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Protein

Nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1

Gene

PUB1

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

May be associated with hnRNA within the nucleus and remains associated during nucleocytoplasmic mRNA transport, once the proteins are in the cytoplasm, disassembly of PUB1-RNA complexes may occur prior to PAB1 binding and formation of a translationally competent RNP complex. Binds to polyadenylated RNA; prefers to bind poly(rU); binds to T-rich single-stranded DNA.

Miscellaneous

Present with 49600 molecules/cell in log phase SD medium.1 Publication

GO - Molecular functioni

  • mRNA binding Source: SGD
  • poly(U) RNA binding Source: SGD

GO - Biological processi

  • nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Source: SGD
  • regulation of mRNA stability Source: SGD
  • stress granule assembly Source: SGD

Keywordsi

Molecular functionRNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-33055-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1
Alternative name(s):
ARS consensus-binding protein ACBP-60
Poly uridylate-binding protein
Short name:
Poly(U)-binding protein
Gene namesi
Name:PUB1
Synonyms:RNP1
Ordered Locus Names:YNL016W
ORF Names:N2842
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNL016W.
SGDiS000004961. PUB1.

Subcellular locationi

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

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00000817452 – 453Nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1Add BLAST452

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserine1 Publication1

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiP32588.
PRIDEiP32588.

Interactioni

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi35810. 276 interactors.
DIPiDIP-5480N.
IntActiP32588. 49 interactors.
MINTiMINT-499485.
STRINGi4932.YNL016W.

Structurei

Secondary structure

1453
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi76 – 83Combined sources8
Helixi88 – 95Combined sources8
Helixi96 – 98Combined sources3
Beta strandi101 – 107Combined sources7
Beta strandi115 – 124Combined sources10
Helixi125 – 135Combined sources11
Beta strandi146 – 149Combined sources4
Beta strandi162 – 167Combined sources6
Helixi175 – 182Combined sources8
Beta strandi188 – 195Combined sources8
Turni197 – 199Combined sources3
Beta strandi202 – 211Combined sources10
Helixi213 – 223Combined sources11
Beta strandi234 – 237Combined sources4
Beta strandi322 – 324Combined sources3
Helixi326 – 333Combined sources8
Beta strandi342 – 347Combined sources6
Helixi354 – 362Combined sources9
Beta strandi368 – 373Combined sources6
Turni374 – 377Combined sources4
Beta strandi378 – 382Combined sources5
Helixi386 – 396Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LA4NMR-A315-414[»]
3MD1X-ray1.60A/B161-240[»]
3MD3X-ray2.70A75-240[»]
ProteinModelPortaliP32588.
SMRiP32588.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP32588.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini75 – 152RRM 1PROSITE-ProRule annotationAdd BLAST78
Domaini162 – 240RRM 2PROSITE-ProRule annotationAdd BLAST79
Domaini341 – 413RRM 3PROSITE-ProRule annotationAdd BLAST73

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni260 – 264RNA-binding RGG-boxBy similarity5

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi8 – 16Gln-rich9
Compositional biasi243 – 288Asn-richAdd BLAST46
Compositional biasi442 – 453Gln-richAdd BLAST12

Keywords - Domaini

Repeat

Phylogenomic databases

GeneTreeiENSGT00870000136413.
HOGENOMiHOG000206748.
InParanoidiP32588.
KOiK13201.
OMAiGSQRHTF.
OrthoDBiEOG092C3SCB.

Family and domain databases

CDDicd12614. RRM1_PUB1. 1 hit.
cd12622. RRM3_PUB1. 1 hit.
InterProiView protein in InterPro
IPR034509. PUB1_RRM1.
IPR034639. PUB1_RRM3.
IPR000504. RRM_dom.
IPR003954. RRM_dom_euk.
PfamiView protein in Pfam
PF00076. RRM_1. 3 hits.
SMARTiView protein in SMART
SM00360. RRM. 3 hits.
SM00361. RRM_1. 2 hits.
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiView protein in PROSITE
PS50102. RRM. 3 hits.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P32588-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSENNEEQHQ QQQQQQPVAV ETPSAVEAPA SADPSSEQSV AVEGNSEQAE
60 70 80 90 100
DNQGENDPSV VPANAITGGR ETSDRVLYVG NLDKAITEDI LKQYFQVGGP
110 120 130 140 150
IANIKIMIDK NNKNVNYAFV EYHQSHDANI ALQTLNGKQI ENNIVKINWA
160 170 180 190 200
FQSQQSSSDD TFNLFVGDLN VNVDDETLRN AFKDFPSYLS GHVMWDMQTG
210 220 230 240 250
SSRGYGFVSF TSQDDAQNAM DSMQGQDLNG RPLRINWAAK RDNNNNNNYQ
260 270 280 290 300
QRRNYGNNNR GGFRQYNSNN NNNMNMGMNM NMNMNMNNSR GMPPSSMGMP
310 320 330 340 350
IGAMPLPSQG QPQQSQTIGL PPQVNPQAVD HIIRSAPPRV TTAYIGNIPH
360 370 380 390 400
FATEADLIPL FQNFGFILDF KHYPEKGCCF IKYDTHEQAA VCIVALANFP
410 420 430 440 450
FQGRNLRTGW GKERSNFMPQ QQQQGGQPLI MNDQQQPVMS EQQQQQQQQQ

QQQ
Length:453
Mass (Da):50,763
Last modified:October 5, 2010 - v4
Checksum:i3B81A7735505D3CA
GO

Sequence cautioni

The sequence AAA02808 differs from that shown. Reason: Frameshift at positions 428 and 450.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti268S → N in AAC37348 (PubMed:8413212).Curated1
Sequence conflicti268S → N in AAC37364 (PubMed:8413213).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L13725 Unassigned DNA. Translation: AAC37348.1.
L20767 Unassigned DNA. Translation: AAC37364.1.
L01797 Unassigned DNA. Translation: AAA02808.1. Frameshift.
Z71292 Genomic DNA. Translation: CAA95877.1.
BK006947 Genomic DNA. Translation: DAA10528.1.
PIRiS62928.
RefSeqiNP_014382.1. NM_001182855.1.

Genome annotation databases

EnsemblFungiiYNL016W; YNL016W; YNL016W.
GeneIDi855716.
KEGGisce:YNL016W.

Similar proteinsi

Entry informationi

Entry nameiPUB1_YEAST
AccessioniPrimary (citable) accession number: P32588
Secondary accession number(s): D6W1G2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 5, 2010
Last modified: September 27, 2017
This is version 163 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names