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Protein

mRNA-binding protein PUF3

Gene

PUF3

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

RNA-binding protein involved in post-transcriptional regulation. Negatively regulates expression of COX17 by binding to the 3'-UTR of COX17 mRNA. Promotes decay of COX17 mRNA by enhancing its rate of deadenylation and subsequent turnover. Predominantly binds to mRNAs encoding mitochondrial proteins and localizes them to the vicinity of mitochondria for translation. Regulates mitochondrial biogenesis, motility and morphology.7 Publications

GO - Molecular functioni

  • mRNA binding Source: SGD

GO - Biological processi

  • aerobic respiration Source: SGD
  • intracellular mRNA localization Source: SGD
  • mitochondrion localization Source: SGD
  • mitochondrion organization Source: SGD
  • nuclear-transcribed mRNA catabolic process Source: SGD
  • nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay Source: SGD
Complete GO annotation...

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-32118-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
mRNA-binding protein PUF3
Alternative name(s):
Pumilio homology domain family member 3
Gene namesi
Name:PUF3
Ordered Locus Names:YLL013C
ORF Names:L1325
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLL013C.
SGDiS000003936. PUF3.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: SGD
  • cytoplasmic side of mitochondrial outer membrane Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Membrane, Mitochondrion, Mitochondrion outer membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi553S → C: Prevents binding to COX17 mRNA and its rapid decay and increases affinity to HO mRNA, a PUF5 target. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000759241 – 879mRNA-binding protein PUF3Add BLAST879

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei83PhosphothreonineCombined sources1
Modified residuei207PhosphoserineCombined sources1
Modified residuei210PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ07807.
PRIDEiQ07807.

PTM databases

iPTMnetiQ07807.

Interactioni

Protein-protein interaction databases

BioGridi31238. 1794 interactors.
DIPiDIP-4449N.
IntActiQ07807. 25 interactors.
MINTiMINT-552454.

Structurei

Secondary structure

1879
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi516 – 522Combined sources7
Helixi536 – 539Combined sources4
Helixi543 – 547Combined sources5
Helixi550 – 560Combined sources11
Helixi565 – 575Combined sources11
Helixi576 – 578Combined sources3
Helixi579 – 584Combined sources6
Turni586 – 588Combined sources3
Helixi589 – 598Combined sources10
Helixi601 – 611Combined sources11
Helixi615 – 620Combined sources6
Helixi624 – 634Combined sources11
Helixi637 – 644Combined sources8
Helixi645 – 647Combined sources3
Helixi651 – 656Combined sources6
Helixi660 – 670Combined sources11
Helixi673 – 675Combined sources3
Turni677 – 679Combined sources3
Helixi680 – 683Combined sources4
Turni684 – 686Combined sources3
Helixi687 – 691Combined sources5
Helixi696 – 706Combined sources11
Helixi709 – 717Combined sources9
Turni718 – 721Combined sources4
Helixi723 – 728Combined sources6
Helixi732 – 740Combined sources9
Helixi748 – 762Combined sources15
Helixi765 – 769Combined sources5
Helixi774 – 784Combined sources11
Helixi787 – 794Combined sources8
Turni795 – 797Combined sources3
Helixi802 – 806Combined sources5
Helixi813 – 818Combined sources6
Helixi823 – 833Combined sources11
Helixi836 – 855Combined sources20
Helixi865 – 874Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3K49X-ray2.50A/C/E511-879[»]
3K4EX-ray3.20A/C/E511-879[»]
ProteinModelPortaliQ07807.
SMRiQ07807.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ07807.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini513 – 871PUM-HDPROSITE-ProRule annotationAdd BLAST359
Repeati538 – 573Pumilio 1Add BLAST36
Repeati574 – 609Pumilio 2Add BLAST36
Repeati610 – 645Pumilio 3Add BLAST36
Repeati646 – 681Pumilio 4Add BLAST36
Repeati682 – 717Pumilio 5Add BLAST36
Repeati718 – 759Pumilio 6Add BLAST42
Repeati760 – 795Pumilio 7Add BLAST36
Repeati807 – 844Pumilio 8Add BLAST38

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi398 – 409Poly-GlnAdd BLAST12
Compositional biasi412 – 418Poly-Gln7

Sequence similaritiesi

Belongs to the PUF3 family.Curated
Contains 1 PUM-HD domain.PROSITE-ProRule annotation
Contains 8 pumilio repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

GeneTreeiENSGT00390000017241.
InParanoidiQ07807.
KOiK17944.
OMAiFFEFGSK.
OrthoDBiEOG092C0M8D.

Family and domain databases

CDDicd07920. Pumilio. 1 hit.
Gene3Di1.25.10.10. 1 hit.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR033133. PUM-HD.
IPR033712. Pumilio_RNA-bd.
IPR001313. Pumilio_RNA-bd_rpt.
[Graphical view]
PfamiPF00806. PUF. 6 hits.
[Graphical view]
SMARTiSM00025. Pumilio. 8 hits.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.
PROSITEiPS50302. PUM. 8 hits.
PS50303. PUM_HD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q07807-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEMNMDMDMD MELASIVSSL SALSHSNNNG GQAAAAGIVN GGAAGSQQIG
60 70 80 90 100
GFRRSSFTTA NEVDSEILLL HGSSESSPIF KKTALSVGTA PPFSTNSKKF
110 120 130 140 150
FGNGGNYYQY RSTDTASLSS ASYNNYHTHH TAANLGKNNK VNHLLGQYSA
160 170 180 190 200
SIAGPVYYNG NDNNNSGGEG FFEKFGKSLI DGTRELESQD RPDAVNTQSQ
210 220 230 240 250
FISKSVSNAS LDTQNTFEQN VESDKNFNKL NRNTTNSGSL YHSSSNSGSS
260 270 280 290 300
ASLESENAHY PKRNIWNVAN TPVFRPSNNP AAVGATNVAL PNQQDGPANN
310 320 330 340 350
NFPPYMNGFP PNQFHQGPHY QNFPNYLIGS PSNFISQMIS VQIPANEDTE
360 370 380 390 400
DSNGKKKKKA NRPSSVSSPS SPPNNSPFPF AYPNPMMFMP PPPLSAPQQQ
410 420 430 440 450
QQQQQQQQQE DQQQQQQQEN PYIYYPTPNP IPVKMPKDEK TFKKRNNKNH
460 470 480 490 500
PANNSNNANK QANPYLENSI PTKNTSKKNA SSKSNESTAN NHKSHSHSHP
510 520 530 540 550
HSQSLQQQQQ TYHRSPLLEQ LRNSSSDKNS NSNMSLKDIF GHSLEFCKDQ
560 570 580 590 600
HGSRFIQREL ATSPASEKEV IFNEIRDDAI ELSNDVFGNY VIQKFFEFGS
610 620 630 640 650
KIQKNTLVDQ FKGNMKQLSL QMYACRVIQK ALEYIDSNQR IELVLELSDS
660 670 680 690 700
VLQMIKDQNG NHVIQKAIET IPIEKLPFIL SSLTGHIYHL STHSYGCRVI
710 720 730 740 750
QRLLEFGSSE DQESILNELK DFIPYLIQDQ YGNYVIQYVL QQDQFTNKEM
760 770 780 790 800
VDIKQEIIET VANNVVEYSK HKFASNVVEK SILYGSKNQK DLIISKILPR
810 820 830 840 850
DKNHALNLED DSPMILMIKD QFANYVIQKL VNVSEGEGKK LIVIAIRAYL
860 870
DKLNKSNSLG NRHLASVEKL AALVENAEV
Length:879
Mass (Da):98,068
Last modified:November 1, 1996 - v1
Checksum:i13F6D2D829CBCBF6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X97560 Genomic DNA. Translation: CAA66165.1.
X91488 Genomic DNA. Translation: CAA62779.1.
Z73117 Genomic DNA. Translation: CAA97457.1.
Z73118 Genomic DNA. Translation: CAA97458.1.
BK006945 Genomic DNA. Translation: DAA09305.1.
PIRiS64755.
RefSeqiNP_013088.1. NM_001181833.1.

Genome annotation databases

EnsemblFungiiYLL013C; YLL013C; YLL013C.
GeneIDi850647.
KEGGisce:YLL013C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X97560 Genomic DNA. Translation: CAA66165.1.
X91488 Genomic DNA. Translation: CAA62779.1.
Z73117 Genomic DNA. Translation: CAA97457.1.
Z73118 Genomic DNA. Translation: CAA97458.1.
BK006945 Genomic DNA. Translation: DAA09305.1.
PIRiS64755.
RefSeqiNP_013088.1. NM_001181833.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3K49X-ray2.50A/C/E511-879[»]
3K4EX-ray3.20A/C/E511-879[»]
ProteinModelPortaliQ07807.
SMRiQ07807.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31238. 1794 interactors.
DIPiDIP-4449N.
IntActiQ07807. 25 interactors.
MINTiMINT-552454.

PTM databases

iPTMnetiQ07807.

Proteomic databases

MaxQBiQ07807.
PRIDEiQ07807.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLL013C; YLL013C; YLL013C.
GeneIDi850647.
KEGGisce:YLL013C.

Organism-specific databases

EuPathDBiFungiDB:YLL013C.
SGDiS000003936. PUF3.

Phylogenomic databases

GeneTreeiENSGT00390000017241.
InParanoidiQ07807.
KOiK17944.
OMAiFFEFGSK.
OrthoDBiEOG092C0M8D.

Enzyme and pathway databases

BioCyciYEAST:G3O-32118-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ07807.
PROiQ07807.

Family and domain databases

CDDicd07920. Pumilio. 1 hit.
Gene3Di1.25.10.10. 1 hit.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR033133. PUM-HD.
IPR033712. Pumilio_RNA-bd.
IPR001313. Pumilio_RNA-bd_rpt.
[Graphical view]
PfamiPF00806. PUF. 6 hits.
[Graphical view]
SMARTiSM00025. Pumilio. 8 hits.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.
PROSITEiPS50302. PUM. 8 hits.
PS50303. PUM_HD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPUF3_YEAST
AccessioniPrimary (citable) accession number: Q07807
Secondary accession number(s): D6VXY9, Q02601
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2003
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 137 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 846 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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