Q543W2 (Q543W2_MOUSE) Unreviewed, UniProtKB/TrEMBL

Names and origin

Protein names

Submitted name:
LIM homeobox transcription factor 1 alpha EMBL AAI09168.1

Gene names

Name:

Lmx1a MGI 1888519

Organism

Mus musculus (Mouse)

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	382 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Subcellular location	Nucleus By similarity RuleBase RU000682.
Sequence similarities	Contains 1 homeobox DNA-binding domain. SAAS SAAS001781 Contains 2 LIM zinc-binding domains. SAAS SAAS001781 RuleBase RU000350

Ontologies

Keywords
Cellular component	Nucleus SAAS SAAS001781 RuleBase RU000682
Domain	Homeobox SAAS SAAS001781 RuleBase RU000682 EMBL AAI09168.1 LIM domain SAAS SAAS001781 RuleBase RU000350 Repeat SAAS SAAS001781
Ligand	DNA-binding SAAS SAAS001781 RuleBase RU000682 Metal-binding Zinc
Gene Ontology (GO)
Biological_process	axon guidance Inferred from mutant phenotype PubMed 15183721. Source: MGI central nervous system neuron differentiation Inferred from mutant phenotype PubMed 17670789. Source: MGI cerebellum development Inferred from mutant phenotype PubMed 1638738. Source: MGI dentate gyrus development Inferred from mutant phenotype PubMed 1638738. Source: MGI dopaminergic neuron differentiation Inferred from mutant phenotype PubMed 21752929. Source: MGI midbrain development Inferred from mutant phenotype PubMed 21752929. Source: MGI negative regulation of neuron differentiation Inferred from mutant phenotype PubMed 15148302. Source: MGI regulation of cell growth Inferred from mutant phenotype PubMed 17670789. Source: MGI regulation of gene expression Inferred from mutant phenotype PubMed 17670789. Source: MGI
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...

Sequences

	Sequence		Length	Mass (Da)
	Q543W2 [UniParc]. Last modified May 24, 2005. Version 1. Checksum: 6C856843FEAC6706	FASTA	382	42,857
	10 20 30 40 50 60 MLDGLKMEEN FQSAIETSAS FSSLLGRAVS PKSVCEGCQR VISDRFLLRL NDSFWHEQCV 70 80 90 100 110 120 QCASCKEPLE TTCFYRDKKL YCKYHYEKLF AVKCGGCFEA IAPNEFVMRA QKSVYHLSCF 130 140 150 160 170 180 CCCVCERQLQ KGDEFVLKEG QLLCKGDYEK ERELLSLVSP AASDSGKSDD EESLCKSAHG 190 200 210 220 230 240 AGKGASEDGK DHKRPKRPRT ILTTQQRRAF KASFEVSSKP CRKVRETLAA ETGLSVRVVQ 250 260 270 280 290 300 VWFQNQRAKM KKLARRQQQQ QQDQQNTQRL TSAQTNGSGN AGMEGIMNPY TTLPTPQQLL 310 320 330 340 350 360 AIEQSVYNSD PFRQGLTPPQ MPGDHMHPYG AEPLFHDLDS DDTSLSNLGD CFLATSEAGP 370 380 LQSRVGNPID HLYSMQNSYF TS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"High-efficiency full-length cDNA cloning." Carninci P., Hayashizaki Y. Methods Enzymol. 303:19-44(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[2]	"Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes." Carninci P., Shibata Y., Hayatsu N., Sugahara Y., Shibata K., Itoh M., Konno H., Okazaki Y., Muramatsu M., Hayashizaki Y. Genome Res. 10:1617-1630(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[3]	"RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer." Shibata K., Itoh M., Aizawa K., Nagaoka S., Sasaki N., Carninci P., Konno H., Akiyama J., Nishi K., Kitsunai T., Tashiro H., Itoh M., Sumi N., Ishii Y., Nakamura S., Hazama M., Nishine T., Harada A. , Yamamoto R., Matsumoto H., Sakaguchi S., Ikegami T., Kashiwagi K., Fujiwake S., Inoue K., Togawa Y., Izawa M., Ohara E., Watahiki M., Yoneda Y., Ishikawa T., Ozawa K., Tanaka T., Matsuura S., Kawai J., Okazaki Y., Muramatsu M., Inoue Y., Kira A., Hayashizaki Y. Genome Res. 10:1757-1771(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[4]	"Functional annotation of a full-length mouse cDNA collection." The RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium Nature 409:685-690(2001) Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[5]	Adachi J., Aizawa K., Akimura T., Arakawa T., Bono H., Carninci P., Fukuda S., Furuno M., Hanagaki T., Hara A., Hashizume W., Hayashida K., Hayatsu N., Hiramoto K., Hiraoka T., Hirozane T., Hori F., Imotani K. , Ishii Y., Itoh M., Kagawa I., Kasukawa T., Katoh H., Kawai J., Kojima Y., Kondo S., Konno H., Kouda M., Koya S., Kurihara C., Matsuyama T., Miyazaki A., Murata M., Nakamura M., Nishi K., Nomura K., Numazaki R., Ohno M., Ohsato N., Okazaki Y., Saito R., Saitoh H., Sakai C., Sakai K., Sakazume N., Sano H., Sasaki D., Shibata K., Shinagawa A., Shiraki T., Sogabe Y., Tagami M., Tagawa A., Takahashi F., Takaku-Akahira S., Takeda Y., Tanaka T., Tomaru A., Toya T., Yasunishi A., Muramatsu M., Hayashizaki Y. Submitted (JUL-2001) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[6]	"Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs." The FANTOM Consortium and the RIKEN Genome Exploration Research Group Phase I and II Team Nature 420:563-573(2002) Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[7]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Gerhard D.S., Wagner L., Feingold E.A., Shenmen C.M., Grouse L.H., Schuler G., Klein S.L., Old S., Rasooly R., Good P., Guyer M., Peck A.M., Derge J.G., Lipman D., Collins F.S., Jang W., Sherry S., Feolo M. , Misquitta L., Lee E., Rotmistrovsky K., Greenhut S.F., Schaefer C.F., Buetow K., Bonner T.I., Haussler D., Kent J., Kiekhaus M., Furey T., Brent M., Prange C., Schreiber K., Shapiro N., Bhat N.K., Hopkins R.F., Hsie F., Driscoll T., Soares M.B., Casavant T.L., Scheetz T.E., Brown-stein M.J., Usdin T.B., Toshiyuki S., Carninci P., Piao Y., Dudekula D.B., Ko M.S., Kawakami K., Suzuki Y., Sugano S., Gruber C.E., Smith M.R., Simmons B., Moore T., Waterman R., Johnson S.L., Ruan Y., Wei C.L., Mathavan S., Gunaratne P.H., Wu J., Garcia A.M., Hulyk S.W., Fuh E., Yuan Y., Sneed A., Kowis C., Hodgson A., Muzny D.M., McPherson J., Gibbs R.A., Fahey J., Helton E., Ketteman M., Madan A., Rodrigues S., Sanchez A., Whiting M., Madari A., Young A.C., Wetherby K.D., Granite S.J., Kwong P.N., Brinkley C.P., Pearson R.L., Bouffard G.G., Blakesly R.W., Green E.D., Dickson M.C., Rodriguez A.C., Grimwood J., Schmutz J., Myers R.M., Butterfield Y.S., Griffith M., Griffith O.L., Krzywinski M.I., Liao N., Morin R., Morrin R., Palmquist D., Petrescu A.S., Skalska U., Smailus D.E., Stott J.M., Schnerch A., Schein J.E., Jones S.J., Holt R.A., Baross A., Marra M.A., Clifton S., Makowski K.A., Bosak S., Malek J. Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: PCR rescued clones EMBL AAI09168.1.
[8]	"The Transcriptional Landscape of the Mammalian Genome." The FANTOM Consortium, Riken Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group) Science 309:1559-1563(2005) Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
[9]	"Antisense Transcription in the Mammalian Transcriptome." RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group) and the FANTOM Consortium Science 309:1564-1566(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE. Strain: C57BL/6J EMBL BAC32153.1. Tissue: Parthenogenote EMBL BAC32153.1.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BC109167 mRNA. Translation: AAI09168.1. BC109168 mRNA. Translation: AAI09169.1. AK044944 mRNA. Translation: BAC32153.1.
IPI	IPI00123446.
RefSeq	NP_387501.1. NM_033652.5.
UniGene	Mm.330081.
3D structure databases
SMR	Q543W2. Positions 34-153, 196-258.
ModBase	Search...
Protein-protein interaction databases
STRING	10090.ENSMUSP00000107008.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	110648.
KEGG	mmu:110648.
UCSC	uc007dlc.1. mouse.
Organism-specific databases
CTD	4009.
MGI	MGI:1888519. Lmx1a.
Phylogenomic databases
HOVERGEN	HBG052335.
InParanoid	Q543W2.
KO	K09371.
OMA	GNAGMEG.
Gene expression databases
Genevestigator	Q543W2.
Family and domain databases
Gene3D	1.10.10.60. 1 hit. 2.10.110.10. 2 hits.
InterPro	IPR017970. Homeobox_CS. IPR001356. Homeodomain. IPR009057. Homeodomain-like. IPR001781. Znf_LIM. [Graphical view]
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
NextBio	364391.
SOURCE	Search...

Entry information

Entry name

Q543W2_MOUSE

Accession

Primary (citable) accession number: Q543W2

Entry history

Integrated into UniProtKB/TrEMBL:	May 24, 2005
Last sequence update:	May 24, 2005
Last modified:	May 1, 2013
This is version 91 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)