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Protein

Cleavage and polyadenylation specificity factor subunit 3

Gene

Cpsf3

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

Functioni

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. Has endonuclease activity, and functions as mRNA 3'-end-processing endonuclease. Also involved in the histone 3'-end pre-mRNA processing. U7 snRNP-dependent protein that induces both the 3' endoribonucleolytic cleavage of histone pre-mRNAs and acts as a 5' to 3' exonuclease for degrading the subsequent downstream cleavage product (DCP) of mature histone mRNAs. Cleavage occurs after the 5'-ACCCA-3' sequence in the histone pre-mRNA leaving a 3'hydroxyl group on the upstream fragment containing the stem loop (SL) and 5' phosphate on the downstream cleavage product (DCP) starting with CU nucleotides. The U7-dependent 5' to 3' exonuclease activity is processive and degrades the DCP RNA substrate even after complete removal of the U7-binding site. Binds to the downstream cleavage product (DCP) of histone pre-mRNAs and the cleaved DCP RNA substrate in a U7 snRNP dependent manner.3 Publications

Cofactori

Zn2+By similarityNote: Binds 2 Zn2+ ions per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi71Zinc 1By similarity1
Metal bindingi73Zinc 1By similarity1
Metal bindingi75Zinc 2By similarity1
Metal bindingi76Zinc 2By similarity1
Metal bindingi158Zinc 1By similarity1
Metal bindingi179Zinc 1By similarity1
Metal bindingi179Zinc 2By similarity1
Active sitei396Proton donorSequence analysis1
Metal bindingi418Zinc 2By similarity1

GO - Molecular functioni

  • 5'-3' exonuclease activity Source: UniProtKB
  • endoribonuclease activity Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • RNA binding Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionEndonuclease, Hydrolase, Nuclease, Ribonucleoprotein, RNA-binding
Biological processmRNA processing
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-MMU-109688 Cleavage of Growing Transcript in the Termination Region
R-MMU-72163 mRNA Splicing - Major Pathway
R-MMU-72187 mRNA 3'-end processing
R-MMU-77595 Processing of Intronless Pre-mRNAs

Names & Taxonomyi

Protein namesi
Recommended name:
Cleavage and polyadenylation specificity factor subunit 3 (EC:3.1.27.-1 Publication)
Alternative name(s):
Cleavage and polyadenylation specificity factor 73 kDa subunit
Short name:
CPSF 73 kDa subunit
Short name:
mRNA 3'-end-processing endonuclease CPSF-73
Gene namesi
Name:Cpsf3
Synonyms:Cpsf73
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 12

Organism-specific databases

MGIiMGI:1859328 Cpsf3

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

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000744012 – 684Cleavage and polyadenylation specificity factor subunit 3Add BLAST683

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Cross-linki462Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)By similarity
Cross-linki465Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)By similarity
Cross-linki545Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)By similarity
Modified residuei659PhosphoserineCombined sources1
Modified residuei681PhosphothreonineBy similarity1

Post-translational modificationi

Sumoylated on Lys-462, Lys-465 and Lys-545, preferentially by SUMO3.By similarity

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9QXK7
MaxQBiQ9QXK7
PaxDbiQ9QXK7
PeptideAtlasiQ9QXK7
PRIDEiQ9QXK7

PTM databases

iPTMnetiQ9QXK7
PhosphoSitePlusiQ9QXK7

Expressioni

Gene expression databases

BgeeiENSMUSG00000054309 Expressed in 288 organ(s), highest expression level in midbrain
CleanExiMM_CPSF3
ExpressionAtlasiQ9QXK7 baseline and differential
GenevisibleiQ9QXK7 MM

Interactioni

Subunit structurei

Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1, CPSF2, CPSF3, CPSF4 and FIP1L1. Interacts with CPSF2, CSTF2 and SYMPK. Interacts with TUT1; the interaction is direct and mediates the recruitment of the CPSF complex on the 3'UTR of pre-mRNAs. Interacts with WDR33 (By similarity). Interacts with ZC3H3 (PubMed:16115198).By similarity1 Publication

Protein-protein interaction databases

BioGridi207665, 2 interactors
IntActiQ9QXK7, 1 interactor
MINTiQ9QXK7
STRINGi10090.ENSMUSP00000068148

Structurei

3D structure databases

ProteinModelPortaliQ9QXK7
SMRiQ9QXK7
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1137 Eukaryota
COG1236 LUCA
GeneTreeiENSGT00910000144162
HOGENOMiHOG000203394
HOVERGENiHBG051107
InParanoidiQ9QXK7
KOiK14403
OMAiQMLYTEA
OrthoDBiEOG091G03UN
TreeFamiTF105643

Family and domain databases

Gene3Di3.60.15.10, 2 hits
InterProiView protein in InterPro
IPR022712 Beta_Casp
IPR021718 CPSF73-100_C
IPR001279 Metallo-B-lactamas
IPR036866 RibonucZ/Hydroxyglut_hydro
IPR011108 RMMBL
PfamiView protein in Pfam
PF10996 Beta-Casp, 1 hit
PF11718 CPSF73-100_C, 1 hit
PF00753 Lactamase_B, 1 hit
PF07521 RMMBL, 1 hit
SMARTiView protein in SMART
SM01027 Beta-Casp, 1 hit
SM01098 CPSF73-100_C, 1 hit
SM00849 Lactamase_B, 1 hit
SUPFAMiSSF56281 SSF56281, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry has 1 described isoform and 6 potential isoforms that are computationally mapped.Show allAlign All

Q9QXK7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSAIPAEESD QLLIRPLGAG QEVGRSCIIL EFKGRKIMLD CGIHPGLEGM
60 70 80 90 100
DALPYIDLID PAEIDLLLIS HFHLDHCGAL PWFLQKTSFK GRTFMTHATK
110 120 130 140 150
AIYRWLLSDY VKVSNISADD MLYTETDLEE SMDKIETINF HEVKEVAGIK
160 170 180 190 200
FWCYHAGHVL GAAMFMIEIA GVKLLYTGDF SRQEDRHLMA AEIPNIKPDI
210 220 230 240 250
LIIESTYGTH IHEKREEREA RFCNTVHDIV NRGGRGLIPV FALGRAQELL
260 270 280 290 300
LILDEYWQNH PELHDIPIYY ASSLAKKCMA VYQTYVNAMN DKIRKQININ
310 320 330 340 350
NPFVFKHISN LKSMDHFDDI GPSVVMASPG MIQNGLSREL FESWCTDKRN
360 370 380 390 400
GVIIAGYCVE GTLAKHIMSE PEEITTMSGQ KLPLKMSVDY ISFSAHTDYQ
410 420 430 440 450
QTSEFIRALK PPHVILVHGE QNEMARLKAA LIREYEDNDE VHIEVHNPRN
460 470 480 490 500
TEAVTLNFRG EKLAKVMGFL ADKKPEQGQR VSGILVKRNF NYHILSPCDL
510 520 530 540 550
SNYTDLAMST VKQTQAIPYT GPFYLLYYQL QKLTGDVEEL EIQEKPALKV
560 570 580 590 600
FKSITVVQEP GMVVLEWLAN PSNDMYADTV TTVILEVQSN PKIRKGAVQK
610 620 630 640 650
VSKKLEMHVY SKRLEVMLQD IFGEDCVSVK DDSVLSVTVD GKTANINLET
660 670 680
RAVECEEGSE DDESLREMVE LAAQRLYEAL TPVH
Length:684
Mass (Da):77,505
Last modified:July 27, 2011 - v2
Checksum:i043D09F54284B423
GO

Computationally mapped potential isoform sequencesi

There are 6 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1Y7VLY3A0A1Y7VLY3_MOUSE
Cleavage and polyadenylation-specif...
Cpsf3
512Annotation score:
A0A1Y7VJ97A0A1Y7VJ97_MOUSE
Cleavage and polyadenylation-specif...
Cpsf3
247Annotation score:
A0A1Y7VIZ9A0A1Y7VIZ9_MOUSE
Cleavage and polyadenylation-specif...
Cpsf3
241Annotation score:
A0A1Y7VJU9A0A1Y7VJU9_MOUSE
Cleavage and polyadenylation-specif...
Cpsf3
156Annotation score:
A0A1Y7VNI9A0A1Y7VNI9_MOUSE
Cleavage and polyadenylation-specif...
Cpsf3
28Annotation score:
A0A1Y7VJV9A0A1Y7VJV9_MOUSE
Cleavage and polyadenylation-specif...
Cpsf3
15Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti223 – 224CN → WH in AAF19420 (Ref. 1) Curated2
Sequence conflicti541E → D in AAF19420 (Ref. 1) Curated1
Sequence conflicti564 – 565VL → GS in AAF19420 (Ref. 1) Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF203969 mRNA Translation: AAF19420.1
BC023297 mRNA Translation: AAH23297.1
CCDSiCCDS25834.1
RefSeqiNP_061283.2, NM_018813.3
UniGeneiMm.356778

Genome annotation databases

EnsembliENSMUST00000067284; ENSMUSP00000068148; ENSMUSG00000054309
GeneIDi54451
KEGGimmu:54451
UCSCiuc007ndp.2 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF203969 mRNA Translation: AAF19420.1
BC023297 mRNA Translation: AAH23297.1
CCDSiCCDS25834.1
RefSeqiNP_061283.2, NM_018813.3
UniGeneiMm.356778

3D structure databases

ProteinModelPortaliQ9QXK7
SMRiQ9QXK7
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi207665, 2 interactors
IntActiQ9QXK7, 1 interactor
MINTiQ9QXK7
STRINGi10090.ENSMUSP00000068148

PTM databases

iPTMnetiQ9QXK7
PhosphoSitePlusiQ9QXK7

Proteomic databases

EPDiQ9QXK7
MaxQBiQ9QXK7
PaxDbiQ9QXK7
PeptideAtlasiQ9QXK7
PRIDEiQ9QXK7

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000067284; ENSMUSP00000068148; ENSMUSG00000054309
GeneIDi54451
KEGGimmu:54451
UCSCiuc007ndp.2 mouse

Organism-specific databases

CTDi51692
MGIiMGI:1859328 Cpsf3

Phylogenomic databases

eggNOGiKOG1137 Eukaryota
COG1236 LUCA
GeneTreeiENSGT00910000144162
HOGENOMiHOG000203394
HOVERGENiHBG051107
InParanoidiQ9QXK7
KOiK14403
OMAiQMLYTEA
OrthoDBiEOG091G03UN
TreeFamiTF105643

Enzyme and pathway databases

ReactomeiR-MMU-109688 Cleavage of Growing Transcript in the Termination Region
R-MMU-72163 mRNA Splicing - Major Pathway
R-MMU-72187 mRNA 3'-end processing
R-MMU-77595 Processing of Intronless Pre-mRNAs

Miscellaneous databases

ChiTaRSiCpsf3 mouse
PROiPR:Q9QXK7
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000054309 Expressed in 288 organ(s), highest expression level in midbrain
CleanExiMM_CPSF3
ExpressionAtlasiQ9QXK7 baseline and differential
GenevisibleiQ9QXK7 MM

Family and domain databases

Gene3Di3.60.15.10, 2 hits
InterProiView protein in InterPro
IPR022712 Beta_Casp
IPR021718 CPSF73-100_C
IPR001279 Metallo-B-lactamas
IPR036866 RibonucZ/Hydroxyglut_hydro
IPR011108 RMMBL
PfamiView protein in Pfam
PF10996 Beta-Casp, 1 hit
PF11718 CPSF73-100_C, 1 hit
PF00753 Lactamase_B, 1 hit
PF07521 RMMBL, 1 hit
SMARTiView protein in SMART
SM01027 Beta-Casp, 1 hit
SM01098 CPSF73-100_C, 1 hit
SM00849 Lactamase_B, 1 hit
SUPFAMiSSF56281 SSF56281, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiCPSF3_MOUSE
AccessioniPrimary (citable) accession number: Q9QXK7
Secondary accession number(s): Q8CIM0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 18, 2001
Last sequence update: July 27, 2011
Last modified: September 12, 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. SIMILARITY comments
    Index of protein domains and families
  2. 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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