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Protein

Nuclear cap-binding protein subunit 2

Gene

CBC2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Component of the CBC complex, which binds co-transcriptionally to the cap of pre-mRNAs and is involved in maturation, export and degradation of nuclear mRNAs. The CBC complex is required for efficient pre-mRNA splicing through efficient commitment complex and spliceosome formation. Together with NPL3, the CBC complex is required for export of mRNAs out of the nucleus. The CBC complex is also involved in nuclear mRNA degradation, probably by directing the mRNAs to the sites of degradation. Affects replication of the positive-strand RNA virus BMV.10 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei24mRNA capBy similarity1
Binding sitei49mRNA capBy similarity1

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • RNA cap binding Source: SGD

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing, mRNA transport, Nonsense-mediated mRNA decay, Transport

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-34073-MONOMER.
ReactomeiR-SCE-113418. Formation of the Early Elongation Complex.
R-SCE-72086. mRNA Capping.
R-SCE-72165. mRNA Splicing - Minor Pathway.
R-SCE-77595. Processing of Intronless Pre-mRNAs.
R-SCE-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-SCE-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:
CBP20
Gene namesi
Name:CBC2
Synonyms:CBP20, MUD13, SAE1
Ordered Locus Names:YPL178W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XVI

Organism-specific databases

EuPathDBiFungiDB:YPL178W.
SGDiS000006099. CBC2.

Subcellular locationi

GO - Cellular componenti

  • commitment complex Source: SGD
  • nuclear cap binding complex Source: SGD
  • perinuclear region of cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002329901 – 208Nuclear cap-binding protein subunit 2Add BLAST208

Proteomic databases

MaxQBiQ08920.
PRIDEiQ08920.

Interactioni

Subunit structurei

Component of the nuclear cap-binding complex (CBC), a heterodimer composed of STO1/CBC1 and CBC2 that interacts with capped RNAs. The complex interacts strongly with the importin subunit alpha SRP1. The SRP1-CBC trimer also binds to capped RNAs, but formation of the importin alpha/beta heterodimer upon binding of KAP95 to SRP1 in the cytoplasm causes dissociation of CBC from the RNA. The CBC complex is part of the commitment complex 1 (CC1), binding to the cap of pre-mRNA and interacting with U1 snRNP subunits MUD2 and SNU56. The CBC complex is part of the NRD1 complex, composed of CBC2, NAB1, NRD1, SEN1 and STO1/CBC2. The CBC complex also interacts with NPL3 and eIF4G (TIF4631 and TIF4632).7 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SRP1Q028213EBI-33556,EBI-1797
STO1P341607EBI-33556,EBI-745

Protein-protein interaction databases

BioGridi36005. 315 interactors.
DIPiDIP-1117N.
IntActiQ08920. 26 interactors.
MINTiMINT-552911.

Structurei

3D structure databases

ProteinModelPortaliQ08920.
SMRiQ08920.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini46 – 124RRMPROSITE-ProRule annotationAdd BLAST79

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni118 – 122mRNA cap-bindingBy similarity5
Regioni129 – 133mRNA cap-bindingBy similarity5
Regioni139 – 140mRNA cap-bindingBy similarity2

Sequence similaritiesi

Belongs to the RRM NCBP2 family.Curated
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00390000003197.
HOGENOMiHOG000217589.
InParanoidiQ08920.
KOiK12883.
OMAiDEVKYDH.
OrthoDBiEOG092C4JSY.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR027157. NCBP2.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR18847. PTHR18847. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q08920-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLEEFDEVK YDHSTKRLDT PSRYLLRKAR RNPNGLQELR ESMKSSTIYV
60 70 80 90 100
GNLSFYTSEE QIYELFSKCG TIKRIIMGLD RFKFTPCGFC FIIYSCPDEA
110 120 130 140 150
LNALKYLSDT KLDEKTITID LDPGFEDGRQ FGRGKSGGQV SDELRFDFDA
160 170 180 190 200
SRGGFAIPFA ERVGVPHSRF DNSSSQSNTN NYIPPPDAMG TFRPGFDEER

EDDNYVPQ
Length:208
Mass (Da):23,774
Last modified:November 1, 1996 - v1
Checksum:iB77E93BDDC429160
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U39665 mRNA. Translation: AAF21454.1.
Z73534 Genomic DNA. Translation: CAA97885.1.
AY692949 Genomic DNA. Translation: AAT92968.1.
BK006949 Genomic DNA. Translation: DAA11256.1.
PIRiS65190.
RefSeqiNP_015147.1. NM_001183992.1.

Genome annotation databases

EnsemblFungiiYPL178W; YPL178W; YPL178W.
GeneIDi855925.
KEGGisce:YPL178W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U39665 mRNA. Translation: AAF21454.1.
Z73534 Genomic DNA. Translation: CAA97885.1.
AY692949 Genomic DNA. Translation: AAT92968.1.
BK006949 Genomic DNA. Translation: DAA11256.1.
PIRiS65190.
RefSeqiNP_015147.1. NM_001183992.1.

3D structure databases

ProteinModelPortaliQ08920.
SMRiQ08920.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36005. 315 interactors.
DIPiDIP-1117N.
IntActiQ08920. 26 interactors.
MINTiMINT-552911.

Proteomic databases

MaxQBiQ08920.
PRIDEiQ08920.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPL178W; YPL178W; YPL178W.
GeneIDi855925.
KEGGisce:YPL178W.

Organism-specific databases

EuPathDBiFungiDB:YPL178W.
SGDiS000006099. CBC2.

Phylogenomic databases

GeneTreeiENSGT00390000003197.
HOGENOMiHOG000217589.
InParanoidiQ08920.
KOiK12883.
OMAiDEVKYDH.
OrthoDBiEOG092C4JSY.

Enzyme and pathway databases

BioCyciYEAST:G3O-34073-MONOMER.
ReactomeiR-SCE-113418. Formation of the Early Elongation Complex.
R-SCE-72086. mRNA Capping.
R-SCE-72165. mRNA Splicing - Minor Pathway.
R-SCE-77595. Processing of Intronless Pre-mRNAs.
R-SCE-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-SCE-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Miscellaneous databases

PROiQ08920.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR027157. NCBP2.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR18847. PTHR18847. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNCBP2_YEAST
AccessioniPrimary (citable) accession number: Q08920
Secondary accession number(s): D6W3J0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 132 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

In contrast to metazoans, where the CBC complex is involved in the nuclear export of capped U snRNAs, it is believed that in yeast, U snRNAs are not exported from the nucleus and U snRNPs are assembled in the nucleus from RNAs and imported proteins.
Present with 6200 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.