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Protein

APOBEC1 complementation factor

Gene

A1cf

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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

  • nucleotide binding Source: InterPro
  • RNA binding Source: HGNC
  • single-stranded RNA binding Source: UniProtKB

GO - Biological processi

  • cytidine to uridine editing Source: HGNC
  • mRNA localization resulting in posttranscriptional regulation of gene expression Source: MGI
  • mRNA modification Source: MGI
  • mRNA processing Source: UniProtKB-KW
  • protein stabilization Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

mRNA processing

Keywords - Ligandi

RNA-binding

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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 19

Organism-specific databases

MGIiMGI:1917115. A1cf.

Subcellular locationi

  • Nucleus By similarity
  • Endoplasmic reticulum By similarity
  • Cytoplasm By similarity

  • Note: Predominantly nuclear where it localizes to heterochromatin. Also cytoplasmic where it is found at the outer surface of the endoplasmic reticulum. Shuttles between the nucleus and cytoplasm. May be transported into the nucleus by the nuclear import protein TNPO2/TRN2 or by APOBEC1 (By similarity).By similarity

GO - Cellular componenti

Complete GO annotation...

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.
CleanExiMM_A1CF.
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

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

Sequence similaritiesi

Contains 3 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0117. Eukaryota.
ENOG410XTJ5. LUCA.
GeneTreeiENSGT00550000074366.
HOGENOMiHOG000186083.
HOVERGENiHBG051917.
InParanoidiQ5YD48.
OMAiLIQRTGY.
OrthoDBiEOG091G0EUB.
TreeFamiTF314932.

Family and domain databases

Gene3Di3.30.160.20. 1 hit.
3.30.70.330. 2 hits.
InterProiIPR033111. A1CF.
IPR014720. dsRBD_dom.
IPR006535. HnRNP_R/Q_splicing_fac.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR24012:SF313. PTHR24012:SF313. 3 hits.
PfamiPF00076. RRM_1. 3 hits.
[Graphical view]
SMARTiSM00360. RRM. 3 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
TIGRFAMsiTIGR01648. hnRNP-R-Q. 1 hit.
PROSITEiPS50102. RRM. 3 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

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

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

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]
GeneIDi69865.
KEGGimmu:69865.
UCSCiuc008het.1. mouse. [Q5YD48-3]
uc008heu.1. mouse. [Q5YD48-1]
uc008hev.1. mouse. [Q5YD48-2]

Keywords - Coding sequence diversityi

Alternative splicing

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

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]
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

PROiQ5YD48.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000052595.
CleanExiMM_A1CF.
GenevisibleiQ5YD48. MM.

Family and domain databases

Gene3Di3.30.160.20. 1 hit.
3.30.70.330. 2 hits.
InterProiIPR033111. A1CF.
IPR014720. dsRBD_dom.
IPR006535. HnRNP_R/Q_splicing_fac.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR24012:SF313. PTHR24012:SF313. 3 hits.
PfamiPF00076. RRM_1. 3 hits.
[Graphical view]
SMARTiSM00360. RRM. 3 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
TIGRFAMsiTIGR01648. hnRNP-R-Q. 1 hit.
PROSITEiPS50102. RRM. 3 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiA1CF_MOUSE
AccessioniPrimary (citable) accession number: Q5YD48
Secondary accession number(s): E9QJS8, Q5FW55, Q5YD47
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: July 27, 2011
Last modified: November 2, 2016
This is version 113 of the entry and version 2 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.