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Protein

Nuclear cap-binding protein subunit 2

Gene

CBP20

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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 and RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs). The CBC complex is involved in miRNA-mediated RNA interference and is required for primary miRNA processing. In the CBC complex, CBP20 recognizes and binds capped RNAs (m7GpppG-capped RNA) but requires ABH1/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. CBP20 also plays a role in stabilization of ABH1/CBP80 and ABH1/CBP80 localization to the nucleus. Involved in flowering regulation via its interaction with FRIGIDA.3 Publications

Miscellaneous

In contrast to other organisms, the CBC complex is apparently not essential for nonsense-mediated mRNA decay (NMD) in Arabidopsis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei14mRNA capBy similarity1
Binding sitei37mRNA capBy similarity1

GO - Molecular functioni

  • RNA cap binding Source: TAIR

GO - Biological processi

  • mRNA cis splicing, via spliceosome Source: InterPro
  • mRNA splicing, via spliceosome Source: GO_Central
  • primary miRNA processing Source: TAIR
  • RNA metabolic process Source: TAIR
  • RNA splicing, via endonucleolytic cleavage and ligation Source: TAIR

Keywordsi

Molecular functionRNA-binding
Biological processmRNA processing, mRNA splicing, RNA-mediated gene silencing

Enzyme and pathway databases

ReactomeiR-ATH-113418 Formation of the Early Elongation Complex
R-ATH-674695 RNA Polymerase II Pre-transcription Events
R-ATH-72086 mRNA Capping
R-ATH-72163 mRNA Splicing - Major Pathway
R-ATH-72165 mRNA Splicing - Minor Pathway
R-ATH-72187 mRNA 3'-end processing
R-ATH-72203 Processing of Capped Intron-Containing Pre-mRNA
R-ATH-77595 Processing of Intronless Pre-mRNAs
R-ATH-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-ATH-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear cap-binding protein subunit 2
Alternative name(s):
20 kDa nuclear cap-binding protein
NCBP 20 kDa subunit
Short name:
AtCBP20
Gene namesi
Name:CBP20
Ordered Locus Names:At5g44200
ORF Names:MLN1.12
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

AraportiAT5G44200
TAIRilocus:2167649 AT5G44200

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Disruption phenotypei

Hypersensitivity to abscisic acid during germination, significant reduction of stomatal conductance and greatly enhanced tolerance to drought. Plants also display mild developmental abnormalities, such as serrated rosette leaves, delayed development and slightly reduced stature.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003852771 – 257Nuclear cap-binding protein subunit 2Add BLAST257

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei245PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ9XFD1

PTM databases

iPTMnetiQ9XFD1

Expressioni

Tissue specificityi

Expressed in all tissues analyzed, including roots, stems, leaves and flowers.2 Publications

Gene expression databases

ExpressionAtlasiQ9XFD1 baseline and differential
GenevisibleiQ9XFD1 AT

Interactioni

Subunit structurei

Component of the nuclear cap-binding complex (CBC), a heterodimer composed of ABH1/CBP80 and CBP20 that interacts with m7GpppG-capped RNA. Interacts with FRIGIDA; the interaction is direct.3 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi19693, 7 interactors
IntActiQ9XFD1, 2 interactors
STRINGi3702.AT5G44200.1

Structurei

3D structure databases

ProteinModelPortaliQ9XFD1
SMRiQ9XFD1
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini34 – 112RRMPROSITE-ProRule annotationAdd BLAST79

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni106 – 110mRNA cap-bindingBy similarity5
Regioni117 – 121mRNA cap-bindingBy similarity5
Regioni127 – 128mRNA cap-bindingBy similarity2

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi201 – 207Nuclear localization signalSequence analysis7
Motifi254 – 257Nuclear localization signalSequence analysis4

Sequence similaritiesi

Belongs to the RRM NCBP2 family.Curated

Phylogenomic databases

eggNOGiKOG0121 Eukaryota
ENOG4111FJQ LUCA
HOGENOMiHOG000217589
InParanoidiQ9XFD1
KOiK12883
OMAiAPPQYDR
OrthoDBiEOG09360MCS
PhylomeDBiQ9XFD1

Family and domain databases

CDDicd12240 RRM_NCBP2, 1 hit
Gene3Di3.30.70.330, 1 hit
InterProiView protein in InterPro
IPR034148 NCBP2_RRM
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
PfamiView protein in Pfam
PF00076 RRM_1, 1 hit
SMARTiView protein in SMART
SM00360 RRM, 1 hit
SUPFAMiSSF54928 SSF54928, 1 hit
PROSITEiView protein in PROSITE
PS50102 RRM, 1 hit

Sequencei

Sequence statusi: Complete.

Q9XFD1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASLFKEQAK LSAYRDRRFS GTQEEFDEAL RASTTVYIGN VSFYTTEEQL
60 70 80 90 100
YELFSRAGEI KKIIMGLDKN TKTPCGFCFV LFYSREDTED AVKYISGTIL
110 120 130 140 150
DDRPIRVDFD WGFQEGRQWG RGRSGGQVRD EYRTDYDPAR GGYGKLVQKE
160 170 180 190 200
LEAQRQLVDY GTGSLGAYPQ AAPTNYGNGR RGGGNYGQGG QNRHGRGDYH
210 220 230 240 250
RKRQRDDDRY GRDNSRRNTD HESRRDTDSD MRPEKNPRFR ESGDSDDDGE

DDRKRRS
Length:257
Mass (Da):29,609
Last modified:November 1, 1999 - v1
Checksum:iDD8B12A0639E1D58
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF140219 mRNA Translation: AAD29697.1
AB005239 Genomic DNA Translation: BAB10987.1
CP002688 Genomic DNA Translation: AED95073.1
CP002688 Genomic DNA Translation: AED95074.1
BT004813 mRNA Translation: AAO44079.1
AK227850 mRNA Translation: BAE99827.1
RefSeqiNP_001078705.1, NM_001085236.2
NP_199233.1, NM_123787.4
UniGeneiAt.23549

Genome annotation databases

EnsemblPlantsiAT5G44200.1; AT5G44200.1; AT5G44200
AT5G44200.2; AT5G44200.2; AT5G44200
GeneIDi834443
GrameneiAT5G44200.1; AT5G44200.1; AT5G44200
AT5G44200.2; AT5G44200.2; AT5G44200
KEGGiath:AT5G44200

Similar proteinsi

Entry informationi

Entry nameiNCBP2_ARATH
AccessioniPrimary (citable) accession number: Q9XFD1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: November 1, 1999
Last modified: May 23, 2018
This is version 125 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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