Protein Overview: PUF3

General Information:
Name(s) found:	PUF3 / YLL013C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6323016\|ref\|NP_013088.1\| Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial protein [NCBI NR] gi\|34922927\|sp\|Q07807.1\|PUF3_YEAST RecName: Full=mRNA-binding protein PUF3; AltName: Full=Pumilio homology domain family member 3 [NCBI NR] pir\|\|S64755 hypothetical protein YLL013c - yeast (Saccharomyces cerevisiae) [NCBI NR] gi\|1495211\|emb\|CAA62779.1\| L1325 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|1360181\|emb\|CAA97458.1\| unnamed protein product [Saccharomyces cerevisiae] [NCBI NR] mRNA-binding protein PUF3 OS=Saccharomyces cerevisiae GN=PUF3 PE=1 SV=1 [Swiss-Prot] PUF3 Transcript-specific regulator of mRNA degradation [mips] Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins [SGD] YLL013C, Chr XII from 122074-124713, reverse complement [yeast_orfs2] Chr XII from 122074-124713, reverse complement [yeastorf3.fasta] Chr XII from 124713-122074, reverse complement [yeastorf5.fasta] (Q07807) PUF3 protein [4932.FASTACCERV.txt] PUF3 SGDID:S0003936, Chr XII from 124713-122074, reverse complement, Verified ORF [yeastflysequest.fasta] Puf3p [Saccharomyces cerevisiae]gi\|1360181\|emb\|CAA97458.1\| unnamed protein product [Saccharomyces cerevisiae]gi\|1495211\|emb\|CAA62779.1\| L1325 protein [Saccharomyces cerevisiae]gi\|34922927\|sp\|Q07807\|PUF3_YEAST PUF3 proteingi\|2131725\|pir\|\|S64755 hypothe [nrdb_11152004_Chlamydomonas] PUF3 SGDID:S000003936, Chr XII from 124713-122074, reverse complement, Verified ORF, "Protein that regulates degradation of specific mRNAs such as COX17, binds almost exclusively to cytoplasmic mRNAs encoding mitochondrial proteins, member of the PUF prot [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] PUF3 SGDID:S000003936, Chr XII from 124713-122074, reverse complement, Verified ORF, "Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation [SGD_S-cerevisiae_na_08-19-2008_con_reversed.fasta] Protein PUF3 [nr-271106-contam.fasta] unnamed protein product [Saccharomyces cerevisiae] [nr-271106-contam.fasta] L1325 protein [Saccharomyces cerevisiae] [nr-271106-contam.fasta] Protein that regulates degradation of specific mRNAs such as COX17, binds almost exclusively to cytoplasmic mRNAs encoding mitochondrial proteins, member of the PUF protein family that contains Pumilio homology domains; Puf3p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] PUF3 SGDID:S000003936, Chr XII from 124713-122074, reverse complement, Verified ORF, "Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins" [yeast-bovrabprots.fasta] PUF3 SGDID:S000003936, Chr XII from 124713-122074, reverse complement, Verified ORF, "Protein that regulates degradation of specific mRNAs such as COX17, binds almost exclusively to cytoplasmic mRNAs encoding mitochondrial proteins, member of the PUF protein family that contains Pumilio homology domains" [yeast-contam_custom.fasta] [chemostatdb.fasta] mRNA-binding protein PUF3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PUF3 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] PUF3 SGDID:S000003936, Chr XII from 124714-122075, Genome Release 64-1-1, reverse complement, Verified ORF, "Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins" [yeast-030211-contam.fasta] PUF3 SGDID:S000003936, Chr XII from 124714-122075, Genome Release 64-2-1, reverse complement, Verified ORF, "Protein of the mitochondrial outer surface; links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins" [20141208_orf_trans.fasta] YLL013C SGDID:S000003936, Chr XII from 124714-122075, Genome Release 64-1-1, reverse complement, Verified ORF, "Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	879 amino acids
Gene Ontology:
Cellular Component:	cytoplasm [IDA] external side of mitochondrial outer membrane [IDA]
Biological Process:	mRNA catabolic process [IDA] aerobic respiration [IMP] mitochondrion localization [IMP] mitochondrion organization [IMP] nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay [IMP]
Molecular Function:	mRNA binding [IDA]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEMNMDMDMD MELASIVSSL SALSHSNNNG GQAAAAGIVN GGAAGSQQIG GFRRSSFTTA  60
   61 NEVDSEILLL HGSSESSPIF KKTALSVGTA PPFSTNSKKF FGNGGNYYQY RSTDTASLSS 120
  121 ASYNNYHTHH TAANLGKNNK VNHLLGQYSA SIAGPVYYNG NDNNNSGGEG FFEKFGKSLI 180
  181 DGTRELESQD RPDAVNTQSQ FISKSVSNAS LDTQNTFEQN VESDKNFNKL NRNTTNSGSL 240
  241 YHSSSNSGSS ASLESENAHY PKRNIWNVAN TPVFRPSNNP AAVGATNVAL PNQQDGPANN 300
  301 NFPPYMNGFP PNQFHQGPHY QNFPNYLIGS PSNFISQMIS VQIPANEDTE DSNGKKKKKA 360
  361 NRPSSVSSPS SPPNNSPFPF AYPNPMMFMP PPPLSAPQQQ QQQQQQQQQE DQQQQQQQEN 420
  421 PYIYYPTPNP IPVKMPKDEK TFKKRNNKNH PANNSNNANK QANPYLENSI PTKNTSKKNA 480
  481 SSKSNESTAN NHKSHSHSHP HSQSLQQQQQ TYHRSPLLEQ LRNSSSDKNS NSNMSLKDIF 540
  541 GHSLEFCKDQ HGSRFIQREL ATSPASEKEV IFNEIRDDAI ELSNDVFGNY VIQKFFEFGS 600
  601 KIQKNTLVDQ FKGNMKQLSL QMYACRVIQK ALEYIDSNQR IELVLELSDS VLQMIKDQNG 660
  661 NHVIQKAIET IPIEKLPFIL SSLTGHIYHL STHSYGCRVI QRLLEFGSSE DQESILNELK 720
  721 DFIPYLIQDQ YGNYVIQYVL QQDQFTNKEM VDIKQEIIET VANNVVEYSK HKFASNVVEK 780
  781 SILYGSKNQK DLIISKILPR DKNHALNLED DSPMILMIKD QFANYVIQKL VNVSEGEGKK 840
  841 LIVIAIRAYL DKLNKSNSLG NRHLASVEKL AALVENAEV

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Krogan NJ, et al. (2006)		BNI4 BUD14 GIP3 GLC7 GLC8 HER1 PPZ1 PUF3 SDS22 SOL1 SOL2 YLR257W YPI1
View Details	Gavin AC, et al. (2002)		LSM12 PUF3 TUB3
View Details	Ho Y, et al. (2002)		ABP1 ACO1 AIM41 ARC15 ARC18 ARC19 ARC35 ARC40 ARP2 ARP3 ATP3 ATP4 AVO1 BUD14 CAR2 CCT5 CLU1 COR1 CRZ1 CYS4 DCP1 DCP2 DHH1 DNM1 DPB2 EDC3 EDE1 EGD2 ENP1 FET3 FUN12 GAL7 GAS1 GCN3 GFA1 GPH1 HHF1, HHF2 HRR25 HSP104 HXT7 HYP2 IDH1 ILV2 IPP1 LOC1 LSP1 LTV1 MDH1 MDS3 MET16 MGE1 MKK2 NOG2 NPA3 NSA1 NUG1 OYE2 PDX1 PEX19 PHO85 PIL1 PIN4 PST2 PTC4 PUF3 RIO2 RPC19 RPM2 RPN12 RPN8 RVB1 SAP185 SAP190 SAS10 SEC2 SEC23 SES1 SFB3 SGM1 SIS1 SIT4 SLX1 SRP54 STI1 TEM1 TFC7 TMA19 TSR1 VMA4 VMA8 YBR225W YER077C YER138C YGR266W YKR051W YKU80 YLR271W YPR003C

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	CEP3	sample cbf3 from feb 2005	Sandall S, et all (2006)
View Run	RPA135	No Comments	Schneider, DA, et al. (2006)
View Run	ZDS1	Sample 2- cpn2 from june 2005	McCusker D, et al (2007)
View Run	ZDS1	Sample 3 - cpn + atp, from june 2005	McCusker D, et al (2007)
View Run	MLP2	#32 Asynchronous Prep-No Phosphopeptide enrichment	Keck JM, et al. (2011)
View Run	MLP2	#29 Asynchronous Prep5-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#12 Mitotic Prep1-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#30 Asynchronous Prep6-TiO2 Phosphopeptide enrichment	Keck JM, et al. (2011)

Yeast Two-Hybrid Data

The following interactions contain this protein:

SHOWING SINGLE HITS. [ Hide Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	PUF3	SLX5	1	Unpublished Fields Lab Data
View Screen	PUF3	MDJ2	1	Unpublished Fields Lab Data
View Screen	PUF3	MDH3	1	Unpublished Fields Lab Data
View Screen	PUF3	MSB4	1	Unpublished Fields Lab Data
View Screen	PUF3	HEM3	1	Unpublished Fields Lab Data
View Screen	PUF3	MED7	1	Unpublished Fields Lab Data
View Screen	PUF3	GUD1	1	Unpublished Fields Lab Data
View Screen	PUF3	DFR1	1	Unpublished Fields Lab Data
View Screen	PUF3	RSM10	1	Unpublished Fields Lab Data
View Screen	PUF3	SSP2	1	Unpublished Fields Lab Data
View Screen	PUF3	SPT3	1	Unpublished Fields Lab Data
View Screen	PUF3	DIG1	1	Unpublished Fields Lab Data
View Screen	PUF3	YDR491C	1	Unpublished Fields Lab Data
View Screen	PUF3	YDC1	1	Unpublished Fields Lab Data
View Screen	PUF3	RIM8	1	Unpublished Fields Lab Data
View Screen	PUF3	RLM1	1	Unpublished Fields Lab Data
View Screen	PUF3	ADE3	1	Unpublished Fields Lab Data
View Screen	PUF3	FMP30	1	Unpublished Fields Lab Data
View Screen	PUF3	JSN1	1	Unpublished Fields Lab Data
View Screen	PUF3	TFP3	1	Unpublished Fields Lab Data
View Screen	PUF3	NMD5	1	Unpublished Fields Lab Data
View Screen	PUF3	ARG81	1	Unpublished Fields Lab Data
View Screen	PUF3	PGM3	1	Unpublished Fields Lab Data
View Screen	PUF3	GCR2	1	Unpublished Fields Lab Data
View Screen	PUF3	SUI1	1	Unpublished Fields Lab Data
View Screen	PUF3	ROX3	1	Unpublished Fields Lab Data
View Screen	PUF3	MRPS18	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	PUF3	Huh WK, et al. (2003)

Protein Structure Data

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[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..147]	MSA	3.404997	View MSA. No confident structure predictions are available.
2	View Details	[148..513]	ORFEUS	14.59	RBP1
3	View Details	[514..647]	PSI-BLAST	973.9794	Pumilio 1
4	View Details	[648..746]	PSI-BLAST	973.9794	Pumilio 1
5	View Details	[747..879]	PSI-BLAST	973.9794	Pumilio 1

Functions predicted (by domain):

Gene Ontology predictions

No functions predicted.

Term	Confidence	Notes
protein transporter activity	3.78867875686001	bayes_pls_golite062009
binding	2.48958374349477	bayes_pls_golite062009
protein transmembrane transporter activity	2.31781486383479	bayes_pls_golite062009
RNA binding	2.11573661150436	bayes_pls_golite062009
transporter activity	2.07943941884833	bayes_pls_golite062009
substrate-specific transporter activity	1.94695201254013	bayes_pls_golite062009
protein binding	1.94427330399472	bayes_pls_golite062009
nucleic acid binding	1.25530318108311	bayes_pls_golite062009
transmembrane transporter activity	0.912298340413274	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.798034501840742	bayes_pls_golite062009
mRNA binding	0.73831124805124	bayes_pls_golite062009
transcription regulator activity	0.464230801825493	bayes_pls_golite062009
DNA binding	0.356030945125909	bayes_pls_golite062009
hydrolase activity	0.251693850515235	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	0.184228011150913	bayes_pls_golite062009
signal sequence binding	0.14931345687137	bayes_pls_golite062009
nuclear localization sequence binding	0.144906281351729	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	0.128082902706083	bayes_pls_golite062009

No functions predicted.

Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

Philius Transmembrane Prediction:

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.94

Source: Reynolds et al. (2008)

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2