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O88609

- LMX1B_MOUSE

UniProt

O88609 - LMX1B_MOUSE

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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

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 – 27860Homeobox
Add
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
Complete GO annotation...

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 Reviewed prediction

GO - Cellular componenti

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

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 395395LIM homeobox transcription factor 1-beta
PRO_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.

Family & Domainsi

Domains and Repeats

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

Compositional bias

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

Sequence similaritiesi

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.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti311 – 3111P → A in AAC27793. 1 Publication

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 125 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

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