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P53564

- CUX1_MOUSE

UniProt

P53564 - CUX1_MOUSE

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Protein
Homeobox protein cut-like 1
Gene
Cux1, Cutl1, Cux, Kiaa4047
Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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.3 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi540 – 62788CUT 1
Add
BLAST
DNA bindingi929 – 101688CUT 2
Add
BLAST
DNA bindingi1112 – 119988CUT 3
Add
BLAST
DNA bindingi1239 – 129860Homeobox
Add
BLAST

GO - Molecular functioni

  1. DNA binding Source: MGI
  2. RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: MGI
  3. RNA polymerase II regulatory region sequence-specific DNA binding Source: UniProt
  4. chromatin binding Source: MGI

GO - Biological processi

  1. auditory receptor cell differentiation Source: MGI
  2. kidney development Source: MGI
  3. lung development Source: MGI
  4. negative regulation of transcription from RNA polymerase II promoter Source: MGI
  5. positive regulation of dendrite morphogenesis Source: UniProt
  6. positive regulation of transcription from RNA polymerase II promoter Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Homeobox protein cut-like 1
Alternative name(s):
CCAAT displacement protein
Short name:
CDP
Homeobox protein cux-1
Gene namesi
Name:Cux1
Synonyms:Cutl1, Cux, Kiaa4047
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Unplaced

Organism-specific databases

MGIiMGI:88568. Cux1.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: MGI
  2. nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 15151515Homeobox protein cut-like 1
PRO_0000202394Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei761 – 7611Phosphoserine By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53564.
PRIDEiP53564.

PTM databases

PhosphoSiteiP53564.

Expressioni

Tissue specificityi

Isoform 6 is testis-specific where it is expressed in germ cells.1 Publication

Developmental stagei

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.1 Publication

Gene expression databases

CleanExiMM_CUX1.
GenevestigatoriP53564.

Interactioni

Subunit structurei

Interacts with BANP. Interacts with SATB1 (via DNA-binding domains); the interaction inhibits the attachment of both proteins to DNA.2 Publications

Protein-protein interaction databases

BioGridi198981. 1 interaction.
IntActiP53564. 3 interactions.
MINTiMINT-1634604.

Structurei

3D structure databases

ProteinModelPortaliP53564.
SMRiP53564. Positions 545-633, 929-1019, 1111-1199.

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili56 – 361306 Reviewed prediction
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi1358 – 1463106Ala-rich
Add
BLAST

Sequence similaritiesi

Belongs to the CUT homeobox family.

Keywords - Domaini

Coiled coil, Homeobox, Repeat

Phylogenomic databases

HOGENOMiHOG000143386.
HOVERGENiHBG051268.
InParanoidiP53564.
KOiK09313.
PhylomeDBiP53564.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
1.10.260.40. 3 hits.
InterProiIPR003350. Hmoeo_CUT.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
[Graphical view]
PfamiPF02376. CUT. 3 hits.
PF00046. Homeobox. 1 hit.
[Graphical view]
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 3 hits.
PROSITEiPS51042. CUT. 3 hits.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

Sequences (6)i

Sequence statusi: Complete.

This entry describes 6 isoformsi produced by alternative splicing. Align

Isoform 5 (identifier: P53564-1) [UniParc]FASTAAdd to Basket

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.

« Hide

MLCVAGAKLK RELDATATVL ANRQDESEQS RKRLIEQSRE FKKNTPEDLR     50
KQVAPLLKSF QGEIDALSKR SKEAEAAFLT VYKRLIDVPD PVPALDVGQQ 100
LEIKVQRLHD IETENQKLRE TLEEYNKEFA EVKNQEVTIK ALKEKIREYE 150
QTLKSQAETI ALEKEQKLQN DFAEKERKLQ ETQMSTTSKL EEAEHKLQTL 200
QTALEKTRTE LFDLKTKYDE ETTAKADEIE MIMTDLERAN QRAEVAQREA 250
ETLREQLSSA NHSLQLASQI QKAPDVAIEV LTRSSLEVEL AAKEREIAQL 300
VEDVQRLQAS LTKLRENSAS QISQLEQQLN AKNSTLKQLE EKLKGQADYE 350
EVKKELNTLK SMEFAPSEGA GTQDSTKPLE VLLLEKNRSL QSENATLRIS 400
NSDLSGSARR KGRDQPESRR PGPLPASPPP QLPRNTGEQV SNTNGTHHFS 450
PAGLSQDFFS SNLASPSLPL ASTGKFALNS LLQRQLMQSF YSKAMQEAGS 500
TSTIFSTGPY STNSISSPSP LQQSPDVNGM APSPSQSESA GSISEGEEID 550
TAEIARQVKE QLIKHNIGQR IFGHYVLGLS QGSVSEILAR PKPWNKLTVR 600
GKEPFHKMKQ FLSDEQNILA LRSIQGRQRE NPGQSLNRLF QEVPKRRNRS 650
EGNITTRIRA SETGSDEAIK SILEQAKREL QVQKTAEPVQ TSSTSSSGNS 700
DDAIRSILQQ ARREMEAQQA ALDPALKPAP LSQPDLTILT PKHLSASPMS 750
TVSTYPPLAI SLKKTPAAPE TSTAALPSAP ALKKEAQDVP TLDPPGSADA 800
AQGVLRPMKS ELVRGSTWKD PWWSPIQPER RNLTSSEETK ADETTASGKE 850
RAGSSQPRAE RSQLQGPSAS AEYWKEWPSA ESPYSQSSEL SLTGASRSET 900
PQNSPLPSSP IVPMAKPAKP SVPPLTPEQY EVYMYQEVDT IELTRQVKEK 950
LAKNGICQRI FGEKVLGLSQ GSVSDMLSRP KPWSKLTQKG REPFIRMQLW 1000
LNGELGQGVL PVQGQQQGPV LHSVASLQDP LQQGCVSSES TPKTSASCSP 1050
APESPMSSSE SVKSLTELVQ QPCPAIETSK EGKPPEPSDP PASDSQPTTP 1100
LPLSGHSALS IQELVAMSPE LDTYGITKRV KEVLTDNNLG QRLFGETILG 1150
LTQGSVSDLL ARPKPWHKLS LKGREPFVRM QLWLNDPNNV EKLMDMKRME 1200
KKAYMKRRHS SVSDSQPCEP PSVGIDYSQG ASPQPQHQLK KPRVVLAPEE 1250
KEALKRAYQQ KPYPSPKTIE ELATQLNLKT STVINWFHNY RSRIRRELFI 1300
EEIQAGSQGQ AGASDSPSAR SSRAAPSSEG DSCDGVEATD AEEPGGNIVA 1350
TKSQGGLAEV AAAPADREEA TQPAEKAKAQ PLCSGTPGQD DGEDASRPRP 1400
LPEGLADAPA PVPSLAAPAA GEDAATSATA PATATEAPGA ARAGPAERSS 1450
ALPSTSAPAN APARRPSSLQ SLFGLPEAAG ARDNPVRKKK AANLNSIIHR 1500
LEKAASREEP IEWEF 1515
Length:1,515
Mass (Da):165,596
Last modified:September 27, 2005 - v3
Checksum:i72BC6E8D8ECD78DE
GO
Isoform 2 (identifier: P53564-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     406-507: Missing.

Show »
Length:1,413
Mass (Da):154,697
Checksum:i5C7D6BE7CA4AD3BE
GO
Isoform 3 (identifier: P53564-3) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-10: MLCVAGAKLK → MAANVGSMFQYWKRFDLQQLQ
     630-651: Missing.

Note: No experimental confirmation available.

Show »
Length:1,504
Mass (Da):164,487
Checksum:i5B1EEBFC0FA74487
GO
Isoform 4 (identifier: P53564-4) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-183: Missing.

Show »
Length:1,332
Mass (Da):144,361
Checksum:i6A6305042CCADD61
GO
Isoform 6 (identifier: P53564-5) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1055: Missing.

Show »
Length:460
Mass (Da):49,021
Checksum:iB425EAF9639B9916
GO
Isoform 1 (identifier: P70403-1) [UniParc]FASTAAdd to Basket

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.
Length:678
Mass (Da):77,269
GO

Sequence cautioni

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

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 10551055Missing in isoform 6.
VSP_017360Add
BLAST
Alternative sequencei1 – 183183Missing in isoform 4.
VSP_015748Add
BLAST
Alternative sequencei1 – 1010MLCVAGAKLK → MAANVGSMFQYWKRFDLQQL Q in isoform 3.
VSP_015749
Alternative sequencei406 – 507102Missing in isoform 2.
VSP_002311Add
BLAST
Alternative sequencei630 – 65122Missing in isoform 3.
VSP_015750Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti276 – 2761V → VEQ in AAK59986. 1 Publication
Sequence conflicti649 – 6491R → G in CAA52922. 1 Publication
Sequence conflicti649 – 6491R → G in AAD12485. 1 Publication
Sequence conflicti1480 – 14801G → A in CAA52922. 1 Publication
Sequence conflicti1485 – 14851P → L in AAD12485. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
CCDSiCCDS71684.1. [P53564-3]
PIRiI48314.
RefSeqiNP_001278162.1. NM_001291233.1.
NP_001278163.1. NM_001291234.1.
NP_034116.3. NM_009986.4.
UniGeneiMm.320317.

Genome annotation databases

GeneIDi13047.
KEGGimmu:13047.
UCSCiuc009aap.1. mouse. [P53564-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
CCDSi CCDS71684.1. [P53564-3 ]
PIRi I48314.
RefSeqi NP_001278162.1. NM_001291233.1.
NP_001278163.1. NM_001291234.1.
NP_034116.3. NM_009986.4.
UniGenei Mm.320317.

3D structure databases

ProteinModelPortali P53564.
SMRi P53564. Positions 545-633, 929-1019, 1111-1199.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 198981. 1 interaction.
IntActi P53564. 3 interactions.
MINTi MINT-1634604.

PTM databases

PhosphoSitei P53564.

Proteomic databases

MaxQBi P53564.
PRIDEi P53564.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 13047.
KEGGi mmu:13047.
UCSCi uc009aap.1. mouse. [P53564-1 ]

Organism-specific databases

CTDi 1523.
MGIi MGI:88568. Cux1.
Rougei Search...

Phylogenomic databases

HOGENOMi HOG000143386.
HOVERGENi HBG051268.
InParanoidi P53564.
KOi K09313.
PhylomeDBi P53564.

Miscellaneous databases

ChiTaRSi CUX1. mouse.
NextBioi 282952.
SOURCEi Search...

Gene expression databases

CleanExi MM_CUX1.
Genevestigatori P53564.

Family and domain databases

Gene3Di 1.10.10.60. 1 hit.
1.10.260.40. 3 hits.
InterProi IPR003350. Hmoeo_CUT.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
[Graphical view ]
Pfami PF02376. CUT. 3 hits.
PF00046. Homeobox. 1 hit.
[Graphical view ]
SMARTi SM00389. HOX. 1 hit.
[Graphical view ]
SUPFAMi SSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 3 hits.
PROSITEi PS51042. CUT. 3 hits.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.

Entry informationi

Entry nameiCUX1_MOUSE
AccessioniPrimary (citable) accession number: P53564
Secondary accession number(s): O08994
, P70301, Q571L6, Q91ZD2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: September 27, 2005
Last modified: September 3, 2014
This is version 129 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

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

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

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

External Data

Dasty 3

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