P53776 (LHX4_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
LIM/homeobox protein Lhx4
Short name=LIM homeobox protein 4

Gene names

Name:	Lhx4
Synonyms:	Gsh-4, Gsh4

Organism

Mus musculus (Mouse)

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	390 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	May play a critical role in the development of respiratory control mechanisms and in the normal growth and maturation of the lung.
Subcellular location	Nucleus Potential.
Tissue specificity	Transient expression in ventrolateral regions of the developing neural tube and hindbrain.
Sequence similarities	Contains 1 homeobox DNA-binding domain. Contains 2 LIM zinc-binding domains.
Sequence caution	The sequence AAD30125.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Homeobox LIM domain Repeat
Ligand	DNA-binding Metal-binding Zinc
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	anti-apoptosis Inferred from mutant phenotype. Source: MGI medial motor column neuron differentiation Inferred from genetic interaction. Source: MGI motor axon guidance Inferred from genetic interaction. Source: MGI organ morphogenesis Inferred from mutant phenotype. Source: MGI transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 390

390

LIM/homeobox protein Lhx4

PRO_0000075788

Regions

Domain

28 – 87

60

LIM zinc-binding 1

Domain

88 – 150

63

LIM zinc-binding 2

DNA binding

157 – 216

60

Homeobox

Experimental info

Sequence conflict

377

1

S → T in AAH49834. Ref.1

Secondary structure

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390

Helix Strand Turn

Details...

Turn

31 – 33

3

Beta strand

40 – 45

6

Beta strand

48 – 50

3

Helix

52 – 54

3

Turn

58 – 60

3

Beta strand

66 – 71

6

Beta strand

74 – 76

3

Helix

78 – 82

5

Turn

90 – 92

3

Beta strand

102 – 105

4

Beta strand

108 – 110

3

Turn

112 – 114

3

Turn

118 – 120

3

Beta strand

129 – 133

5

Beta strand

138 – 140

3

Helix

141 – 146

6

Sequences

	Sequence		Length	Mass (Da)
	P53776 [UniParc]. Last modified October 14, 2008. Version 4. Checksum: FF70967D30C724C4	FASTA	390	43,078
	10 20 30 40 50 60 MMQSAAVPAE GAVKGLPEML GVPMQQIPQC AGCNQHILDK FILKVLDRHW HSSCLKCADC 70 80 90 100 110 120 QMQLADRCFS RAGSVYCKED FFKRFGTKCT ACQQGIPPTQ VVRKAQDFVY HLHCFACIIC 130 140 150 160 170 180 NRQLATGDEF YLMEDGRLVC KEDYETAKQN DDSEAGAKRP RTTITAKQLE TLKNAYKNSP 190 200 210 220 230 240 KPARHVREQL SSETGLDMRV VQVWFQNRRA KEKRLKKDAG RHRWGQFYKS VKRSRGGSKQ 250 260 270 280 290 300 EKESSAEDCG VSDSELSFRE DQILSELGHT NRIYGNVGDV TGGQLMNGSF SMDGTGQSYQ 310 320 330 340 350 360 DLRDGSPYGI PQSPSSISSL PSHAPLLNGL DYTVDSNLGI IAHAGQGVSQ TLRAMAGGPT 370 380 390 SDLSTGSSVG YPDFPTSPAS WLDEMDHPPF

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 15489334] [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]	"Lhx4, a LIM homeobox gene." Yamashita T., Moriyama K., Sheng H.Z., Westphal H. Genomics 44:144-146(1997) [PubMed: 9286712] [Abstract] 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: 7913017] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 161-390.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

BC049834 mRNA. Translation: AAH49834.1.
AF135415 mRNA. Translation: AAD30125.1. Different initiation.
U89343 mRNA. Translation: AAC53336.1.
S71659 mRNA. Translation: AAB31260.1.

IPI

IPI00134772.

PIR

S46332.

RefSeq

NP_034842.2. NM_010712.2.

UniGene

Mm.103624.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3MMK	X-ray	2.16	A/B	24-149	[»]

ProteinModelPortal

P53776.

SMR

P53776. Positions 26-148, 156-217.

ModBase

Search...

Protein-protein interaction databases

STRING

P53776.

Proteomic databases

PRIDE

P53776.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENSMUST00000027740; ENSMUSP00000027740; ENSMUSG00000026468.

GeneID

16872.

KEGG

mmu:16872.

UCSC

uc007dbn.2. mouse.

Organism-specific databases

CTD

89884.

MGI

MGI:101776. Lhx4.

Phylogenomic databases

eggNOG

roNOG05753.

GeneTree

ENSGT00590000082852.

HOGENOM

HBG714129.

HOVERGEN

HBG006263.

InParanoid

P53776.

OMA

LSFRDDQ.

OrthoDB

EOG4SBDZ0.

PhylomeDB

P53776.

Gene expression databases

ArrayExpress

P53776.

Bgee

P53776.

CleanEx

MM_LHX4.

Genevestigator

P53776.

GermOnline

ENSMUSG00000026468. Mus musculus.

Family and domain databases

InterPro

IPR001356. Homeobox.
IPR017970. Homeobox_CS.
IPR009057. Homeodomain-like.
IPR012287. Homeodomain-rel.
IPR001781. Znf_LIM.
[Graphical view]

Gene3D

G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.
G3DSA:2.10.110.10. Znf_LIM. 2 hits.

KO

K09374.

Pfam

PF00046. Homeobox. 1 hit.
PF00412. LIM. 2 hits.
[Graphical view]

SMART

SM00389. HOX. 1 hit.
SM00132. LIM. 2 hits.
[Graphical view]

SUPFAM

SSF46689. Homeodomain_like. 1 hit.

PROSITE

PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
PS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 2 hits.
[Graphical view]

ProtoNet

Search...

Other

SOURCE

Search...

Entry information

Entry name

LHX4_MOUSE

Accession

Primary (citable) accession number: P53776
Secondary accession number(s): O08916, Q810K7, Q9R280

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	October 14, 2008
Last modified:	December 14, 2011
This is version 95 of the entry and version 4 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program