx1b
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 2

    Organism-specific databases

    MGIiMGI:1100513. Lmx1b.

    Subcellular locationi

    Nucleus PROSITE-ProRule annotation

    GO - Cellular componenti

    1. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 395395LIM homeobox transcription factor 1-betaPRO_0000075830Add
    BLAST

    Proteomic databases

    PRIDEiO88609.

    PTM databases

    PhosphoSiteiO88609.

    Expressioni

    Gene expression databases

    BgeeiO88609.
    CleanExiMM_LMX1B.
    GenevestigatoriO88609.

    Interactioni

    Protein-protein interaction databases

    BioGridi201183. 7 interactions.
    STRINGi10090.ENSMUSP00000043616.

    Structurei

    3D structure databases

    ProteinModelPortaliO88609.
    SMRiO88609. Positions 4-173, 214-276.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini56 – 10651LIM zinc-binding 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini115 – 16854LIM zinc-binding 2PROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi282 – 2887Poly-Gln

    Sequence similaritiesi

    Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation
    Contains 2 LIM zinc-binding domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Homeobox, LIM domain, Repeat

    Phylogenomic databases

    eggNOGiNOG243427.
    GeneTreeiENSGT00750000117665.
    HOGENOMiHOG000231629.
    HOVERGENiHBG052335.
    InParanoidiQ0VEN6.
    KOiK09371.
    OrthoDBiEOG7BZVTB.
    TreeFamiTF315442.

    Family and domain databases

    Gene3Di1.10.10.60. 1 hit.
    2.10.110.10. 2 hits.
    InterProiIPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR009057. Homeodomain-like.
    IPR001781. Znf_LIM.
    [Graphical view]
    PfamiPF00046. Homeobox. 1 hit.
    PF00412. LIM. 2 hits.
    [Graphical view]
    SMARTiSM00389. HOX. 1 hit.
    SM00132. LIM. 2 hits.
    [Graphical view]
    SUPFAMiSSF46689. SSF46689. 1 hit.
    PROSITEiPS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    PS00478. LIM_DOMAIN_1. 2 hits.
    PS50023. LIM_DOMAIN_2. 2 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O88609-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDIATGPESL ERCFPRGQTD CAKMLDGIKM EEHALRPGPA TLGVLLGSDC    50
    PHPAVCEGCQ RPISDRFLMR VNESSWHEEC LQCAACQQAL TTSCYFRDRK 100
    LYCKQDYQQL FAAKCSGCME KIAPTEFVMR ALECVYHLGC FCCCVCERQL 150
    RKGDEFVLKE GQLLCKGDYE KEKDLLSSVS PDESDSVKSE DEDGDMKPAK 200
    GQGSQSKGSG DDGKDPRRPK RPRTILTTQQ RRAFKASFEV SSKPCRKVRE 250
    TLAAETGLSV RVVQVWFQNQ RAKMKKLARR HQQQQEQQNS QRLGQEVLSS 300
    RMEGMMASYT PLAPPQQQIV AMEQSPYGSS DPFQQGLTPP QMPGNDSIFH 350
    DIDSDTSLTS LSDCFLGSSD VGSLQARVGN PIDRLYSMQS SYFAS 395
    Length:395
    Mass (Da):44,102
    Last modified:May 1, 2013 - v3
    Checksum:i9FFBF8A68E7AC676
    GO

    Sequence cautioni

    The sequence AAC27793.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
    The sequence AAI19170.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
    The sequence AAI25470.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
    The sequence CAM26554.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
    The sequence EDL08602.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti311 – 3111P → A in AAC27793. (PubMed:9590288)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL929212 Genomic DNA. Translation: CAM26554.1. Different initiation.
    CH466542 Genomic DNA. Translation: EDL08602.1. Different initiation.
    BC119169 mRNA. Translation: AAI19170.1. Different initiation.
    BC125469 mRNA. Translation: AAI25470.1. Different initiation.
    AF078166 mRNA. Translation: AAC27793.1. Different initiation.
    RefSeqiNP_034855.2. NM_010725.2.
    UniGeneiMm.39825.

    Genome annotation databases

    EnsembliENSMUST00000041730; ENSMUSP00000043616; ENSMUSG00000038765.
    GeneIDi16917.
    KEGGimmu:16917.
    UCSCiuc008jhy.2. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL929212 Genomic DNA. Translation: CAM26554.1 . Different initiation.
    CH466542 Genomic DNA. Translation: EDL08602.1 . Different initiation.
    BC119169 mRNA. Translation: AAI19170.1 . Different initiation.
    BC125469 mRNA. Translation: AAI25470.1 . Different initiation.
    AF078166 mRNA. Translation: AAC27793.1 . Different initiation.
    RefSeqi NP_034855.2. NM_010725.2.
    UniGenei Mm.39825.

    3D structure databases

    ProteinModelPortali O88609.
    SMRi O88609. Positions 4-173, 214-276.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 201183. 7 interactions.
    STRINGi 10090.ENSMUSP00000043616.

    PTM databases

    PhosphoSitei O88609.

    Proteomic databases

    PRIDEi O88609.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000041730 ; ENSMUSP00000043616 ; ENSMUSG00000038765 .
    GeneIDi 16917.
    KEGGi mmu:16917.
    UCSCi uc008jhy.2. mouse.

    Organism-specific databases

    CTDi 4010.
    MGIi MGI:1100513. Lmx1b.

    Phylogenomic databases

    eggNOGi NOG243427.
    GeneTreei ENSGT00750000117665.
    HOGENOMi HOG000231629.
    HOVERGENi HBG052335.
    InParanoidi Q0VEN6.
    KOi K09371.
    OrthoDBi EOG7BZVTB.
    TreeFami TF315442.

    Miscellaneous databases

    NextBioi 290964.
    PROi O88609.
    SOURCEi Search...

    Gene expression databases

    Bgeei O88609.
    CleanExi MM_LMX1B.
    Genevestigatori O88609.

    Family and domain databases

    Gene3Di 1.10.10.60. 1 hit.
    2.10.110.10. 2 hits.
    InterProi IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR009057. Homeodomain-like.
    IPR001781. Znf_LIM.
    [Graphical view ]
    Pfami PF00046. Homeobox. 1 hit.
    PF00412. LIM. 2 hits.
    [Graphical view ]
    SMARTi SM00389. HOX. 1 hit.
    SM00132. LIM. 2 hits.
    [Graphical view ]
    SUPFAMi SSF46689. SSF46689. 1 hit.
    PROSITEi PS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    PS00478. LIM_DOMAIN_1. 2 hits.
    PS50023. LIM_DOMAIN_2. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C57BL/6J.
    2. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
      Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    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].
      Tissue: Brain.
    4. "Limb and kidney defects in Lmx1b mutant mice suggest an involvement of LMX1B in human nail patella syndrome."
      Chen H., Lun Y., Ovchinnikov D., Kokubo H., Oberg K.C., Pepicelli C.V., Gan L., Lee B., Johnson R.L.
      Nat. Genet. 19:51-55(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 24-395.

    Entry informationi

    Entry nameiLMX1B_MOUSE
    AccessioniPrimary (citable) accession number: O88609
    Secondary accession number(s): Q0VEN6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: May 1, 2013
    Last modified: October 1, 2014
    This is version 126 of the entry and version 3 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