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Protein

LIM/homeobox protein Lhx4

Gene

Lhx4

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

Functioni

May play a critical role in the development of respiratory control mechanisms and in the normal growth and maturation of the lung.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi157 – 21660HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • medial motor column neuron differentiation Source: MGI
  • motor neuron axon guidance Source: MGI
  • negative regulation of apoptotic process Source: MGI
  • organ morphogenesis Source: MGI
  • placenta development Source: MGI
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
LIM/homeobox protein Lhx4
Short name:
LIM homeobox protein 4
Gene namesi
Name:Lhx4
Synonyms:Gsh-4, Gsh4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 1

Organism-specific databases

MGIiMGI:101776. Lhx4.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  • intracellular Source: MGI
  • nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 390390LIM/homeobox protein Lhx4PRO_0000075788Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei70 – 701PhosphoserineBy similarity
Modified residuei234 – 2341PhosphoserineBy similarity
Modified residuei238 – 2381PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiP53776.
PRIDEiP53776.

PTM databases

iPTMnetiP53776.

Expressioni

Tissue specificityi

Transient expression in ventrolateral regions of the developing neural tube and hindbrain.

Gene expression databases

BgeeiP53776.
CleanExiMM_LHX4.
ExpressionAtlasiP53776. baseline and differential.
GenevisibleiP53776. MM.

Interactioni

Protein-protein interaction databases

BioGridi201157. 3 interactions.
STRINGi10090.ENSMUSP00000027740.

Structurei

Secondary structure

1
390
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni31 – 333Combined sources
Beta strandi40 – 456Combined sources
Beta strandi48 – 503Combined sources
Helixi52 – 543Combined sources
Turni58 – 603Combined sources
Beta strandi66 – 716Combined sources
Beta strandi74 – 763Combined sources
Helixi78 – 825Combined sources
Turni90 – 923Combined sources
Beta strandi102 – 1054Combined sources
Beta strandi108 – 1103Combined sources
Turni112 – 1143Combined sources
Turni118 – 1203Combined sources
Beta strandi129 – 1335Combined sources
Beta strandi138 – 1403Combined sources
Helixi141 – 1466Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3MMKX-ray2.16A/B24-149[»]
ProteinModelPortaliP53776.
SMRiP53776. Positions 26-148, 159-214.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini28 – 8760LIM zinc-binding 1PROSITE-ProRule annotationAdd
BLAST
Domaini88 – 15063LIM zinc-binding 2PROSITE-ProRule annotationAdd
BLAST

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

eggNOGiKOG4577. Eukaryota.
ENOG410XPDC. LUCA.
GeneTreeiENSGT00760000118921.
HOGENOMiHOG000231629.
HOVERGENiHBG006263.
InParanoidiP53776.
KOiK09374.
OMAiCSQHILD.
OrthoDBiEOG7PP56T.
PhylomeDBiP53776.
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.

P53776-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMQSAAVPAE GAVKGLPEML GVPMQQIPQC AGCNQHILDK FILKVLDRHW
60 70 80 90 100
HSSCLKCADC QMQLADRCFS RAGSVYCKED FFKRFGTKCT ACQQGIPPTQ
110 120 130 140 150
VVRKAQDFVY HLHCFACIIC NRQLATGDEF YLMEDGRLVC KEDYETAKQN
160 170 180 190 200
DDSEAGAKRP RTTITAKQLE TLKNAYKNSP KPARHVREQL SSETGLDMRV
210 220 230 240 250
VQVWFQNRRA KEKRLKKDAG RHRWGQFYKS VKRSRGGSKQ EKESSAEDCG
260 270 280 290 300
VSDSELSFRE DQILSELGHT NRIYGNVGDV TGGQLMNGSF SMDGTGQSYQ
310 320 330 340 350
DLRDGSPYGI PQSPSSISSL PSHAPLLNGL DYTVDSNLGI IAHAGQGVSQ
360 370 380 390
TLRAMAGGPT SDLSTGSSVG YPDFPTSPAS WLDEMDHPPF
Length:390
Mass (Da):43,078
Last modified:October 14, 2008 - v4
Checksum:iFF70967D30C724C4
GO

Sequence cautioni

The sequence AAD30125.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti377 – 3771S → T in AAH49834 (PubMed:15489334).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC049834 mRNA. Translation: AAH49834.1.
AF135415 mRNA. Translation: AAD30125.1. Different initiation.
U89343 mRNA. Translation: AAC53336.1.
S71659 mRNA. Translation: AAB31260.1.
CCDSiCCDS48399.1.
PIRiS46332.
RefSeqiNP_034842.2. NM_010712.2.
UniGeneiMm.103624.
Mm.351266.

Genome annotation databases

EnsembliENSMUST00000027740; ENSMUSP00000027740; ENSMUSG00000026468.
GeneIDi16872.
KEGGimmu:16872.
UCSCiuc007dbn.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC049834 mRNA. Translation: AAH49834.1.
AF135415 mRNA. Translation: AAD30125.1. Different initiation.
U89343 mRNA. Translation: AAC53336.1.
S71659 mRNA. Translation: AAB31260.1.
CCDSiCCDS48399.1.
PIRiS46332.
RefSeqiNP_034842.2. NM_010712.2.
UniGeneiMm.103624.
Mm.351266.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3MMKX-ray2.16A/B24-149[»]
ProteinModelPortaliP53776.
SMRiP53776. Positions 26-148, 159-214.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi201157. 3 interactions.
STRINGi10090.ENSMUSP00000027740.

PTM databases

iPTMnetiP53776.

Proteomic databases

PaxDbiP53776.
PRIDEiP53776.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000027740; ENSMUSP00000027740; ENSMUSG00000026468.
GeneIDi16872.
KEGGimmu:16872.
UCSCiuc007dbn.2. mouse.

Organism-specific databases

CTDi89884.
MGIiMGI:101776. Lhx4.

Phylogenomic databases

eggNOGiKOG4577. Eukaryota.
ENOG410XPDC. LUCA.
GeneTreeiENSGT00760000118921.
HOGENOMiHOG000231629.
HOVERGENiHBG006263.
InParanoidiP53776.
KOiK09374.
OMAiCSQHILD.
OrthoDBiEOG7PP56T.
PhylomeDBiP53776.
TreeFamiTF315442.

Miscellaneous databases

PROiP53776.
SOURCEiSearch...

Gene expression databases

BgeeiP53776.
CleanExiMM_LHX4.
ExpressionAtlasiP53776. baseline and differential.
GenevisibleiP53776. 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

« Hide 'large scale' publications
  1. "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: Eye.
  2. Sakai T., Kawaguchi A., Nagashima M.
    Submitted (MAR-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 23-390.
  3. Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 30-219.
    Strain: FVB/N.
    Tissue: Embryo.
  4. "Gsh-4 encodes a LIM-type homeodomain, is expressed in the developing central nervous system and is required for early postnatal survival."
    Li H., Witte D.P., Branford W.W., Aronow B.J., Weinstein M., Kaur S., Wert S., Singh G., Schreiner C.M., Whitsett J.A., Scott W.J. Jr., Potter S.S.
    EMBO J. 13:2876-2885(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 161-390.

Entry informationi

Entry nameiLHX4_MOUSE
AccessioniPrimary (citable) accession number: P53776
Secondary accession number(s): O08916, Q810K7, Q9R280
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 14, 2008
Last modified: July 6, 2016
This is version 129 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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 one 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.