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Protein

LIM domain transcription factor LMO4

Gene

LMO4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Probable transcriptional factor.By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. negative regulation of protein complex assembly Source: Ensembl
  2. neural tube closure Source: UniProtKB
  3. positive regulation of transcription from RNA polymerase II promoter Source: Ensembl
  4. regulation of cell activation Source: Ensembl
  5. regulation of cell fate specification Source: Ensembl
  6. spinal cord association neuron differentiation Source: Ensembl
  7. spinal cord motor neuron differentiation Source: Ensembl
  8. thymus development Source: Ensembl
  9. transcription from RNA polymerase II promoter Source: UniProtKB
  10. ventral spinal cord interneuron differentiation Source: Ensembl
  11. ventricular septum development Source: Ensembl
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
LIM domain transcription factor LMO4
Alternative name(s):
Breast tumor autoantigen
LIM domain only protein 4
Short name:
LMO-4
Gene namesi
Name:LMO4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:6644. LMO4.

Subcellular locationi

GO - Cellular componenti

  1. transcription factor complex Source: UniProtKB
Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA30410.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 165165LIM domain transcription factor LMO4PRO_0000075820Add
BLAST

Proteomic databases

MaxQBiP61968.
PaxDbiP61968.
PRIDEiP61968.

Expressioni

Gene expression databases

BgeeiP61968.
CleanExiHS_LMO4.
GenevestigatoriP61968.

Organism-specific databases

HPAiCAB022345.

Interactioni

Subunit structurei

Interacts strongly with LDBS. Interacts with DEAF1; LMO4 blocks export from nucleus. Interacts with CLIM1 and CLIM2. Interacts (via the LIM zinc-binding domain 1) with RBBP8. Interacts with BRCA1 (via the BRCT domains); the interaction represses BRCA1 transcriptional activity (By similarity).By similarity

Protein-protein interaction databases

BioGridi114113. 60 interactions.
IntActiP61968. 22 interactions.
MINTiMINT-265427.
STRINGi9606.ENSP00000359573.

Structurei

Secondary structure

1
165
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi21 – 299Combined sources
Beta strandi32 – 387Combined sources
Beta strandi41 – 444Combined sources
Turni45 – 473Combined sources
Turni51 – 533Combined sources
Helixi57 – 593Combined sources
Beta strandi67 – 693Combined sources
Helixi74 – 807Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2L4ZNMR-A16-82[»]
ProteinModelPortaliP61968.
SMRiP61968. Positions 19-147.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP61968.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini23 – 8361LIM zinc-binding 1PROSITE-ProRule annotationAdd
BLAST
Domaini87 – 14761LIM zinc-binding 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 2 LIM zinc-binding domains.PROSITE-ProRule annotation

Keywords - Domaini

LIM domain, Repeat

Phylogenomic databases

eggNOGiNOG314117.
GeneTreeiENSGT00720000108603.
HOGENOMiHOG000232175.
HOVERGENiHBG054231.
InParanoidiP61968.
OMAiDRYWHTG.
OrthoDBiEOG75J0PF.
PhylomeDBiP61968.
TreeFamiTF351071.

Family and domain databases

Gene3Di2.10.110.10. 2 hits.
InterProiIPR001781. Znf_LIM.
[Graphical view]
PfamiPF00412. LIM. 2 hits.
[Graphical view]
SMARTiSM00132. LIM. 2 hits.
[Graphical view]
PROSITEiPS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P61968-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVNPGSSSQP PPVTAGSLSW KRCAGCGGKI ADRFLLYAMD SYWHSRCLKC
60 70 80 90 100
SCCQAQLGDI GTSCYTKSGM ILCRNDYIRL FGNSGACSAC GQSIPASELV
110 120 130 140 150
MRAQGNVYHL KCFTCSTCRN RLVPGDRFHY INGSLFCEHD RPTALINGHL
160
NSLQSNPLLP DQKVC
Length:165
Mass (Da):17,994
Last modified:June 7, 2004 - v1
Checksum:iC8AC295144AD7787
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U24576 mRNA. Translation: AAB51073.1.
CH471097 Genomic DNA. Translation: EAW73168.1.
CH471097 Genomic DNA. Translation: EAW73169.1.
BC003600 mRNA. Translation: AAH03600.1.
BC017673 mRNA. Translation: AAH17673.1.
BC065818 mRNA. Translation: AAH65818.1.
CCDSiCCDS713.1.
RefSeqiNP_006760.1. NM_006769.3.
XP_005271348.1. XM_005271291.1.
UniGeneiHs.436792.

Genome annotation databases

EnsembliENST00000370542; ENSP00000359573; ENSG00000143013.
ENST00000370544; ENSP00000359575; ENSG00000143013.
GeneIDi8543.
KEGGihsa:8543.
UCSCiuc001dmi.3. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U24576 mRNA. Translation: AAB51073.1.
CH471097 Genomic DNA. Translation: EAW73168.1.
CH471097 Genomic DNA. Translation: EAW73169.1.
BC003600 mRNA. Translation: AAH03600.1.
BC017673 mRNA. Translation: AAH17673.1.
BC065818 mRNA. Translation: AAH65818.1.
CCDSiCCDS713.1.
RefSeqiNP_006760.1. NM_006769.3.
XP_005271348.1. XM_005271291.1.
UniGeneiHs.436792.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2L4ZNMR-A16-82[»]
ProteinModelPortaliP61968.
SMRiP61968. Positions 19-147.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114113. 60 interactions.
IntActiP61968. 22 interactions.
MINTiMINT-265427.
STRINGi9606.ENSP00000359573.

Proteomic databases

MaxQBiP61968.
PaxDbiP61968.
PRIDEiP61968.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000370542; ENSP00000359573; ENSG00000143013.
ENST00000370544; ENSP00000359575; ENSG00000143013.
GeneIDi8543.
KEGGihsa:8543.
UCSCiuc001dmi.3. human.

Organism-specific databases

CTDi8543.
GeneCardsiGC01P087794.
HGNCiHGNC:6644. LMO4.
HPAiCAB022345.
MIMi603129. gene.
neXtProtiNX_P61968.
PharmGKBiPA30410.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG314117.
GeneTreeiENSGT00720000108603.
HOGENOMiHOG000232175.
HOVERGENiHBG054231.
InParanoidiP61968.
OMAiDRYWHTG.
OrthoDBiEOG75J0PF.
PhylomeDBiP61968.
TreeFamiTF351071.

Miscellaneous databases

ChiTaRSiLMO4. human.
EvolutionaryTraceiP61968.
GeneWikiiLMO4.
GenomeRNAii8543.
NextBioi32002.
PROiP61968.
SOURCEiSearch...

Gene expression databases

BgeeiP61968.
CleanExiHS_LMO4.
GenevestigatoriP61968.

Family and domain databases

Gene3Di2.10.110.10. 2 hits.
InterProiIPR001781. Znf_LIM.
[Graphical view]
PfamiPF00412. LIM. 2 hits.
[Graphical view]
SMARTiSM00132. LIM. 2 hits.
[Graphical view]
PROSITEiPS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular cloning of LMO4, a new human LIM domain gene."
    Racevskis J., Dill A., Sparano J.A., Ruan H.
    Biochim. Biophys. Acta 1445:148-153(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Mammary tumor.
  2. 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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Eye, Lung and PNS.

Entry informationi

Entry nameiLMO4_HUMAN
AccessioniPrimary (citable) accession number: P61968
Secondary accession number(s): D3DT23, O00158, O88894
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2004
Last sequence update: June 7, 2004
Last modified: March 4, 2015
This is version 103 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.