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Protein

LIM/homeobox protein Lhx5

Gene

lhx5

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Probably involved in the patterning of the nervous system, in particular in the early specification of the diencephalon.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi180 – 23960HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • eye development Source: ZFIN
  • forebrain development Source: ZFIN
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
LIM/homeobox protein Lhx5
Short name:
LIM homeobox protein 5
Alternative name(s):
Homeobox protein LIM-5
Gene namesi
Name:lhx5
Synonyms:lim5
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 21

Organism-specific databases

ZFINiZDB-GENE-980526-484. lhx5.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 399399LIM/homeobox protein Lhx5PRO_0000075792Add
BLAST

Proteomic databases

PaxDbiP52889.

Expressioni

Gene expression databases

BgeeiP52889.

Interactioni

Protein-protein interaction databases

BioGridi78646. 3 interactions.
STRINGi7955.ENSDARP00000075139.

Structurei

3D structure databases

ProteinModelPortaliP52889.
SMRiP52889. Positions 4-122.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 6159LIM zinc-binding 1PROSITE-ProRule annotationAdd
BLAST
Domaini62 – 12564LIM 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

eggNOGiKOG0490. Eukaryota.
ENOG410YIJ3. LUCA.
GeneTreeiENSGT00760000118921.
HOGENOMiHOG000231630.
HOVERGENiHBG006263.
InParanoidiP52889.
KOiK18493.
OMAiQDPMQDD.
OrthoDBiEOG7PP56T.
PhylomeDBiP52889.
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.

P52889-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMVHCAGCER PILDRFLLNV LDRAWHAKCV QCCECNCNLT EKCFSRDGKL
60 70 80 90 100
YCKIDFFRRF GTKCAGCLQG ISPSDLVRRA RSKVFHLNCF TCMVCNKQLS
110 120 130 140 150
TGEELYVIDE NKFVCKEDYL SASAIKEVNL NSVSSCTDRS LSPDLPDQIQ
160 170 180 190 200
DDTKETDNST SSDKDTNNNE NEEQNSCTKR RGPRTTIKAK QLETLKAAFV
210 220 230 240 250
ATPKPTRHIR EQLAQETGLN MRVIQVWFQN RRSKERRMKQ LSALGARRHA
260 270 280 290 300
FFRGPRRMRP LGGRLEDPDI MGPGGYSYYG EYQGDYYGPV VNYDFFPHGP
310 320 330 340 350
PSSQAHSPAE SPYLLSSGSG ALEGGPVSAH HPSDDQRFTD MISHADTPSP
360 370 380 390
EPGMTGPLHS NPQGEGGFTG SPPFPLANNT SYSGPMSHPG QEMGENTVW
Length:399
Mass (Da):44,513
Last modified:October 1, 1996 - v1
Checksum:iC0D7BB1B86D032DA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L42547 mRNA. Translation: AAA99465.1.
BC098523 mRNA. Translation: AAH98523.1.
RefSeqiNP_571293.1. NM_131218.1.
UniGeneiDr.75068.

Genome annotation databases

EnsembliENSDART00000080693; ENSDARP00000075139; ENSDARG00000057936.
GeneIDi30465.
KEGGidre:30465.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L42547 mRNA. Translation: AAA99465.1.
BC098523 mRNA. Translation: AAH98523.1.
RefSeqiNP_571293.1. NM_131218.1.
UniGeneiDr.75068.

3D structure databases

ProteinModelPortaliP52889.
SMRiP52889. Positions 4-122.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi78646. 3 interactions.
STRINGi7955.ENSDARP00000075139.

Proteomic databases

PaxDbiP52889.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000080693; ENSDARP00000075139; ENSDARG00000057936.
GeneIDi30465.
KEGGidre:30465.

Organism-specific databases

CTDi64211.
ZFINiZDB-GENE-980526-484. lhx5.

Phylogenomic databases

eggNOGiKOG0490. Eukaryota.
ENOG410YIJ3. LUCA.
GeneTreeiENSGT00760000118921.
HOGENOMiHOG000231630.
HOVERGENiHBG006263.
InParanoidiP52889.
KOiK18493.
OMAiQDPMQDD.
OrthoDBiEOG7PP56T.
PhylomeDBiP52889.
TreeFamiTF315442.

Miscellaneous databases

NextBioi20806859.
PROiP52889.

Gene expression databases

BgeeiP52889.

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 LIM class homeobox gene lim5: implied role in CNS patterning in Xenopus and zebrafish."
    Toyama R., Curtiss P.E., Otani H., Kimura M., Dawid I.B., Taira M.
    Dev. Biol. 170:583-593(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Embryo.

Entry informationi

Entry nameiLHX5_DANRE
AccessioniPrimary (citable) accession number: P52889
Secondary accession number(s): Q4KMK6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: November 11, 2015
This is version 112 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. 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.