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Protein

Cleavage and polyadenylation specificity factor subunit 4

Gene

Clp

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays 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. Binds RNA polymers with a preference for G- and/or C-rich clusters. Binds single-stranded DNA non-specifically.2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri35 – 63C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri64 – 91C3H1-type 2PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri92 – 119C3H1-type 3PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri120 – 147C3H1-type 4PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri149 – 171C3H1-type 5PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri189 – 206CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri266 – 283CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

GO - Molecular functioni

  • endoribonuclease activity Source: FlyBase
  • RNA binding Source: GO_Central
  • zinc ion binding Source: InterPro

GO - Biological processi

  • mRNA cleavage Source: FlyBase
  • mRNA polyadenylation Source: FlyBase
  • multicellular organism development Source: UniProtKB-KW
  • pre-mRNA cleavage required for polyadenylation Source: GO_Central

Keywordsi

Molecular functionDevelopmental protein, Endonuclease, Hydrolase, Nuclease, RNA-binding
Biological processmRNA processing
LigandMetal-binding, Zinc

Enzyme and pathway databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
Cleavage and polyadenylation specificity factor subunit 4By similarity (EC:3.1.-.-1 Publication)
Alternative name(s):
Cleavage and polyadenylation specificity factor 30 kDa subunitBy similarity
Protein clipperImported
Gene namesi
Name:Clp
Synonyms:CPSF30Imported, Ssb-c6aImported
ORF Names:CG3642
OrganismiDrosophila melanogaster (Fruit fly)
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraHolometabolaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
Proteomesi
  • UP000000803 Componenti: Chromosome 2L

Organism-specific databases

FlyBaseiFBgn0015621. Clp.

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
ChainiPRO_00004221561 – 296Cleavage and polyadenylation specificity factor subunit 4Add BLAST296

Proteomic databases

PaxDbiQ9VPT8.
PRIDEiQ9VPT8.

Expressioni

Tissue specificityi

During oogenesis, expression is detected in the germarium, in nurse cells, in the oocyte, and in the somatically derived follicular epithelial cells (at protein level). At oogenesis stage 12, nurse cells degenerate and their content is transferred into the oocyte. In larvae, expressed in all organs and disks (at protein level). In the larval salivary gland, expression is initially confined to cells at the anterior end but later expands throughout the entire gland (at protein level).2 Publications

Developmental stagei

Expressed both maternally and zygotically. During embryogenesis expressed only at transcript level. Expressed in larvae (at protein level), pupae and adults. Initial embryonic expression is maternally derived, then gradually decreases until third-instar larvae when there is a burst of zygotic expression. Most of the female expression is ovarian (at protein level).2 Publications

Gene expression databases

BgeeiFBgn0015621.
GenevisibleiQ9VPT8. DM.

Interactioni

Subunit structurei

Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of at least Clp, Cpsf73, Cpsf100 and Cpsf160.1 Publication

Protein-protein interaction databases

BioGridi59513. 19 interactors.
IntActiQ9VPT8. 3 interactors.
MINTiMINT-341478.
STRINGi7227.FBpp0077676.

Structurei

3D structure databases

ProteinModelPortaliQ9VPT8.
SMRiQ9VPT8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domaini

The N-terminal region containing the five C3H1-type zinc fingers is essential for endonuclease activity.1 Publication
The C-terminal region containing the two CCHC-type zinc fingers confers a binding preference for RNAs that contain G- and/or C-rich clusters.1 Publication

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri35 – 63C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri64 – 91C3H1-type 2PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri92 – 119C3H1-type 3PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri120 – 147C3H1-type 4PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri149 – 171C3H1-type 5PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri189 – 206CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri266 – 283CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1040. Eukaryota.
COG5084. LUCA.
GeneTreeiENSGT00390000009627.
InParanoidiQ9VPT8.
KOiK14404.
OMAiANKCTKG.
OrthoDBiEOG091G0JUF.
PhylomeDBiQ9VPT8.

Family and domain databases

Gene3Di4.10.1000.10. 3 hits.
4.10.60.10. 2 hits.
InterProiView protein in InterPro
IPR000571. Znf_CCCH.
IPR036855. Znf_CCCH_sf.
IPR001878. Znf_CCHC.
IPR036875. Znf_CCHC_sf.
PfamiView protein in Pfam
PF00098. zf-CCHC. 2 hits.
SMARTiView protein in SMART
SM00343. ZnF_C2HC. 2 hits.
SM00356. ZnF_C3H1. 5 hits.
SUPFAMiSSF57756. SSF57756. 2 hits.
SSF90229. SSF90229. 1 hit.
PROSITEiView protein in PROSITE
PS50103. ZF_C3H1. 5 hits.
PS50158. ZF_CCHC. 2 hits.

Sequencei

Sequence statusi: Complete.

Q9VPT8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDILLANVSG LQFKAERDLI EQVGAIPLPF YGMDKSIAAV CNFITRNGQE
60 70 80 90 100
CDKGSACPFR HIRGDRTIVC KHWLRGLCKK GDQCEFLHEY DMTKMPECYF
110 120 130 140 150
YSRFNACHNK ECPFLHIDPQ SKVKDCPWYK RGFCRHGPHC RHQHLRRVLC
160 170 180 190 200
MDYLAGFCPE GPSCKHMHPH FELPPLAELG KDQLHKKLPT CHYCGELGHK
210 220 230 240 250
ANSCKQYVGS LEHRNNINAM DHSGGHSGGY SGHSGHIEGA DDMQSNHHSQ
260 270 280 290
PHGPGFVKVP TPLEEITCYK CGNKGHYANK CPKGHLAFLS NQHSHK
Length:296
Mass (Da):33,500
Last modified:May 1, 2000 - v1
Checksum:i0FE03B60F042FBDB
GO

Sequence cautioni

The sequence ABK57069 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti161G → A in AAA67954 (PubMed:8206370).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U26549 mRNA. Translation: AAA67954.1.
AE014134 Genomic DNA. Translation: AAF51453.1.
BT025009 mRNA. Translation: ABE01239.1.
BT029412 mRNA. Translation: ABK57069.1. Different initiation.
RefSeqiNP_477156.1. NM_057808.2.
UniGeneiDm.4233.

Genome annotation databases

EnsemblMetazoaiFBtr0078011; FBpp0077676; FBgn0015621.
GeneIDi33259.
KEGGidme:Dmel_CG3642.
UCSCiCG3642-RA. d. melanogaster.

Similar proteinsi

Entry informationi

Entry nameiCPSF4_DROME
AccessioniPrimary (citable) accession number: Q9VPT8
Secondary accession number(s): A0JQ42, Q24081
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 2013
Last sequence update: May 1, 2000
Last modified: October 25, 2017
This is version 134 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Drosophila
    Drosophila: entries, gene names and cross-references to FlyBase