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Protein

Transcriptional repressor CTCFL

Gene

Ctcfl

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Testis-specific DNA binding protein responsible for insulator function, nuclear architecture and transcriptional control, which probably acts by recruiting epigenetic chromatin modifiers. Plays a key role in gene imprinting in male germline, by participating in the establishment of differential methylation at the IGF2/H19 imprinted control region (ICR). Directly binds the unmethylated H19 ICR and recruits the PRMT7 methyltransferase, leading to methylate histone H4 'Arg-3' to form H4R3sme2. This probably leads to recruit de novo DNA methyltransferases at these sites. Seems to act as tumor suppressor. In association with DNMT1 and DNMT3B, involved in activation of BAG1 gene expression by binding to its promoter. Required for dimethylation of H3 lysine 4 (H3K4me2) of MYC and BRCA1 promoters.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri257 – 27923C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri285 – 30723C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri313 – 33624C2H2-type 3PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri342 – 36423C2H2-type 4PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri370 – 39223C2H2-type 5PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri398 – 42124C2H2-type 6PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri428 – 45124C2H2-type 7PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri458 – 48023C2H2-type 8PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri486 – 50823C2H2-type 9PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri514 – 53724C2H2-type 10PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri546 – 57227C2H2-type 11PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Transcriptional repressor CTCFL
Alternative name(s):
Brother of the regulator of imprinted sites
CCCTC-binding factor
CTCF paralog
CTCF-like protein
Gene namesi
Name:Ctcfl
Synonyms:Boris
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:3652571. Ctcfl.

Subcellular locationi

  • Cytoplasm By similarity
  • Nucleus 1 Publication

GO - Cellular componenti

  • cytoplasm Source: MGI
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Keywords - Diseasei

Tumor suppressor

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 636636Transcriptional repressor CTCFLPRO_0000373924Add
BLAST

Proteomic databases

EPDiA2APF3.
MaxQBiA2APF3.
PaxDbiA2APF3.
PeptideAtlasiA2APF3.
PRIDEiA2APF3.

PTM databases

iPTMnetiA2APF3.
PhosphoSiteiA2APF3.

Expressioni

Tissue specificityi

Testis-specific.1 Publication

Developmental stagei

Not detected at 13.5 dpc. Detected in mitotically arrested gonocytes of 14.5 dpc embryos. From 17.5 dpc to newborn, it is expressed in some centrally located gonocytes and cells present at the periphery of the developing seminiferous tubules. Present in nuclei of spermatogonia from 15 days after birth to adulthood.1 Publication

Gene expression databases

BgeeiA2APF3.

Interactioni

Subunit structurei

Interacts with histones, PRMT7 and SETD1A. Interacts (via N-terminus) with BAG6/BAT3 (By similarity).By similarity

GO - Molecular functioni

  • histone binding Source: UniProtKB

Protein-protein interaction databases

BioGridi576678. 2 interactions.
DIPiDIP-29209N.
IntActiA2APF3. 4 interactions.
STRINGi10090.ENSMUSP00000091845.

Structurei

3D structure databases

ProteinModelPortaliA2APF3.
SMRiA2APF3. Positions 246-568.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the CTCF zinc-finger protein family.Curated
Contains 11 C2H2-type zinc fingers.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri257 – 27923C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri285 – 30723C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri313 – 33624C2H2-type 3PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri342 – 36423C2H2-type 4PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri370 – 39223C2H2-type 5PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri398 – 42124C2H2-type 6PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri428 – 45124C2H2-type 7PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri458 – 48023C2H2-type 8PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri486 – 50823C2H2-type 9PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri514 – 53724C2H2-type 10PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri546 – 57227C2H2-type 11PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1721. Eukaryota.
COG5048. LUCA.
GeneTreeiENSGT00530000063079.
HOGENOMiHOG000276534.
InParanoidiA2APF3.
OMAiLRNLHTY.
OrthoDBiEOG71K632.
TreeFamiTF106430.

Family and domain databases

Gene3Di3.30.160.60. 9 hits.
InterProiIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 11 hits.
[Graphical view]
PROSITEiPS00028. ZINC_FINGER_C2H2_1. 7 hits.
PS50157. ZINC_FINGER_C2H2_2. 11 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: A2APF3-1) [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

        10         20         30         40         50
MAAAEVPVPS GYFTQIKEQK LKPGDLEEEK EEDGVQRVEA QEGVVKEVEA
60 70 80 90 100
ENSCLLLEAR APVESDRRIL TLQTVHLESQ DVHLQGLGWL SVPHSEELSG
110 120 130 140 150
TVPEAEGILQ LPSVLWLDPE PQLSLQHCVT VSIPEELYPP EELQRIHFHL
160 170 180 190 200
LRENVLMAEE NPELTPDLDE STALKKPEED EKDQLPPQGE TDKREERLLL
210 220 230 240 250
LEMKPKEGKD DEIVLTISHL SLEEQQDPPA ANQTSVPGAK AAKPKRRRQT
260 270 280 290 300
KGKPQSFQCD TCPFTSSKLS TFNRHIKIHS NERPHLCHLC LKAFRTVTLL
310 320 330 340 350
RNHVNTHTGT RPHKCRDCDM AFVTSGELVR HRRYKHTYEK PFKCSLCKYA
360 370 380 390 400
SVEASKMKRH IRSHTGERPF QCCQCAYASR DSYKLKRHMR THSGEKPYEC
410 420 430 440 450
PTCHVRFTQS GTMKIHIAQK HGENVPKYEC PHCATIIARK SDLRVHLRNL
460 470 480 490 500
HSQSPEEMKC RYCPAGFHER YALIQHQRTH KNEKKFKCKQ CDYACKQERC
510 520 530 540 550
LKAHMRMHTG EKPFSCLACN KHFRQKQLLT VHLRKYHDPN FVPNLHLCLK
560 570 580 590 600
CDKRFSRWSN LQRHRKKCDP EHETLAPNKD RRPVTRTQAS EGEAGHKEGE
610 620 630
PQCPGEQALG HQGEAAGSQS PDHGLTCEII FNMMDK
Length:636
Mass (Da):73,108
Last modified:February 20, 2007 - v1
Checksum:iBECF76F0C84FA7F0
GO
Isoform 2 (identifier: A2APF3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     598-598: E → EDVATQESATS

Note: No experimental confirmation available.
Show »
Length:646
Mass (Da):74,098
Checksum:i652CDE173C09D872
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti629 – 6291I → M in AAZ79234 (PubMed:12011441).Curated
Sequence conflicti629 – 6291I → M in AAI51027 (PubMed:15489334).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei598 – 5981E → EDVATQESATS in isoform 2. 1 PublicationVSP_037281

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ153171 mRNA. Translation: AAZ79234.1.
AL928599, AL837509 Genomic DNA. Translation: CAM22368.1.
AL837509, AL928599 Genomic DNA. Translation: CAM24671.1.
BC151026 mRNA. Translation: AAI51027.1.
CCDSiCCDS38349.1. [A2APF3-1]
RefSeqiNP_001074856.1. NM_001081387.2. [A2APF3-1]
XP_006500067.1. XM_006500004.2. [A2APF3-2]
UniGeneiMm.389396.

Genome annotation databases

EnsembliENSMUST00000094287; ENSMUSP00000091845; ENSMUSG00000070495. [A2APF3-1]
ENSMUST00000179693; ENSMUSP00000135932; ENSMUSG00000070495. [A2APF3-1]
GeneIDi664799.
KEGGimmu:664799.
UCSCiuc008odi.1. mouse. [A2APF3-1]
uc012cks.1. mouse. [A2APF3-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ153171 mRNA. Translation: AAZ79234.1.
AL928599, AL837509 Genomic DNA. Translation: CAM22368.1.
AL837509, AL928599 Genomic DNA. Translation: CAM24671.1.
BC151026 mRNA. Translation: AAI51027.1.
CCDSiCCDS38349.1. [A2APF3-1]
RefSeqiNP_001074856.1. NM_001081387.2. [A2APF3-1]
XP_006500067.1. XM_006500004.2. [A2APF3-2]
UniGeneiMm.389396.

3D structure databases

ProteinModelPortaliA2APF3.
SMRiA2APF3. Positions 246-568.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi576678. 2 interactions.
DIPiDIP-29209N.
IntActiA2APF3. 4 interactions.
STRINGi10090.ENSMUSP00000091845.

PTM databases

iPTMnetiA2APF3.
PhosphoSiteiA2APF3.

Proteomic databases

EPDiA2APF3.
MaxQBiA2APF3.
PaxDbiA2APF3.
PeptideAtlasiA2APF3.
PRIDEiA2APF3.

Protocols and materials databases

DNASUi664799.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000094287; ENSMUSP00000091845; ENSMUSG00000070495. [A2APF3-1]
ENSMUST00000179693; ENSMUSP00000135932; ENSMUSG00000070495. [A2APF3-1]
GeneIDi664799.
KEGGimmu:664799.
UCSCiuc008odi.1. mouse. [A2APF3-1]
uc012cks.1. mouse. [A2APF3-2]

Organism-specific databases

CTDi140690.
MGIiMGI:3652571. Ctcfl.

Phylogenomic databases

eggNOGiKOG1721. Eukaryota.
COG5048. LUCA.
GeneTreeiENSGT00530000063079.
HOGENOMiHOG000276534.
InParanoidiA2APF3.
OMAiLRNLHTY.
OrthoDBiEOG71K632.
TreeFamiTF106430.

Miscellaneous databases

PROiA2APF3.
SOURCEiSearch...

Gene expression databases

BgeeiA2APF3.

Family and domain databases

Gene3Di3.30.160.60. 9 hits.
InterProiIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 11 hits.
[Graphical view]
PROSITEiPS00028. ZINC_FINGER_C2H2_1. 7 hits.
PS50157. ZINC_FINGER_C2H2_2. 11 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "BORIS, a novel male germ-line-specific protein associated with epigenetic reprogramming events, shares the same 11-zinc-finger domain with CTCF, the insulator protein involved in reading imprinting marks in the soma."
    Loukinov D.I., Pugacheva E., Vatolin S., Pack S.D., Moon H., Chernukhin I., Mannan P., Larsson E., Kanduri C., Vostrov A.A., Cui H., Niemitz E.L., Rasko J.E.J., Docquier F.M., Kistler M., Breen J.J., Zhuang Z., Quitschke W.W.
    , Renkawitz R., Klenova E.M., Feinberg A.P., Ohlsson R., Morse H.C. III, Lobanenkov V.V.
    Proc. Natl. Acad. Sci. U.S.A. 99:6806-6811(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Tissue: Testis.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Brain.
  4. "The testis-specific factor CTCFL cooperates with the protein methyltransferase PRMT7 in H19 imprinting control region methylation."
    Jelinic P., Stehle J.-C., Shaw P.
    PLoS Biol. 4:E355-E355(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, DNA-BINDING, INTERACTION WITH HISTONE AND PRMT7.

Entry informationi

Entry nameiCTCFL_MOUSE
AccessioniPrimary (citable) accession number: A2APF3
Secondary accession number(s): B9EKP6, Q3Y6S0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 5, 2009
Last sequence update: February 20, 2007
Last modified: July 6, 2016
This is version 90 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. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.