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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
  • Nuclear Cap Binding Protein Subunit 2, 20kD 2 3
  • Cell Proliferation-Inducing Gene 55 Protein 3 4
  • 20 KDa Nuclear Cap-Binding Protein 3 4
  • NCBP-Interacting Protein 1 3 4
  • NCBP 20 KDa Subunit 3 4
  • CBP20 3 4
  • NIP1 3 4
  • NCBP Interacting Protein 1 3
  • 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 mRNA surveillance pathway and RNA transport. GO annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is NCBP2L.

UniProtKB/Swiss-Prot 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).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NCBP2 Gene

Genomics for NCBP2 Gene

Regulatory Elements for NCBP2 Gene

Enhancers for NCBP2 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around NCBP2 on UCSC Golden Path with GeneCards custom track

Promoters for NCBP2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around NCBP2 on UCSC Golden Path with GeneCards custom track

Genomic Location for NCBP2 Gene

Chromosome:
3
Start:
196,935,402 bp from pter
End:
196,942,597 bp from pter
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

Proteomics data for NCBP2 Gene at MOPED

Post-translational modifications for NCBP2 Gene

  • Ubiquitination at Lys 120 and Lys 151
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for NCBP2 Gene

Domains & Families for NCBP2 Gene

Gene Families for NCBP2 Gene

Protein Domains for NCBP2 Gene

Graphical View of Domain Structure for InterPro Entry

P52298

UniProtKB/Swiss-Prot:

NCBP2_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the RRM NCBP2 family.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
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

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
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).

Gene Ontology (GO) - Molecular Function for NCBP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
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

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
Jensen Localization Image for NCBP2 Gene COMPARTMENTS Subcellular localization image for NCBP2 gene
Compartment Confidence
cytosol 5
nucleus 5
extracellular 1

Gene Ontology (GO) - Cellular Components for NCBP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA,TAS --
GO:0005737 cytoplasm IDA 8601613
genes like me logo Genes that share ontologies with NCBP2: view

Pathways & Interactions for NCBP2 Gene

SuperPathways for NCBP2 Gene

Superpath Contained pathways
1 Formation of the HIV-1 Early Elongation Complex
2 RNA Polymerase II Transcription Termination
3 mRNA Splicing - Major Pathway
4 Regulation of Glucokinase by Glucokinase Regulatory Protein
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:0000387 spliceosomal snRNP assembly TAS --
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006370 7-methylguanosine mRNA capping TAS --
GO:0006405 RNA export from nucleus 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

Unigene Clusters for NCBP2 Gene

Nuclear cap binding protein subunit 2, 20kDa:
Representative Sequences:

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
ECgene alternative splicing isoforms for
NCBP2

Expression for NCBP2 Gene

mRNA expression in normal human tissues 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, PaxDb, MOPED, and MaxQB for NCBP2 Gene



SOURCE GeneReport for Unigene cluster for NCBP2 Gene Hs.591671

genes like me logo Genes that share expression patterns with NCBP2: view

Protein tissue co-expression partners for NCBP2 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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
cow
(Bos Taurus)
Mammalia NCBP2 35
  • 91.88 (n)
  • 100 (a)
NCBP2 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia NCBP2 35
  • 92.52 (n)
  • 100 (a)
NCBP2 36
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ncbp2 35
  • 90.81 (n)
  • 98.08 (a)
Ncbp2 16
Ncbp2 36
  • 98 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia NCBP2 35
  • 99.57 (n)
  • 100 (a)
NCBP2 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pigz 35
  • 89.53 (n)
  • 98.08 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 92 (a)
ManyToMany
-- 36
  • 90 (a)
ManyToMany
-- 36
  • 90 (a)
ManyToMany
-- 36
  • 88 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 55 (a)
OneToMany
chicken
(Gallus gallus)
Aves NCBP2 35
  • 75.48 (n)
  • 88.39 (a)
NCBP2 36
  • 80 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 68 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ncbp2 35
  • 75.33 (n)
  • 86.67 (a)
Str.170 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.1644 35
zebrafish
(Danio rerio)
Actinopterygii ncbp2 35
  • 71.81 (n)
  • 81.21 (a)
ncbp2 36
  • 79 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Cbp20 37
  • 78 (a)
Cbp20 36
  • 68 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea F26A3.2 37
  • 65 (a)
ncbp-2 36
  • 58 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CBC2 36
  • 36 (a)
OneToMany
CBC2 38
thale cress
(Arabidopsis thaliana)
eudicotyledons CBP20 35
  • 61.5 (n)
  • 67.61 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1040 35
rice
(Oryza sativa)
Liliopsida Os02g0612300 35
  • 61.03 (n)
  • 69.01 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.2512 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10672 36
  • 56 (a)
OneToMany
Species with no ortholog for NCBP2:
  • 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)

Paralogs for NCBP2 Gene

Paralogs for NCBP2 Gene

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

genes like me logo Genes that share paralogs with NCBP2: view

Variants for NCBP2 Gene

Sequence variations from dbSNP and Humsavar for NCBP2 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs6733 -- 196,935,825(-) GCAAG(A/C)GGTGA utr-variant-3-prime
rs6734 -- 196,935,650(-) TCTCC(C/T)GTTAA utr-variant-3-prime
rs1061525 -- 196,935,532(-) CCTTC(A/C)CACTG utr-variant-3-prime
rs1061526 -- 196,935,530(-) TTCAC(A/C)CTGTA utr-variant-3-prime
rs480668 -- 196,936,450(-) AAGCA(A/C)AACGA utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
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)

Relevant External Links for NCBP2 Gene

HapMap Linkage Disequilibrium report
NCBP2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NCBP2 Gene

Disorders for NCBP2 Gene

Relevant External Links for NCBP2

Human Genome Epidemiology (HuGE) Navigator
NCBP2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 A.W. (Nature 1995) 2 3 4 23 67
  2. Nonsense-mediated mRNA decay: splicing, translation and mRNP dynamics. (PMID: 15040442) Maquat L.E. (Nat. Rev. Mol. Cell Biol. 2004) 3 23
  3. 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 L.E. (Cell 2001) 3 23
  4. Interaction between the human nuclear cap-binding protein complex and hnRNP F. (PMID: 9111328) Gamberi C. … Mattaj I.W. (Mol. Cell. Biol. 1997) 3 23
  5. A nuclear cap-binding complex binds Balbiani ring pre-mRNA cotranscriptionally and accompanies the ribonucleoprotein particle during nuclear export. (PMID: 8601613) Visa N. … Mattaj I.W. (J. Cell Biol. 1996) 3 23

Products for NCBP2 Gene

Sources for NCBP2 Gene

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