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P53564 (CUX1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 128. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Homeobox protein cut-like 1
Alternative name(s):
CCAAT displacement protein
Short name=CDP
Homeobox protein cux-1
Gene names
Name:Cux1
Synonyms:Cutl1, Cux, Kiaa4047
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length1515 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Probably has a broad role in mammalian development as a repressor of developmentally regulated gene expression. May act by preventing binding of positively-activing CCAAT factors to promoters. Component of nf-munr repressor; binds to the matrix attachment regions (MARs) (5' and 3') of the immunoglobulin heavy chain enhancer. Represses T-cell receptor (TCR) beta enhancer function by binding to MARbeta, an ATC-rich DNA sequence located upstream of the TCR beta enhancer. Binds to the TH enhancer; may require the basic helix-loop-helix protein TCF4 as a coactivator. Ref.3 Ref.5 Ref.8

Subunit structure

Interacts with BANP. Interacts with SATB1 (via DNA-binding domains); the interaction inhibits the attachment of both proteins to DNA. Ref.7 Ref.8

Subcellular location

Nucleus Ref.8.

Tissue specificity

Isoform 6 is testis-specific where it is expressed in germ cells. Ref.2

Developmental stage

In postpubertal testis, isoform 6 is expressed from stages IV-V of spermatogenesis in the outer layer of round spermatids. Expression continues through stages VI-VII but no expression is detected in stages IX-XI. In prepubertal testis, isoform 6 is expressed in post-meiotic germ cells at the round spermatid stage. Ref.2

Miscellaneous

Asn-1285 may participate in regulating DNA-binding activity by promoting homo- and heterodimerization.

Sequence similarities

Belongs to the CUT homeobox family.

Contains 3 CUT DNA-binding domains.

Contains 1 homeobox DNA-binding domain.

Sequence caution

The sequence BAD90358.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   DomainCoiled coil
Homeobox
Repeat
   LigandDNA-binding
   Molecular functionDevelopmental protein
Repressor
   PTMPhosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processauditory receptor cell differentiation

Inferred from mutant phenotype Ref.3. Source: MGI

kidney development

Inferred from genetic interaction PubMed 18829740. Source: MGI

lung development

Inferred from mutant phenotype Ref.3. Source: MGI

negative regulation of transcription from RNA polymerase II promoter

Inferred from direct assay Ref.3. Source: MGI

positive regulation of dendrite morphogenesis

Inferred from mutant phenotype PubMed 20510857. Source: UniProt

positive regulation of transcription from RNA polymerase II promoter

Inferred from direct assay PubMed 18836447. Source: GOC

   Cellular_componentcytoplasm

Inferred from direct assay PubMed 20473291. Source: MGI

nucleus

Inferred from direct assay Ref.3PubMed 11839809PubMed 20473291. Source: MGI

   Molecular_functionDNA binding

Inferred from direct assay PubMed 15656993. Source: MGI

RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription

Inferred from direct assay PubMed 18836447. Source: MGI

RNA polymerase II regulatory region sequence-specific DNA binding

Inferred from mutant phenotype PubMed 20510857. Source: UniProt

chromatin binding

Inferred from direct assay PubMed 15994318. Source: MGI

Complete GO annotation...

Alternative products

This entry describes 6 isoforms produced by alternative splicing. [Align] [Select]
Isoform 5 (identifier: P53564-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform 2 (identifier: P53564-2)

The sequence of this isoform differs from the canonical sequence as follows:
     406-507: Missing.
Isoform 3 (identifier: P53564-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-10: MLCVAGAKLK → MAANVGSMFQYWKRFDLQQLQ
     630-651: Missing.
Note: No experimental confirmation available.
Isoform 4 (identifier: P53564-4)

The sequence of this isoform differs from the canonical sequence as follows:
     1-183: Missing.
Isoform 6 (identifier: P53564-5)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1055: Missing.
Isoform 1 (identifier: P70403-1)

Also known as: CASP;

The sequence of this isoform can be found in the external entry P70403.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 15151515Homeobox protein cut-like 1
PRO_0000202394

Regions

DNA binding540 – 62788CUT 1
DNA binding929 – 101688CUT 2
DNA binding1112 – 119988CUT 3
DNA binding1239 – 129860Homeobox
Coiled coil56 – 361306 Potential
Compositional bias1358 – 1463106Ala-rich

Amino acid modifications

Modified residue7611Phosphoserine By similarity

Natural variations

Alternative sequence1 – 10551055Missing in isoform 6.
VSP_017360
Alternative sequence1 – 183183Missing in isoform 4.
VSP_015748
Alternative sequence1 – 1010MLCVAGAKLK → MAANVGSMFQYWKRFDLQQL Q in isoform 3.
VSP_015749
Alternative sequence406 – 507102Missing in isoform 2.
VSP_002311
Alternative sequence630 – 65122Missing in isoform 3.
VSP_015750

Experimental info

Sequence conflict2761V → VEQ in AAK59986. Ref.3
Sequence conflict6491R → G in CAA52922. Ref.1
Sequence conflict6491R → G in AAD12485. Ref.5
Sequence conflict14801G → A in CAA52922. Ref.1
Sequence conflict14851P → L in AAD12485. Ref.5

Sequences

Sequence LengthMass (Da)Tools
Isoform 5 [UniParc].

Last modified September 27, 2005. Version 3.
Checksum: 72BC6E8D8ECD78DE

FASTA1,515165,596
        10         20         30         40         50         60 
MLCVAGAKLK RELDATATVL ANRQDESEQS RKRLIEQSRE FKKNTPEDLR KQVAPLLKSF 

        70         80         90        100        110        120 
QGEIDALSKR SKEAEAAFLT VYKRLIDVPD PVPALDVGQQ LEIKVQRLHD IETENQKLRE 

       130        140        150        160        170        180 
TLEEYNKEFA EVKNQEVTIK ALKEKIREYE QTLKSQAETI ALEKEQKLQN DFAEKERKLQ 

       190        200        210        220        230        240 
ETQMSTTSKL EEAEHKLQTL QTALEKTRTE LFDLKTKYDE ETTAKADEIE MIMTDLERAN 

       250        260        270        280        290        300 
QRAEVAQREA ETLREQLSSA NHSLQLASQI QKAPDVAIEV LTRSSLEVEL AAKEREIAQL 

       310        320        330        340        350        360 
VEDVQRLQAS LTKLRENSAS QISQLEQQLN AKNSTLKQLE EKLKGQADYE EVKKELNTLK 

       370        380        390        400        410        420 
SMEFAPSEGA GTQDSTKPLE VLLLEKNRSL QSENATLRIS NSDLSGSARR KGRDQPESRR 

       430        440        450        460        470        480 
PGPLPASPPP QLPRNTGEQV SNTNGTHHFS PAGLSQDFFS SNLASPSLPL ASTGKFALNS 

       490        500        510        520        530        540 
LLQRQLMQSF YSKAMQEAGS TSTIFSTGPY STNSISSPSP LQQSPDVNGM APSPSQSESA 

       550        560        570        580        590        600 
GSISEGEEID TAEIARQVKE QLIKHNIGQR IFGHYVLGLS QGSVSEILAR PKPWNKLTVR 

       610        620        630        640        650        660 
GKEPFHKMKQ FLSDEQNILA LRSIQGRQRE NPGQSLNRLF QEVPKRRNRS EGNITTRIRA 

       670        680        690        700        710        720 
SETGSDEAIK SILEQAKREL QVQKTAEPVQ TSSTSSSGNS DDAIRSILQQ ARREMEAQQA 

       730        740        750        760        770        780 
ALDPALKPAP LSQPDLTILT PKHLSASPMS TVSTYPPLAI SLKKTPAAPE TSTAALPSAP 

       790        800        810        820        830        840 
ALKKEAQDVP TLDPPGSADA AQGVLRPMKS ELVRGSTWKD PWWSPIQPER RNLTSSEETK 

       850        860        870        880        890        900 
ADETTASGKE RAGSSQPRAE RSQLQGPSAS AEYWKEWPSA ESPYSQSSEL SLTGASRSET 

       910        920        930        940        950        960 
PQNSPLPSSP IVPMAKPAKP SVPPLTPEQY EVYMYQEVDT IELTRQVKEK LAKNGICQRI 

       970        980        990       1000       1010       1020 
FGEKVLGLSQ GSVSDMLSRP KPWSKLTQKG REPFIRMQLW LNGELGQGVL PVQGQQQGPV 

      1030       1040       1050       1060       1070       1080 
LHSVASLQDP LQQGCVSSES TPKTSASCSP APESPMSSSE SVKSLTELVQ QPCPAIETSK 

      1090       1100       1110       1120       1130       1140 
EGKPPEPSDP PASDSQPTTP LPLSGHSALS IQELVAMSPE LDTYGITKRV KEVLTDNNLG 

      1150       1160       1170       1180       1190       1200 
QRLFGETILG LTQGSVSDLL ARPKPWHKLS LKGREPFVRM QLWLNDPNNV EKLMDMKRME 

      1210       1220       1230       1240       1250       1260 
KKAYMKRRHS SVSDSQPCEP PSVGIDYSQG ASPQPQHQLK KPRVVLAPEE KEALKRAYQQ 

      1270       1280       1290       1300       1310       1320 
KPYPSPKTIE ELATQLNLKT STVINWFHNY RSRIRRELFI EEIQAGSQGQ AGASDSPSAR 

      1330       1340       1350       1360       1370       1380 
SSRAAPSSEG DSCDGVEATD AEEPGGNIVA TKSQGGLAEV AAAPADREEA TQPAEKAKAQ 

      1390       1400       1410       1420       1430       1440 
PLCSGTPGQD DGEDASRPRP LPEGLADAPA PVPSLAAPAA GEDAATSATA PATATEAPGA 

      1450       1460       1470       1480       1490       1500 
ARAGPAERSS ALPSTSAPAN APARRPSSLQ SLFGLPEAAG ARDNPVRKKK AANLNSIIHR 

      1510 
LEKAASREEP IEWEF 

« Hide

Isoform 2 [UniParc].

Checksum: 5C7D6BE7CA4AD3BE
Show »

FASTA1,413154,697
Isoform 3 [UniParc].

Checksum: 5B1EEBFC0FA74487
Show »

FASTA1,504164,487
Isoform 4 [UniParc].

Checksum: 6A6305042CCADD61
Show »

FASTA1,332144,361
Isoform 6 [UniParc].

Checksum: B425EAF9639B9916
Show »

FASTA46049,021
Isoform 1 (CASP) [UniParc].

See P70403.

References

« Hide 'large scale' references
[1]"The mouse homeodomain protein Phox2 regulates Ncam promoter activity in concert with Cux/CDP and is a putative determinant of neurotransmitter phenotype."
Valarche I., Tissier-Seta J.-P., Hirsch M.R., Martinez S., Goridis C., Brunet J.-F.
Development 119:881-896(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 4).
Strain: A/J and BALB/c.
Tissue: Brain.
[2]"A unique variant of a homeobox gene related to Drosophila cut is expressed in mouse testis."
Vanden Heuvel G.B., Quaggin S.E., Igarashi P.
Biol. Reprod. 55:731-739(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 6), TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
Tissue: Testis.
[3]"The transcriptional repressor CDP (Cutl1) is essential for epithelial cell differentiation of the lung and the hair follicle."
Ellis T., Gambardella L., Horcher M., Tschanz S., Capol J., Bertram P., Jochum W., Barrandon Y., Busslinger M.
Genes Dev. 15:2307-2319(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 5), FUNCTION.
[4]"Prediction of the coding sequences of mouse homologues of KIAA gene. The complete nucleotide sequences of mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
Okazaki N., Kikuno R.F., Ohara R., Inamoto S., Nagase T., Ohara O., Koga H.
Submitted (FEB-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
Tissue: Embryonic tail.
[5]"Cux/CDP homeoprotein is a component of NF-muNR and represses the immunoglobulin heavy chain intronic enhancer by antagonizing the bright transcription activator."
Wang Z., Goldstein A., Zong R.-T., Lin D., Neufeld E.J., Scheuermann R.H., Tucker P.W.
Mol. Cell. Biol. 19:284-295(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 121-1515 (ISOFORM 2), FUNCTION.
Strain: C57BL/6N.
[6]"Expression of a cut-related homeobox gene in developing and polycystic mouse kidney."
Vanden Heuvel G.B., Bodmer R., McConnell K.R., Nagami G.T., Igarashi P.
Kidney Int. 50:453-461(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 762-1515 (ISOFORMS 2/3/4/5).
[7]"Homeoproteins CDP and SATB1 interact: potential for tissue-specific regulation."
Liu J., Barnett A., Neufeld E.J., Dudley J.P.
Mol. Cell. Biol. 19:4918-4926(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH SATB1.
[8]"SMAR1 and Cux/CDP modulate chromatin and act as negative regulators of the TCRbeta enhancer (Ebeta)."
Kaul-Ghanekar R., Jalota-Badhwar A., Pavithra L., Tucker P., Chattopadhyay S.
Nucleic Acids Res. 32:4862-4875(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH BANP, SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X75013 mRNA. Translation: CAA52922.1.
U46684 mRNA. Translation: AAB41146.1.
AY037807 mRNA. Translation: AAK59986.1.
AK220173 mRNA. Translation: BAD90358.1. Different initiation.
AF004225 mRNA. Translation: AAD12485.1.
U46683 mRNA. Translation: AAC52775.1.
PIRI48314.
RefSeqNP_001278162.1. NM_001291233.1.
NP_001278163.1. NM_001291234.1.
NP_034116.3. NM_009986.4.
UniGeneMm.320317.

3D structure databases

ProteinModelPortalP53564.
SMRP53564. Positions 545-633, 929-1019, 1111-1199.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid198981. 1 interaction.
IntActP53564. 3 interactions.
MINTMINT-1634604.

PTM databases

PhosphoSiteP53564.

Proteomic databases

MaxQBP53564.
PRIDEP53564.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID13047.
KEGGmmu:13047.
UCSCuc009aap.1. mouse. [P53564-1]

Organism-specific databases

CTD1523.
MGIMGI:88568. Cux1.
RougeSearch...

Phylogenomic databases

HOGENOMHOG000143386.
HOVERGENHBG051268.
InParanoidP53564.
KOK09313.
PhylomeDBP53564.

Gene expression databases

CleanExMM_CUX1.
GenevestigatorP53564.

Family and domain databases

Gene3D1.10.10.60. 1 hit.
1.10.260.40. 3 hits.
InterProIPR003350. Hmoeo_CUT.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
[Graphical view]
PfamPF02376. CUT. 3 hits.
PF00046. Homeobox. 1 hit.
[Graphical view]
SMARTSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMSSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 3 hits.
PROSITEPS51042. CUT. 3 hits.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSCUX1. mouse.
NextBio282952.
SOURCESearch...

Entry information

Entry nameCUX1_MOUSE
AccessionPrimary (citable) accession number: P53564
Secondary accession number(s): O08994 expand/collapse secondary AC list , P70301, Q571L6, Q91ZD2
Entry history
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: September 27, 2005
Last modified: July 9, 2014
This is version 128 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot