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Protein

LIM homeobox transcription factor 1-alpha

Gene

Lmx1a

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

Functioni

Acts as a transcriptional activator by binding to an A/T-rich sequence, the FLAT element, in the insulin gene promoter. Required for development of the roof plate and, in turn, for specification of dorsal cell fates in the CNS and developing vertebrae.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi195 – 25460HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • axon guidance Source: MGI
  • central nervous system development Source: MGI
  • central nervous system neuron differentiation Source: MGI
  • cerebellum development Source: MGI
  • dentate gyrus development Source: MGI
  • dopaminergic neuron differentiation Source: MGI
  • hippocampus development Source: MGI
  • midbrain development Source: MGI
  • negative regulation of neuron differentiation Source: MGI
  • neuron differentiation Source: MGI
  • regulation of cell growth Source: MGI
  • regulation of gene expression Source: MGI
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • 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-alpha
Alternative name(s):
LIM/homeobox protein 1.1
Short name:
LMX-1.1
LIM/homeobox protein LMX1A
Gene namesi
Name:Lmx1a
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 1

Organism-specific databases

MGIiMGI:1888519. Lmx1a.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Involvement in diseasei

Defects in Lmx1a are the cause of the spontaneous neurologic mutant mouse, called 'dreher' (dr) and results from a failure of the roof plate to develop.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 382382LIM homeobox transcription factor 1-alphaPRO_0000075827Add
BLAST

Proteomic databases

PRIDEiQ9JKU8.

PTM databases

PhosphoSiteiQ9JKU8.

Expressioni

Gene expression databases

BgeeiQ9JKU8.
CleanExiMM_LMX1A.
ExpressionAtlasiQ9JKU8. baseline and differential.
GenevisibleiQ9JKU8. MM.

Interactioni

Protein-protein interaction databases

BioGridi225780. 5 interactions.
STRINGi10090.ENSMUSP00000028003.

Structurei

3D structure databases

ProteinModelPortaliQ9JKU8.
SMRiQ9JKU8. Positions 34-153, 196-258.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini33 – 9260LIM zinc-binding 1PROSITE-ProRule annotationAdd
BLAST
Domaini92 – 15463LIM zinc-binding 2PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi240 – 27435Gln-richAdd
BLAST
Compositional biasi257 – 2659Poly-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.
GeneTreeiENSGT00760000118921.
HOGENOMiHOG000231629.
HOVERGENiHBG052335.
InParanoidiQ9JKU8.
KOiK09371.
OMAiEQSVYNS.
OrthoDBiEOG7BZVTB.
PhylomeDBiQ9JKU8.
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.

Q9JKU8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLDGLKMEEN FQSAIETSAS FSSLLGRAVS PKSVCEGCQR VISDRFLLRL
60 70 80 90 100
NDSFWHEQCV QCASCKEPLE TTCFYRDKKL YCKYHYEKLF AVKCGGCFEA
110 120 130 140 150
IAPNEFVMRA QKSVYHLSCF CCCVCERQLQ KGDEFVLKEG QLLCKGDYEK
160 170 180 190 200
ERELLSLVSP AASDSGKSDD EESLCKSAHG AGKGASEDGK DHKRPKRPRT
210 220 230 240 250
ILTTQQRRAF KASFEVSSKP CRKVRETLAA ETGLSVRVVQ VWFQNQRAKM
260 270 280 290 300
KKLARRQQQQ QQDQQNTQRL TSAQTNGSGN AGMEGIMNPY TTLPTPQQLL
310 320 330 340 350
AIEQSVYNSD PFRQGLTPPQ MPGDHMHPYG AEPLFHDLDS DDTSLSNLGD
360 370 380
CFLATSEAGP LQSRVGNPID HLYSMQNSYF TS
Length:382
Mass (Da):42,857
Last modified:October 1, 2000 - v1
Checksum:i6C856843FEAC6706
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF226662 mRNA. Translation: AAF43012.1.
CCDSiCCDS15460.1.
RefSeqiNP_387501.1. NM_033652.5.
XP_006496674.1. XM_006496611.1.
UniGeneiMm.330081.

Genome annotation databases

EnsembliENSMUST00000028003; ENSMUSP00000028003; ENSMUSG00000026686.
ENSMUST00000111377; ENSMUSP00000107008; ENSMUSG00000026686.
GeneIDi110648.
KEGGimmu:110648.
UCSCiuc007dlc.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF226662 mRNA. Translation: AAF43012.1.
CCDSiCCDS15460.1.
RefSeqiNP_387501.1. NM_033652.5.
XP_006496674.1. XM_006496611.1.
UniGeneiMm.330081.

3D structure databases

ProteinModelPortaliQ9JKU8.
SMRiQ9JKU8. Positions 34-153, 196-258.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi225780. 5 interactions.
STRINGi10090.ENSMUSP00000028003.

PTM databases

PhosphoSiteiQ9JKU8.

Proteomic databases

PRIDEiQ9JKU8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000028003; ENSMUSP00000028003; ENSMUSG00000026686.
ENSMUST00000111377; ENSMUSP00000107008; ENSMUSG00000026686.
GeneIDi110648.
KEGGimmu:110648.
UCSCiuc007dlc.1. mouse.

Organism-specific databases

CTDi4009.
MGIiMGI:1888519. Lmx1a.

Phylogenomic databases

eggNOGiNOG243427.
GeneTreeiENSGT00760000118921.
HOGENOMiHOG000231629.
HOVERGENiHBG052335.
InParanoidiQ9JKU8.
KOiK09371.
OMAiEQSVYNS.
OrthoDBiEOG7BZVTB.
PhylomeDBiQ9JKU8.
TreeFamiTF315442.

Miscellaneous databases

NextBioi364391.
PROiQ9JKU8.
SOURCEiSearch...

Gene expression databases

BgeeiQ9JKU8.
CleanExiMM_LMX1A.
ExpressionAtlasiQ9JKU8. baseline and differential.
GenevisibleiQ9JKU8. MM.

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]
ProtoNetiSearch...

Publicationsi

  1. "The mouse Dreher gene Lmx1a controls formation of the roof plate in the vertebrate CNS."
    Millonig J.H., Millen K.J., Hatten M.E.
    Nature 403:764-769(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: C3HeB/Fele-a/a.

Entry informationi

Entry nameiLMX1A_MOUSE
AccessioniPrimary (citable) accession number: Q9JKU8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 27, 2003
Last sequence update: October 1, 2000
Last modified: June 24, 2015
This is version 116 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

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.