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Protein

APOBEC1 complementation factor

Gene

A1cf

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

Functioni

Essential component of the apolipoprotein B mRNA editing enzyme complex which is responsible for the postranscriptional editing of a CAA codon for Gln to a UAA codon for stop in APOB mRNA. Binds to APOB mRNA and is probably responsible for docking the catalytic subunit, APOBEC1, to the mRNA to allow it to deaminate its target cytosine. The complex also seems to protect the edited APOB mRNA from nonsense-mediated decay (By similarity).By similarity

GO - Molecular functioni

  • mRNA binding Source: MGI
  • RNA binding Source: HGNC
  • single-stranded RNA binding Source: UniProtKB

GO - Biological processi

  • cytidine to uridine editing Source: MGI
  • embryo implantation Source: MGI
  • mRNA localization resulting in posttranscriptional regulation of gene expression Source: MGI
  • mRNA modification Source: MGI
  • mRNA processing Source: UniProtKB-KW
  • protein stabilization Source: UniProtKB

Keywordsi

Molecular functionRNA-binding
Biological processmRNA processing

Enzyme and pathway databases

ReactomeiR-MMU-72200 mRNA Editing: C to U Conversion
R-MMU-75094 Formation of the Editosome

Names & Taxonomyi

Protein namesi
Recommended name:
APOBEC1 complementation factor
Alternative name(s):
APOBEC1-stimulating protein
Gene namesi
Name:A1cf
Synonyms:Acf, AspBy similarity
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 19

Organism-specific databases

MGIiMGI:1917115 A1cf

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Endoplasmic reticulum, Nucleus

Pathology & Biotechi

Disruption phenotypei

Mice display embryonic lethality at E3.5 due to failure of embryos to implant.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000814831 – 595APOBEC1 complementation factorAdd BLAST595

Proteomic databases

PaxDbiQ5YD48
PeptideAtlasiQ5YD48
PRIDEiQ5YD48

PTM databases

iPTMnetiQ5YD48
PhosphoSitePlusiQ5YD48
SwissPalmiQ5YD48

Expressioni

Tissue specificityi

Expressed primarily in liver, small intestine and kidney.1 Publication

Gene expression databases

BgeeiENSMUSG00000052595 Expressed in 39 organ(s), highest expression level in olfactory epithelium
CleanExiMM_A1CF
ExpressionAtlasiQ5YD48 baseline and differential
GenevisibleiQ5YD48 MM

Interactioni

Subunit structurei

Part of the apolipoprotein B mRNA editing complex with APOBEC1. Interacts with TNPO2; TNPO2 may be responsible for transport of A1CF into the nucleus. Interacts with SYNCRIP. Interacts with CELF2/CUGBP2 (By similarity).By similarity

Protein-protein interaction databases

ComplexPortaliCPX-1098 C-to-U editosome complex
STRINGi10090.ENSMUSP00000075235

Structurei

3D structure databases

ProteinModelPortaliQ5YD48
SMRiQ5YD48
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini56 – 134RRM 1PROSITE-ProRule annotationAdd BLAST79
Domaini136 – 218RRM 2PROSITE-ProRule annotationAdd BLAST83
Domaini231 – 303RRM 3PROSITE-ProRule annotationAdd BLAST73

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni360 – 409Required for nuclear localizationBy similarityAdd BLAST50

Domaini

The RRM domains are necessary but not sufficient for binding to APOB mRNA. Additional residues in the pre-RRM and C-terminal regions are required for RNA-binding and for complementing APOBEC1 activity (By similarity).By similarity

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0117 Eukaryota
ENOG410XTJ5 LUCA
GeneTreeiENSGT00550000074366
HOGENOMiHOG000186083
HOVERGENiHBG051917
InParanoidiQ5YD48
OMAiLIQRTGY
OrthoDBiEOG091G0EUB
TreeFamiTF314932

Family and domain databases

CDDicd00048 DSRM, 1 hit
cd12486 RRM1_ACF, 1 hit
cd12498 RRM3_ACF, 1 hit
Gene3Di3.30.70.330, 3 hits
InterProiView protein in InterPro
IPR033111 A1CF
IPR034538 ACF_RRM1
IPR034539 ACF_RRM3
IPR014720 dsRBD_dom
IPR006535 HnRNP_R/Q_splicing_fac
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
PANTHERiPTHR43980:SF2 PTHR43980:SF2, 1 hit
PfamiView protein in Pfam
PF00076 RRM_1, 3 hits
SMARTiView protein in SMART
SM00360 RRM, 3 hits
SUPFAMiSSF54928 SSF54928, 2 hits
TIGRFAMsiTIGR01648 hnRNP-R-Q, 1 hit
PROSITEiView protein in PROSITE
PS50102 RRM, 3 hits

Sequences (3+)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All

Isoform 11 Publication (identifier: Q5YD48-1) [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
MESNHKSGDG LSGTQKEAAL RALVQRTGYS LVQENGQRKY GGPPPGWDST
60 70 80 90 100
PPERGCEIFI GKLPRDLFED ELIPLCEKIG KIYEMRLMMD FNGNNRGYAF
110 120 130 140 150
VTFSNKQEAK NAIKQLNNYE IRTGRLLGVC ASVDNCRLFV GGIPKTKKRE
160 170 180 190 200
EILSEMKKVT EGVVDVIVYP SAADKTKNRG FAFVEYESHR AAAMARRRLL
210 220 230 240 250
PGRIQLWGHP IAVDWAEPEV EVDEDTMSSV KILYVRNLML STSEEMIEKE
260 270 280 290 300
FNSIKPGAVE RVKKIRDYAF VHFSNREDAV EAMKALNGKV LDGSPIEVTL
310 320 330 340 350
AKPVDKDSYV RYTRGTGGRN TMLQGEYTYP LSHVYDPTTT YLGAPVFYTP
360 370 380 390 400
QAYAAIPSLH FPATKGHLSN RALIRTPSVR EIYMNVPVGA AGVRGLGGRG
410 420 430 440 450
YLAYTGLGRG YHVKGDKRED KLYDLLPGME LTPMNTVSLK PQGIKLAPQI
460 470 480 490 500
LEEICQKNNW GQPVYQLHSA IGQDQRQLFL YKVTIPALAS QNPAIHPFIP
510 520 530 540 550
PKLSAYVDEA KRYAAEHTLQ TLGIPTEGGD AGTTAPTATS ATVFPGYAVP
560 570 580 590
SATAPVSTAQ LKQAVTLGQD LAAYTTYEVY PTFALTTRGD AYGTF
Length:595
Mass (Da):65,682
Last modified:July 27, 2011 - v2
Checksum:i324C2C8B853F8720
GO
Isoform 21 Publication (identifier: Q5YD48-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     381-388: Missing.

Show »
Length:587
Mass (Da):64,736
Checksum:i03DAEC9B06B661AC
GO
Isoform 31 Publication (identifier: Q5YD48-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     381-384: EIYM → GNTS
     385-595: Missing.

Note: Minor isoform detected in less than 10% of cDNA clones.1 Publication
Show »
Length:384
Mass (Da):42,996
Checksum:iD69B38AB91D68ACA
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A286YDF7A0A286YDF7_MOUSE
APOBEC1 complementation factor
A1cf
300Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti140V → R in AAT74916 (PubMed:15451168).Curated1
Sequence conflicti140V → R in AAT74917 (PubMed:15451168).Curated1
Sequence conflicti140V → R in AAT74918 (PubMed:15451168).Curated1
Sequence conflicti485I → V in AAT74916 (PubMed:15451168).Curated1
Sequence conflicti485I → V in AAT74917 (PubMed:15451168).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_051930381 – 388Missing in isoform 2. 1 Publication8
Alternative sequenceiVSP_051931381 – 384EIYM → GNTS in isoform 3. 2 Publications4
Alternative sequenceiVSP_051932385 – 595Missing in isoform 3. 2 PublicationsAdd BLAST211

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY566862 mRNA Translation: AAT74916.1
AY566863 mRNA Translation: AAT74917.1
AY566864 mRNA Translation: AAT74918.1
AC117816 Genomic DNA No translation available.
AC125019 Genomic DNA No translation available.
BC089622 mRNA Translation: AAH89622.1
CCDSiCCDS37959.1 [Q5YD48-1]
RefSeqiNP_001074543.1, NM_001081074.1 [Q5YD48-1]
XP_006527394.1, XM_006527331.1 [Q5YD48-2]
UniGeneiMm.87538

Genome annotation databases

EnsembliENSMUST00000075838; ENSMUSP00000075235; ENSMUSG00000052595 [Q5YD48-1]
ENSMUST00000224304; ENSMUSP00000153542; ENSMUSG00000052595 [Q5YD48-2]
ENSMUST00000224564; ENSMUSP00000153465; ENSMUSG00000052595 [Q5YD48-3]
GeneIDi69865
KEGGimmu:69865
UCSCiuc008het.1 mouse [Q5YD48-3]
uc008heu.1 mouse [Q5YD48-1]
uc008hev.1 mouse [Q5YD48-2]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY566862 mRNA Translation: AAT74916.1
AY566863 mRNA Translation: AAT74917.1
AY566864 mRNA Translation: AAT74918.1
AC117816 Genomic DNA No translation available.
AC125019 Genomic DNA No translation available.
BC089622 mRNA Translation: AAH89622.1
CCDSiCCDS37959.1 [Q5YD48-1]
RefSeqiNP_001074543.1, NM_001081074.1 [Q5YD48-1]
XP_006527394.1, XM_006527331.1 [Q5YD48-2]
UniGeneiMm.87538

3D structure databases

ProteinModelPortaliQ5YD48
SMRiQ5YD48
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

ComplexPortaliCPX-1098 C-to-U editosome complex
STRINGi10090.ENSMUSP00000075235

PTM databases

iPTMnetiQ5YD48
PhosphoSitePlusiQ5YD48
SwissPalmiQ5YD48

Proteomic databases

PaxDbiQ5YD48
PeptideAtlasiQ5YD48
PRIDEiQ5YD48

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000075838; ENSMUSP00000075235; ENSMUSG00000052595 [Q5YD48-1]
ENSMUST00000224304; ENSMUSP00000153542; ENSMUSG00000052595 [Q5YD48-2]
ENSMUST00000224564; ENSMUSP00000153465; ENSMUSG00000052595 [Q5YD48-3]
GeneIDi69865
KEGGimmu:69865
UCSCiuc008het.1 mouse [Q5YD48-3]
uc008heu.1 mouse [Q5YD48-1]
uc008hev.1 mouse [Q5YD48-2]

Organism-specific databases

CTDi29974
MGIiMGI:1917115 A1cf

Phylogenomic databases

eggNOGiKOG0117 Eukaryota
ENOG410XTJ5 LUCA
GeneTreeiENSGT00550000074366
HOGENOMiHOG000186083
HOVERGENiHBG051917
InParanoidiQ5YD48
OMAiLIQRTGY
OrthoDBiEOG091G0EUB
TreeFamiTF314932

Enzyme and pathway databases

ReactomeiR-MMU-72200 mRNA Editing: C to U Conversion
R-MMU-75094 Formation of the Editosome

Miscellaneous databases

PROiPR:Q5YD48
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000052595 Expressed in 39 organ(s), highest expression level in olfactory epithelium
CleanExiMM_A1CF
ExpressionAtlasiQ5YD48 baseline and differential
GenevisibleiQ5YD48 MM

Family and domain databases

CDDicd00048 DSRM, 1 hit
cd12486 RRM1_ACF, 1 hit
cd12498 RRM3_ACF, 1 hit
Gene3Di3.30.70.330, 3 hits
InterProiView protein in InterPro
IPR033111 A1CF
IPR034538 ACF_RRM1
IPR034539 ACF_RRM3
IPR014720 dsRBD_dom
IPR006535 HnRNP_R/Q_splicing_fac
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
PANTHERiPTHR43980:SF2 PTHR43980:SF2, 1 hit
PfamiView protein in Pfam
PF00076 RRM_1, 3 hits
SMARTiView protein in SMART
SM00360 RRM, 3 hits
SUPFAMiSSF54928 SSF54928, 2 hits
TIGRFAMsiTIGR01648 hnRNP-R-Q, 1 hit
PROSITEiView protein in PROSITE
PS50102 RRM, 3 hits
ProtoNetiSearch...

Entry informationi

Entry nameiA1CF_MOUSE
AccessioniPrimary (citable) accession number: Q5YD48
Secondary accession number(s): E9QJS8, Q5FW55, Q5YD47
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: July 27, 2011
Last modified: October 10, 2018
This is version 125 of the entry and version 2 of the sequence. See 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
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Main funding by: National Institutes of Health

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