The product of this gene is a component of the nuclear cap-binding protein complex (CBC), which binds to the monomethylated 5' cap of nascent pre-mRNA in the nucleoplasm. The encoded protein has an RNP domain commonly found in RNA binding proteins, and contains the cap-binding activity. The CBC promotes pre-mRNA splicing, 3'-end processing, RNA nuclear export, and nonsense-medi... See more...

Aliases for NCBP2 Gene

Aliases for NCBP2 Gene

  • Nuclear Cap Binding Protein Subunit 2 2 3 5
  • Nuclear Cap Binding Protein Subunit 2, 20kDa 2 3
  • Cell Proliferation-Inducing Gene 55 Protein 3 4
  • Nuclear Cap Binding Protein Subunit 2, 20kD 2 3
  • Nuclear Cap-Binding Protein Subunit 2 3 4
  • 20 KDa Nuclear Cap-Binding Protein 3 4
  • NCBP 20 KDa Subunit 3 4
  • CBP20 3 4
  • NIP1 3 4
  • NCBP Interacting Protein 1 3
  • NCBP-Interacting Protein 1 4
  • PIG55 3
  • CBC2 3

External Ids for NCBP2 Gene

Previous GeneCards Identifiers for NCBP2 Gene

  • GC03M192627
  • GC03M197011
  • GC03M198069
  • GC03M197988
  • GC03M198150
  • GC03M196662
  • GC03M193962

Summaries for NCBP2 Gene

Entrez Gene Summary for NCBP2 Gene

  • The product of this gene is a component of the nuclear cap-binding protein complex (CBC), which binds to the monomethylated 5' cap of nascent pre-mRNA in the nucleoplasm. The encoded protein has an RNP domain commonly found in RNA binding proteins, and contains the cap-binding activity. The CBC promotes pre-mRNA splicing, 3'-end processing, RNA nuclear export, and nonsense-mediated mRNA decay. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for NCBP2 Gene

NCBP2 (Nuclear Cap Binding Protein Subunit 2) is a Protein Coding gene. Among its related pathways are Formation of HIV-1 elongation complex containing HIV-1 Tat and HIV Life Cycle. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is NCBP2L.

UniProtKB/Swiss-Prot Summary for NCBP2 Gene

  • Component of the cap-binding complex (CBC), which binds co-transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense-mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus via its interaction with ALYREF/THOC4/ALY, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U snRNA and intronless mRNAs export from the nucleus. The CBC complex is essential for a pioneer round of mRNA translation, before steady state translation when the CBC complex is replaced by cytoplasmic cap-binding protein eIF4E. The pioneer round of mRNA translation mediated by the CBC complex plays a central role in nonsense-mediated mRNA decay (NMD), NMD only taking place in mRNAs bound to the CBC complex, but not on eIF4E-bound mRNAs. The CBC complex enhances NMD in mRNAs containing at least one exon-junction complex (EJC) via its interaction with UPF1, promoting the interaction between UPF1 and UPF2. The CBC complex is also involved in 'failsafe' NMD, which is independent of the EJC complex, while it does not participate in Staufen-mediated mRNA decay (SMD). During cell proliferation, the CBC complex is also involved in microRNAs (miRNAs) biogenesis via its interaction with SRRT/ARS2, thereby being required for miRNA-mediated RNA interference. The CBC complex also acts as a negative regulator of PARN, thereby acting as an inhibitor of mRNA deadenylation. In the CBC complex, NCBP2/CBP20 recognizes and binds capped RNAs (m7GpppG-capped RNA) but requires NCBP1/CBP80 to stabilize the movement of its N-terminal loop and lock the CBC into a high affinity cap-binding state with the cap structure. The conventional cap-binding complex with NCBP2 binds both small nuclear RNA (snRNA) and messenger (mRNA) and is involved in their export from the nucleus (PubMed:26382858).

Additional gene information for NCBP2 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NCBP2 Gene

Genomics for NCBP2 Gene

GeneHancer (GH) Regulatory Elements for NCBP2 Gene

Promoters and enhancers for NCBP2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NCBP2 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NCBP2

Top Transcription factor binding sites by QIAGEN in the NCBP2 gene promoter:
  • AREB6
  • c-Ets-1
  • CUTL1
  • FOXL1
  • HNF-4alpha1
  • HNF-4alpha2
  • MyoD
  • NF-1
  • NF-1/L
  • PPAR-alpha

Genomic Locations for NCBP2 Gene

Genomic Locations for NCBP2 Gene
chr3:196,935,402-196,942,594
(GRCh38/hg38)
Size:
7,193 bases
Orientation:
Minus strand
chr3:196,662,273-196,669,468
(GRCh37/hg19)
Size:
7,196 bases
Orientation:
Minus strand

Genomic View for NCBP2 Gene

Genes around NCBP2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NCBP2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NCBP2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NCBP2 Gene

Proteins for NCBP2 Gene

  • Protein details for NCBP2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P52298-NCBP2_HUMAN
    Recommended name:
    Nuclear cap-binding protein subunit 2
    Protein Accession:
    P52298
    Secondary Accessions:
    • B2RE91
    • B4DMK7
    • E9PAR5
    • Q14924
    • Q2TS50

    Protein attributes for NCBP2 Gene

    Size:
    156 amino acids
    Molecular mass:
    18001 Da
    Quaternary structure:
    • Component of the nuclear cap-binding complex (CBC), a heterodimer composed of NCBP1/CBP80 and NCBP2/CBP20 that interacts with m7GpppG-capped RNA (PubMed:26382858). Found in a U snRNA export complex with PHAX/RNUXA, NCBP1/CBP80, NCBP2/CBP20, RAN, XPO1 and m7G-capped RNA. Interacts with PHAX/RNUXA, EIF4G1, HNRNPF, HNRNPH1 and ALYREF/THOC4/ALY. Interacts with SRRT/ARS2 and KPNA3 (PubMed:26382858).

    Three dimensional structures from OCA and Proteopedia for NCBP2 Gene

    Alternative splice isoforms for NCBP2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NCBP2 Gene

Post-translational modifications for NCBP2 Gene

  • Ubiquitination at Lys120 and Lys151
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for NCBP2 Gene

Domains & Families for NCBP2 Gene

Gene Families for NCBP2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transporters

Protein Domains for NCBP2 Gene

Blocks:
  • RNA-binding region RNP-1 (RNA recognition motif)
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for NCBP2 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ35897 fis, clone TESTI2009502, highly similar to Nuclear cap-binding protein subunit 2 (B3KSB0_HUMAN)
  • NCBP-interacting protein 1 (NCBP2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P52298

UniProtKB/Swiss-Prot:

NCBP2_HUMAN :
  • Belongs to the RRM NCBP2 family.
Family:
  • Belongs to the RRM NCBP2 family.
genes like me logo Genes that share domains with NCBP2: view

Function for NCBP2 Gene

Molecular function for NCBP2 Gene

UniProtKB/Swiss-Prot Function:
Component of the cap-binding complex (CBC), which binds co-transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense-mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus via its interaction with ALYREF/THOC4/ALY, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U snRNA and intronless mRNAs export from the nucleus. The CBC complex is essential for a pioneer round of mRNA translation, before steady state translation when the CBC complex is replaced by cytoplasmic cap-binding protein eIF4E. The pioneer round of mRNA translation mediated by the CBC complex plays a central role in nonsense-mediated mRNA decay (NMD), NMD only taking place in mRNAs bound to the CBC complex, but not on eIF4E-bound mRNAs. The CBC complex enhances NMD in mRNAs containing at least one exon-junction complex (EJC) via its interaction with UPF1, promoting the interaction between UPF1 and UPF2. The CBC complex is also involved in 'failsafe' NMD, which is independent of the EJC complex, while it does not participate in Staufen-mediated mRNA decay (SMD). During cell proliferation, the CBC complex is also involved in microRNAs (miRNAs) biogenesis via its interaction with SRRT/ARS2, thereby being required for miRNA-mediated RNA interference. The CBC complex also acts as a negative regulator of PARN, thereby acting as an inhibitor of mRNA deadenylation. In the CBC complex, NCBP2/CBP20 recognizes and binds capped RNAs (m7GpppG-capped RNA) but requires NCBP1/CBP80 to stabilize the movement of its N-terminal loop and lock the CBC into a high affinity cap-binding state with the cap structure. The conventional cap-binding complex with NCBP2 binds both small nuclear RNA (snRNA) and messenger (mRNA) and is involved in their export from the nucleus (PubMed:26382858).
GENATLAS Biochemistry:
nuclear cap binding protein subunit 2,component of thecap-binding protein complex in association with NCBP2 and other proteins,mediating premRNA splicing and export of U small nuclear RNAs to the cytoplasm

Phenotypes From GWAS Catalog for NCBP2 Gene

Gene Ontology (GO) - Molecular Function for NCBP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000339 RNA cap binding IEA,NAS 7651522
GO:0000340 RNA 7-methylguanosine cap binding IMP 23793891
GO:0003676 nucleic acid binding IEA --
GO:0003723 NOT RNA binding IDA,IEA 7478990
GO:0003729 mRNA binding IDA 26382858
genes like me logo Genes that share ontologies with NCBP2: view
genes like me logo Genes that share phenotypes with NCBP2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NCBP2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NCBP2 Gene

Localization for NCBP2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NCBP2 Gene

Nucleus. Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NCBP2 gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for NCBP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus NAS,IEA 7651522
GO:0005654 nucleoplasm IDA,TAS --
GO:0005737 cytoplasm IEA,IDA 8601613
GO:0005829 cytosol TAS --
GO:0005845 mRNA cap binding complex IDA 7651522
genes like me logo Genes that share ontologies with NCBP2: view

Pathways & Interactions for NCBP2 Gene

PathCards logo

SuperPathways for NCBP2 Gene

SuperPathway Contained pathways
1 Formation of HIV-1 elongation complex containing HIV-1 Tat
2 HIV Life Cycle
.45
3 Transport of the SLBP independent Mature mRNA
4 mRNA Splicing - Major Pathway
5 Signaling by FGFR2 in disease
genes like me logo Genes that share pathways with NCBP2: view

Gene Ontology (GO) - Biological Process for NCBP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS --
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006366 transcription by RNA polymerase II TAS --
GO:0006368 transcription elongation from RNA polymerase II promoter TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
genes like me logo Genes that share ontologies with NCBP2: view

No data available for SIGNOR curated interactions for NCBP2 Gene

Drugs & Compounds for NCBP2 Gene

No Compound Related Data Available

Transcripts for NCBP2 Gene

mRNA/cDNA for NCBP2 Gene

3 REFSEQ mRNAs :
18 NCBI additional mRNA sequence :
13 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NCBP2

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NCBP2 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c · 7d · 7e ^ 8a · 8b · 8c · 8d · 8e · 8f ·
SP1: - - - - - - -
SP2: - - - - - - - - -
SP3: - - - - - - - -
SP4: - - - - - - - - - - - -
SP5: - - - - - - -
SP6: - - - - - -
SP7: - - - -
SP8: - - - - - - - - - - - -
SP9: - - - - - - -
SP10: - -
SP11: - - - - -

ExUns: 8g · 8h
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for NCBP2 Gene

GeneLoc Exon Structure for
NCBP2

Expression for NCBP2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NCBP2 Gene

Protein differential expression in normal tissues from HIPED for NCBP2 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (19.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NCBP2 Gene



Protein tissue co-expression partners for NCBP2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NCBP2

SOURCE GeneReport for Unigene cluster for NCBP2 Gene:

Hs.591671

Evidence on tissue expression from TISSUES for NCBP2 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with NCBP2: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NCBP2 Gene

Orthologs for NCBP2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NCBP2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NCBP2 31 30
  • 99.57 (n)
OneToOne
dog
(Canis familiaris)
Mammalia NCBP2 31 30
  • 92.52 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 92 (a)
ManyToMany
-- 31
  • 90 (a)
ManyToMany
-- 31
  • 90 (a)
ManyToMany
-- 31
  • 88 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia NCBP2 31 30
  • 91.88 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Ncbp2 17 31 30
  • 90.81 (n)
rat
(Rattus norvegicus)
Mammalia Pigz 30
  • 89.53 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 55 (a)
OneToMany
chicken
(Gallus gallus)
Aves NCBP2 31 30
  • 75.48 (n)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 31
  • 68 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ncbp2 30
  • 75.33 (n)
Str.170 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.1644 30
zebrafish
(Danio rerio)
Actinopterygii ncbp2 31 30 30
  • 71.81 (n)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Cbp20 31 32
  • 68 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea F26A3.2 32
  • 65 (a)
ncbp-2 31
  • 58 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CBC2 33 31
  • 36 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons CBP20 30
  • 61.5 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1040 30
rice
(Oryza sativa)
Liliopsida Os02g0612300 30
  • 61.03 (n)
wheat
(Triticum aestivum)
Liliopsida Ta.2512 30
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10672 31
  • 56 (a)
OneToMany
Species where no ortholog for NCBP2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for NCBP2 Gene

ENSEMBL:
Gene Tree for NCBP2 (if available)
TreeFam:
Gene Tree for NCBP2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NCBP2: view image

Paralogs for NCBP2 Gene

Paralogs for NCBP2 Gene

(3) SIMAP similar genes for NCBP2 Gene using alignment to 5 proteins:

  • NCBP2_HUMAN
  • B3KSB0_HUMAN
  • C9JKF4_HUMAN
  • C9JQX9_HUMAN
  • F8WE41_HUMAN
genes like me logo Genes that share paralogs with NCBP2: view

Variants for NCBP2 Gene

Additional dbSNP identifiers (rs#s) for NCBP2 Gene

Structural Variations from Database of Genomic Variants (DGV) for NCBP2 Gene

Variant ID Type Subtype PubMed ID
esv2763775 CNV gain+loss 21179565
esv3599293 CNV gain 21293372
nsv1003135 CNV gain 25217958
nsv593086 CNV loss 21841781
nsv819558 CNV loss 19587683

Variation tolerance for NCBP2 Gene

Residual Variation Intolerance Score: 39% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.04; 0.99% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NCBP2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NCBP2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NCBP2 Gene

Disorders for NCBP2 Gene

Additional Disease Information for NCBP2

No disorders were found for NCBP2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NCBP2 Gene

Publications for NCBP2 Gene

  1. A cap-binding protein complex mediating U snRNA export. (PMID: 7651522) Izaurralde E … Mattaj IW (Nature 1995) 2 3 4 23 54
  2. Evidence for a pioneer round of mRNA translation: mRNAs subject to nonsense-mediated decay in mammalian cells are bound by CBP80 and CBP20. (PMID: 11551508) Ishigaki Y … Maquat LE (Cell 2001) 3 4 23 54
  3. Interaction between the human nuclear cap-binding protein complex and hnRNP F. (PMID: 9111328) Gamberi C … Mattaj IW (Molecular and cellular biology 1997) 3 4 23 54
  4. A nuclear cap-binding complex binds Balbiani ring pre-mRNA cotranscriptionally and accompanies the ribonucleoprotein particle during nuclear export. (PMID: 8601613) Visa N … Mattaj IW (The Journal of cell biology 1996) 3 4 23 54
  5. Identification of the factors that interact with NCBP, an 80 kDa nuclear cap binding protein. (PMID: 7478990) Kataoka N … Shimura Y (Nucleic acids research 1995) 2 3 4 54

Products for NCBP2 Gene

  • Boster Bio Antibodies for NCBP2
  • Boster Bio ELISA Kits for NCBP2

Sources for NCBP2 Gene