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Q8WU68 (U2AF4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 114. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | 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:
Splicing factor U2AF 26 kDa subunit
Alternative name(s):
U2 auxiliary factor 26
U2 small nuclear RNA auxiliary factor 1-like protein 4
U2(RNU2) small nuclear RNA auxiliary factor 1-like protein 3
Short name=U2 small nuclear RNA auxiliary factor 1-like protein 3
Short name=U2AF1-like protein 3
Gene names
Name:U2AF1L4
Synonyms:U2AF1-RS3, U2AF1L3
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length220 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site By similarity.

Subunit structure

Interacts with GFI1 and U2AF2 By similarity.

Subcellular location

Nucleus By similarity. Nucleus speckle By similarity.

Tissue specificity

Isoform 2 is widely expressed. Isoform 3 is highly expressed in heart, brain and lung, lower expressed in thymus and much lower expressed in peripheral blood leukocytes. Ref.1

Domain

The second zinc finger in necessary for interaction with GFI1 and for alternative pre-mRNA splicing events By similarity.

Sequence similarities

Belongs to the splicing factor SR family.

Contains 2 C3H1-type zinc fingers.

Contains 1 RRM (RNA recognition motif) domain.

Ontologies

Keywords
   Biological processmRNA processing
mRNA splicing
   Cellular componentNucleus
Spliceosome
   Coding sequence diversityAlternative splicing
   DomainRepeat
Zinc-finger
   LigandMetal-binding
RNA-binding
Zinc
   PTMAcetylation
   Technical termComplete proteome
Direct protein sequencing
Reference proteome
Gene Ontology (GO)
   Biological_processRNA splicing

Inferred from electronic annotation. Source: UniProtKB-KW

mRNA processing

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentnuclear speck

Inferred from electronic annotation. Source: UniProtKB-SubCell

spliceosomal complex

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionRNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

nucleotide binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q8WU68-1)

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.
Note: No experimental confirmation available.
Isoform 2 (identifier: Q8WU68-2)

The sequence of this isoform differs from the canonical sequence as follows:
     45-83: Missing.
     143-220: ELSPVTDFRE...CSPDHWHGRF → NVPEVASATS...ILPRLPGSIM
Isoform 3 (identifier: Q8WU68-3)

The sequence of this isoform differs from the canonical sequence as follows:
     45-83: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed Ref.4
Chain2 – 220219Splicing factor U2AF 26 kDa subunit
PRO_0000309740

Regions

Domain65 – 14783RRM
Zinc finger12 – 4029C3H1-type 1
Zinc finger149 – 17628C3H1-type 2

Amino acid modifications

Modified residue21N-acetylalanine Ref.4

Natural variations

Alternative sequence45 – 8339Missing in isoform 2 and isoform 3.
VSP_029264
Alternative sequence143 – 22078ELSPV…WHGRF → NVPEVASATSCICGPFPRTS RGSSMGGDPGAGHPRGSILA TIPERGTIGVPLITGMAASE ALAPLPFTPNRDRCSWQDLS SKPPSLSCPILPRLPGSIM in isoform 2.
VSP_029265

Experimental info

Sequence conflict1091L → V in AAH21186. Ref.3

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified November 13, 2007. Version 2.
Checksum: 64BA09EEDE3FB093

FASTA22025,744
        10         20         30         40         50         60 
MAEYLASIFG TEKDKVNCSF YFKIGVCRHG DRCSRLHNKP TFSQTIVLLN LYRNPQNTAQ 

        70         80         90        100        110        120 
TADGSHCHVS DVEVQEHYDS FFEEVFTELQ EKYGEIEEMN VCDNLGDHLV GNVYVKFRRE 

       130        140        150        160        170        180 
EDGERAVAEL SNRWFNGQAV HGELSPVTDF RESCCRQYEM GECTRGGFCN FMHLRPISQN 

       190        200        210        220 
LQRQLYGRGP RRRSPPRFHT GHHPRERNHR CSPDHWHGRF 

« Hide

Isoform 2 [UniParc].

Checksum: E7001729AA18DD96
Show »

FASTA20222,017
Isoform 3 [UniParc].

Checksum: EE3B93447ABA55AF
Show »

FASTA18121,283

References

« Hide 'large scale' references
[1]"Cloning and characterization of a novel splice variant of human U2AF1L3 gene."
Chen F., Ji C., Dou T., Zheng N., Qiu R., Peng J., Fang W., Feng C., Xie Y., Mao Y.
DNA Seq. 17:282-286(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY.
[2]"The DNA sequence and biology of human chromosome 19."
Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V. expand/collapse author list , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[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 3).
Tissue: Brain.
[4]Bienvenut W.V., Zebisch A., Kolch W.
Submitted (OCT-2008) to UniProtKB
Cited for: PROTEIN SEQUENCE OF 2-13, CLEAVAGE OF INITIATOR METHIONINE, ACETYLATION AT ALA-2, IDENTIFICATION BY MASS SPECTROMETRY.
Tissue: Colon carcinoma.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY569437 mRNA. Translation: AAT72770.3.
AD000671 Genomic DNA. No translation available.
BC021186 mRNA. Translation: AAH21186.1.
RefSeqNP_001035515.1. NM_001040425.2.
NP_659424.2. NM_144987.3.
UniGeneHs.351558.

3D structure databases

ProteinModelPortalQ8WU68.
SMRQ8WU68. Positions 43-146.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid128270. 4 interactions.
IntActQ8WU68. 2 interactions.
STRING9606.ENSP00000292879.

PTM databases

PhosphoSiteQ8WU68.

Polymorphism databases

DMDM160358766.

Proteomic databases

PaxDbQ8WU68.
PRIDEQ8WU68.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000292879; ENSP00000292879; ENSG00000161265. [Q8WU68-2]
ENST00000378975; ENSP00000368258; ENSG00000161265. [Q8WU68-3]
ENST00000412391; ENSP00000397645; ENSG00000161265. [Q8WU68-1]
GeneID199746.
KEGGhsa:199746.
UCSCuc002obe.3. human. [Q8WU68-3]
uc002obf.3. human. [Q8WU68-2]

Organism-specific databases

CTD199746.
GeneCardsGC19M036233.
HGNCHGNC:23020. U2AF1L4.
HPAHPA046378.
MIM601080. gene.
neXtProtNX_Q8WU68.
PharmGKBPA164742763.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG252826.
HOGENOMHOG000178619.
HOVERGENHBG054605.
OMAGQAVHGE.
PhylomeDBQ8WU68.
TreeFamTF300143.

Gene expression databases

BgeeQ8WU68.
CleanExHS_U2AF1L4.
GenevestigatorQ8WU68.

Family and domain databases

Gene3D3.30.70.330. 1 hit.
InterProIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR003954. RRM_dom_euk.
IPR009145. U2_small.
IPR000571. Znf_CCCH.
[Graphical view]
PANTHERPTHR12620. PTHR12620. 1 hit.
PfamPF00076. RRM_1. 1 hit.
PF00642. zf-CCCH. 2 hits.
[Graphical view]
PRINTSPR01848. U2AUXFACTOR.
SMARTSM00361. RRM_1. 1 hit.
SM00356. ZnF_C3H1. 2 hits.
[Graphical view]
PROSITEPS50102. RRM. 1 hit.
PS50103. ZF_C3H1. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

GenomeRNAi199746.
NextBio89722.
PROQ8WU68.
SOURCESearch...

Entry information

Entry nameU2AF4_HUMAN
AccessionPrimary (citable) accession number: Q8WU68
Secondary accession number(s): A6NKI8, Q56UU3
Entry history
Integrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: November 13, 2007
Last modified: April 16, 2014
This is version 114 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 19

Human chromosome 19: entries, gene names and cross-references to MIM