UniProtKB - O43809 (CPSF5_HUMAN)
Cleavage and polyadenylation specificity factor subunit 5
NUDT21
Functioni
Caution
GO - Molecular functioni
- AU-rich element binding Source: GO_Central
- chromatin binding Source: Ensembl
- histone deacetylase binding Source: UniProtKB
- hydrolase activity Source: InterPro
- identical protein binding Source: UniProtKB
- mRNA 3'-UTR AU-rich region binding Source: UniProtKB
- mRNA binding Source: UniProtKB
- protein homodimerization activity Source: UniProtKB
- RNA binding Source: UniProtKB
GO - Biological processi
- cell differentiation Source: UniProtKB-KW
- messenger ribonucleoprotein complex assembly Source: UniProtKB
- mRNA 3'-end processing Source: Reactome
- mRNA alternative polyadenylation Source: UniProtKB
- mRNA polyadenylation Source: InterPro
- mRNA processing Source: UniProtKB
- mRNA splicing, via spliceosome Source: Reactome
- positive regulation of mRNA cleavage Source: UniProtKB
- positive regulation of mRNA polyadenylation Source: UniProtKB
- positive regulation of pro-B cell differentiation Source: UniProtKB
- positive regulation of stem cell differentiation Source: UniProtKB
- posttranscriptional regulation of gene expression Source: UniProtKB
- pre-mRNA cleavage required for polyadenylation Source: UniProtKB
- protein heterotetramerization Source: UniProtKB
- protein tetramerization Source: UniProtKB
- termination of RNA polymerase II transcription Source: Reactome
Keywordsi
Molecular function | RNA-binding |
Biological process | Differentiation, mRNA processing |
Enzyme and pathway databases
PathwayCommonsi | O43809 |
Reactomei | R-HSA-72163, mRNA Splicing - Major Pathway R-HSA-72187, mRNA 3'-end processing R-HSA-73856, RNA Polymerase II Transcription Termination R-HSA-77595, Processing of Intronless Pre-mRNAs |
Names & Taxonomyi
Protein namesi | Recommended name: Cleavage and polyadenylation specificity factor subunit 51 PublicationAlternative name(s): Cleavage and polyadenylation specificity factor 25 kDa subunit Short name: CPSF 25 kDa subunit Cleavage factor Im complex 25 kDa subunit1 Publication Short name: CFIm251 Publication Nucleoside diphosphate-linked moiety X motif 21 Short name: Nudix motif 21 Nudix hydrolase 21Curated Pre-mRNA cleavage factor Im 68 kDa subunit |
Gene namesi | |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
EuPathDBi | HostDB:ENSG00000167005.13 |
HGNCi | HGNC:13870, NUDT21 |
MIMi | 604978, gene |
neXtProti | NX_O43809 |
Subcellular locationi
Nucleus
- Nucleus 4 Publications
Other locations
- Cytoplasm 1 Publication
Note: Shuttles between the nucleus and the cytoplasm in a transcription- and XPO1/CRM1-independent manner, most probably in complex with the cleavage factor Im complex (CFIm) (PubMed:19864460). In punctate subnuclear structures localized adjacent to nuclear speckles, called paraspeckles (PubMed:15169763).2 Publications
Cytoskeleton
- centriolar satellite Source: HPA
- centrosome Source: LIFEdb
Nucleus
- mRNA cleavage and polyadenylation specificity factor complex Source: UniProtKB
- mRNA cleavage factor complex Source: UniProtKB
- nuclear body Source: HPA
- nucleoplasm Source: Reactome
- nucleus Source: UniProtKB
- paraspeckles Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB
Keywords - Cellular componenti
Cytoplasm, NucleusPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 23 | K → R: Abolishes acetylation. 1 Publication | 1 | |
Mutagenesisi | 29 | K → R: No effect on acetylation. 1 Publication | 1 | |
Mutagenesisi | 55 | E → A: Reduces affinity for UGUA RNA by 88%. 2 Publications | 1 | |
Mutagenesisi | 63 | R → S: Reduces affinity for UGUA RNA by 99%. 2 Publications | 1 | |
Mutagenesisi | 81 | E → A: Reduces affinity for UGUA RNA by 12%. 1 Publication | 1 | |
Mutagenesisi | 103 | F → A: Reduces affinity for UGUA RNA by 99%. 2 Publications | 1 | |
Mutagenesisi | 103 | F → W: Reduces affinity for UGUA RNA by over 90%. 2 Publications | 1 | |
Mutagenesisi | 154 | E → A: Reduces affinity for UGUA RNA by 50%. | 1 | |
Mutagenesisi | 158 | Y → A: Abolishes interaction with CPSF6; when associated with A-160. 1 Publication | 1 | |
Mutagenesisi | 160 | Y → A: Abolishes interaction with CPSF6; when associated with A-158. 1 Publication | 1 | |
Mutagenesisi | 218 | L → R: Reduces interactions with CPSF6 and CPSF7 and decreases mRNA 3'-processing activity. 1 Publication | 1 |
Organism-specific databases
DisGeNETi | 11051 |
OpenTargetsi | ENSG00000167005 |
PharmGKBi | PA26845 |
Miscellaneous databases
Pharosi | O43809, Tbio |
Polymorphism and mutation databases
BioMutai | NUDT21 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | Removed1 Publication | |||
ChainiPRO_0000057150 | 2 – 227 | Cleavage and polyadenylation specificity factor subunit 5Add BLAST | 226 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 2 | N-acetylserine1 Publication | 1 | |
Modified residuei | 15 | Omega-N-methylarginineCombined sources | 1 | |
Modified residuei | 23 | N6-acetyllysineCombined sources1 Publication | 1 | |
Modified residuei | 29 | N6-acetyllysineCombined sources | 1 | |
Modified residuei | 40 | PhosphotyrosineCombined sources | 1 | |
Modified residuei | 56 | N6-acetyllysineCombined sources | 1 |
Post-translational modificationi
Keywords - PTMi
Acetylation, Methylation, PhosphoproteinProteomic databases
EPDi | O43809 |
jPOSTi | O43809 |
MassIVEi | O43809 |
MaxQBi | O43809 |
PaxDbi | O43809 |
PeptideAtlasi | O43809 |
PRIDEi | O43809 |
ProteomicsDBi | 49176 |
TopDownProteomicsi | O43809 |
2D gel databases
UCD-2DPAGEi | O43809 |
PTM databases
iPTMneti | O43809 |
MetOSitei | O43809 |
PhosphoSitePlusi | O43809 |
SwissPalmi | O43809 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSG00000167005, Expressed in testis and 243 other tissues |
ExpressionAtlasi | O43809, baseline and differential |
Genevisiblei | O43809, HS |
Organism-specific databases
HPAi | ENSG00000167005, Low tissue specificity |
Interactioni
Subunit structurei
Homodimer (via N- and C-terminus); binds RNA as homodimer (PubMed:20695905, PubMed:18445629, PubMed:20479262).
Component of the cleavage factor Im (CFIm) complex which is a heterotetramer composed of two subunits of NUDT21/CPSF5 and two subunits of CPSF6 or CPSF7 or a heterodimer of CPSF6 and CPSF7 (PubMed:9659921, PubMed:8626397, PubMed:14561889, PubMed:20695905, PubMed:23187700, PubMed:21295486). The cleavage factor Im (CFIm) complex associates with the CPSF and CSTF complexes to promote the assembly of the core mRNA 3'-processing machinery (PubMed:29276085).
Interacts with CPSF6 (via the RRM domain); this interaction is direct and enhances binding to RNA (PubMed:14561889, PubMed:15169763, PubMed:17172643, PubMed:19864460, PubMed:29276085).
Interacts with CPSF7 (PubMed:29276085, Ref. 30).
Interacts with FIP1L1; this interaction occurs in a RNA sequence-specific manner (PubMed:15937220).
Interacts with PABPN1 (PubMed:15169763).
Interacts (via N-terminus) with PAPOLA (via C-terminus); this interaction is direct and diminished by acetylation (PubMed:15169763, PubMed:17172643).
Interacts with SNRNP70 (PubMed:14561889).
Interacts with VIRMA (PubMed:29507755).
15 PublicationsSites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 55 | Interaction with RNA1 PublicationImported | 1 | |
Sitei | 63 | Interaction with RNA1 PublicationImported | 1 |
Binary interactionsi
Hide detailsO43809
GO - Molecular functioni
- histone deacetylase binding Source: UniProtKB
- identical protein binding Source: UniProtKB
- protein homodimerization activity Source: UniProtKB
Protein-protein interaction databases
BioGRIDi | 116237, 229 interactors |
CORUMi | O43809 |
DIPi | DIP-42502N |
IntActi | O43809, 102 interactors |
MINTi | O43809 |
STRINGi | 9606.ENSP00000300291 |
Miscellaneous databases
RNActi | O43809, protein |
Structurei
Secondary structure
3D structure databases
SMRi | O43809 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | O43809 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 76 – 201 | Nudix hydrolasePROSITE-ProRule annotationAdd BLAST | 126 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 2 – 147 | Necessary for RNA-binding1 PublicationAdd BLAST | 146 | |
Regioni | 81 – 160 | Necessary for interactions with PAPOLA and PABPN11 PublicationAdd BLAST | 80 | |
Regioni | 102 – 104 | Interaction with RNA2 PublicationsImported | 3 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 109 – 130 | Nudix boxAdd BLAST | 22 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG1689, Eukaryota |
GeneTreei | ENSGT00390000015814 |
HOGENOMi | CLU_068704_2_1_1 |
InParanoidi | O43809 |
OMAi | EWEIGDC |
OrthoDBi | 1194206at2759 |
PhylomeDBi | O43809 |
TreeFami | TF106356 |
Family and domain databases
InterProi | View protein in InterPro IPR016706, Cleav_polyA_spec_factor_su5 IPR015797, NUDIX_hydrolase-like_dom_sf IPR000086, NUDIX_hydrolase_dom |
PANTHERi | PTHR13047, PTHR13047, 1 hit |
Pfami | View protein in Pfam PF13869, NUDIX_2, 1 hit |
PIRSFi | PIRSF017888, CPSF-25, 1 hit |
SUPFAMi | SSF55811, SSF55811, 1 hit |
PROSITEi | View protein in PROSITE PS51462, NUDIX, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All
10 20 30 40 50
MSVVPPNRSQ TGWPRGVTQF GNKYIQQTKP LTLERTINLY PLTNYTFGTK
60 70 80 90 100
EPLYEKDSSV AARFQRMREE FDKIGMRRTV EGVLIVHEHR LPHVLLLQLG
110 120 130 140 150
TTFFKLPGGE LNPGEDEVEG LKRLMTEILG RQDGVLQDWV IDDCIGNWWR
160 170 180 190 200
PNFEPPQYPY IPAHITKPKE HKKLFLVQLQ EKALFAVPKN YKLVAAPLFE
210 220
LYDNAPGYGP IISSLPQLLS RFNFIYN
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketH3BND3 | H3BND3_HUMAN | Cleavage and polyadenylation specif... | NUDT21 | 149 | Annotation score: | ||
H3BV41 | H3BV41_HUMAN | Cleavage and polyadenylation-specif... | NUDT21 | 71 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 57 | D → G in CAG33200 (Ref. 2) Curated | 1 | |
Sequence conflicti | 112 | N → D in CAD97606 (PubMed:17974005).Curated | 1 | |
Sequence conflicti | 218 | L → P in CAD97606 (PubMed:17974005).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ001810 mRNA Translation: CAA05026.1 CR456919 mRNA Translation: CAG33200.1 BX537360 mRNA Translation: CAD97606.1 AC092140 Genomic DNA No translation available. BC001403 mRNA Translation: AAH01403.1 |
CCDSi | CCDS10760.1 |
RefSeqi | NP_008937.1, NM_007006.2 |
Genome annotation databases
Ensembli | ENST00000300291; ENSP00000300291; ENSG00000167005 |
GeneIDi | 11051 |
KEGGi | hsa:11051 |
UCSCi | uc002eja.4, human |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ001810 mRNA Translation: CAA05026.1 CR456919 mRNA Translation: CAG33200.1 BX537360 mRNA Translation: CAD97606.1 AC092140 Genomic DNA No translation available. BC001403 mRNA Translation: AAH01403.1 |
CCDSi | CCDS10760.1 |
RefSeqi | NP_008937.1, NM_007006.2 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2CL3 | X-ray | 1.90 | A | 21-227 | [»] | |
2J8Q | X-ray | 2.30 | A/B | 24-227 | [»] | |
3BAP | X-ray | 1.85 | A | 1-227 | [»] | |
3BHO | X-ray | 1.80 | A | 20-227 | [»] | |
3MDG | X-ray | 2.22 | A/B | 1-227 | [»] | |
3MDI | X-ray | 2.07 | A/B | 1-227 | [»] | |
3N9U | X-ray | 1.92 | A/B | 21-227 | [»] | |
3P5T | X-ray | 2.70 | A/B/C/D/E/F | 34-227 | [»] | |
3P6Y | X-ray | 2.90 | A/B/E/F/I/J/M/N | 34-227 | [»] | |
3Q2S | X-ray | 2.90 | A/B | 21-227 | [»] | |
3Q2T | X-ray | 3.06 | A/B | 21-227 | [»] | |
5R4P | X-ray | 1.78 | A/B | 33-227 | [»] | |
5R4Q | X-ray | 1.49 | A/B | 33-227 | [»] | |
5R4R | X-ray | 1.50 | A/B | 33-227 | [»] | |
5R4S | X-ray | 1.61 | A/B | 33-227 | [»] | |
5R4T | X-ray | 1.68 | A/B | 33-227 | [»] | |
5R4U | X-ray | 1.92 | A/B | 33-227 | [»] | |
5R64 | X-ray | 1.84 | A/B | 33-227 | [»] | |
5R65 | X-ray | 2.28 | A/B | 33-227 | [»] | |
5R66 | X-ray | 2.02 | A/B | 33-227 | [»] | |
5R67 | X-ray | 1.52 | A/B | 33-227 | [»] | |
SMRi | O43809 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 116237, 229 interactors |
CORUMi | O43809 |
DIPi | DIP-42502N |
IntActi | O43809, 102 interactors |
MINTi | O43809 |
STRINGi | 9606.ENSP00000300291 |
PTM databases
iPTMneti | O43809 |
MetOSitei | O43809 |
PhosphoSitePlusi | O43809 |
SwissPalmi | O43809 |
Polymorphism and mutation databases
BioMutai | NUDT21 |
2D gel databases
UCD-2DPAGEi | O43809 |
Proteomic databases
EPDi | O43809 |
jPOSTi | O43809 |
MassIVEi | O43809 |
MaxQBi | O43809 |
PaxDbi | O43809 |
PeptideAtlasi | O43809 |
PRIDEi | O43809 |
ProteomicsDBi | 49176 |
TopDownProteomicsi | O43809 |
Protocols and materials databases
Antibodypediai | 14781, 215 antibodies |
DNASUi | 11051 |
Genome annotation databases
Ensembli | ENST00000300291; ENSP00000300291; ENSG00000167005 |
GeneIDi | 11051 |
KEGGi | hsa:11051 |
UCSCi | uc002eja.4, human |
Organism-specific databases
CTDi | 11051 |
DisGeNETi | 11051 |
EuPathDBi | HostDB:ENSG00000167005.13 |
GeneCardsi | NUDT21 |
HGNCi | HGNC:13870, NUDT21 |
HPAi | ENSG00000167005, Low tissue specificity |
MIMi | 604978, gene |
neXtProti | NX_O43809 |
OpenTargetsi | ENSG00000167005 |
PharmGKBi | PA26845 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG1689, Eukaryota |
GeneTreei | ENSGT00390000015814 |
HOGENOMi | CLU_068704_2_1_1 |
InParanoidi | O43809 |
OMAi | EWEIGDC |
OrthoDBi | 1194206at2759 |
PhylomeDBi | O43809 |
TreeFami | TF106356 |
Enzyme and pathway databases
PathwayCommonsi | O43809 |
Reactomei | R-HSA-72163, mRNA Splicing - Major Pathway R-HSA-72187, mRNA 3'-end processing R-HSA-73856, RNA Polymerase II Transcription Termination R-HSA-77595, Processing of Intronless Pre-mRNAs |
Miscellaneous databases
BioGRID-ORCSi | 11051, 768 hits in 848 CRISPR screens |
ChiTaRSi | NUDT21, human |
EvolutionaryTracei | O43809 |
GeneWikii | NUDT21 |
GenomeRNAii | 11051 |
Pharosi | O43809, Tbio |
PROi | PR:O43809 |
RNActi | O43809, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000167005, Expressed in testis and 243 other tissues |
ExpressionAtlasi | O43809, baseline and differential |
Genevisiblei | O43809, HS |
Family and domain databases
InterProi | View protein in InterPro IPR016706, Cleav_polyA_spec_factor_su5 IPR015797, NUDIX_hydrolase-like_dom_sf IPR000086, NUDIX_hydrolase_dom |
PANTHERi | PTHR13047, PTHR13047, 1 hit |
Pfami | View protein in Pfam PF13869, NUDIX_2, 1 hit |
PIRSFi | PIRSF017888, CPSF-25, 1 hit |
SUPFAMi | SSF55811, SSF55811, 1 hit |
PROSITEi | View protein in PROSITE PS51462, NUDIX, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | CPSF5_HUMAN | |
Accessioni | O43809Primary (citable) accession number: O43809 Secondary accession number(s): Q6IB85, Q6NE84 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | February 7, 2006 |
Last sequence update: | June 1, 1998 | |
Last modified: | December 2, 2020 | |
This is version 186 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any 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. |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families - Human chromosome 16
Human chromosome 16: entries, gene names and cross-references to MIM