Pre-mRNA polyadenylation factor FIP1 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P45976 (FIP1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 95. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Pre-mRNA polyadenylation factor FIP1

Gene names

Name:	FIP1
Ordered Locus Names:	YJR093C
ORF Names:	J1911

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	327 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Polymerase-regulating component of the cleavage and polyadenylation factor (CPF) complex, which plays a key role in polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with cleavage factors including the CFIA complex and NAB4/CFIB. Pre-mRNA polyadenylation factor that directly interacts with poly(A) polymerase PAP1. This inhibits the extension of an oligo(A) primer by limiting access of the RNA substrate to the C-terminal RNA binding domain of PAP1. Seems to tether PAP1 to the cleavage factor I. Ref.5
Subunit structure	Component of the cleavage and polyadenylation factor (CPF) complex, which is composed of PTI1, SYC1, SSU72, GLC7, MPE1, REF2, PFS2, PTA1, YSH1/BRR5, SWD2, CFT2/YDH1, YTH1, CFT1/YHH1, FIP1 and PAP1. In the CPF complex probably interacts directly with PAP1 and YTH1. Interacts with RNA14. Ref.1 Ref.4 Ref.5 Ref.6 Ref.8 Ref.11
Subcellular location	Nucleus Ref.6.
Domain	Circular dichroism measurements suggest that the protein is largely unstructured in the absence of interaction with PAP1. Ref.11
Miscellaneous	Present with 1310 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the FIP1 family.

Ontologies

Keywords
Biological process	mRNA processing
Cellular component	Nucleus
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	mRNA cleavage Inferred from direct assay PubMed 11344258. Source: SGD mRNA polyadenylation Inferred from direct assay PubMed 11344258. Source: SGD
Cellular_component	mRNA cleavage and polyadenylation specificity factor complex Inferred from direct assay Ref.6. Source: SGD
Molecular_function	protein binding, bridging Inferred from mutant phenotype PubMed 21282348. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
YTH1	Q06102	7	EBI-6940,EBI-38049

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 327

327

Pre-mRNA polyadenylation factor FIP1

PRO_0000215042

Regions

Compositional bias

61 – 80

Asp-rich (acidic)

Compositional bias

258 – 266

Poly-Asn

Compositional bias

284 – 318

Pro-rich

Amino acid modifications

Modified residue

Phosphoserine Ref.9 Ref.10

Modified residue

145

Phosphothreonine Ref.9

Sequences

Sequence

Length

Mass (Da)

Tools

P45976 [UniParc].

Last modified November 1, 1995. Version 1.
Checksum: 471CA2B0CDF99D0A
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FASTA

327

35,777

        10         20         30         40         50         60 
MSSSEDEDDK FLYGSDSELA LPSSKRSRDD EADAGASSNP DIVKRQKFDS PVEETPATAR 

        70         80         90        100        110        120 
DDRSDEDIYS DSSDDDSDSD LEVIISLGPD PTRLDAKLLD SYSTAATSSS KDVISVATDV 

       130        140        150        160        170        180 
SNTITKTSDE RLITEGEANQ GVTATTVKAT ESDGNVPKAM TGSIDLDKEG IFDSVGITTI 

       190        200        210        220        230        240 
DPEVLKEKPW RQPGANLSDY FNYGFNEFTW MEYLHRQEKL QQDYNPRRIL MGLLSLQQQG 

       250        260        270        280        290        300 
KLNSANDTDS NLGNIIDNNN NVNNANMSNL NSNMGNSMSG TPNPPAPPMH PSFPPLPMFG 

       310        320 
SFPPFPMPGM MPPMNQQPNQ NQNQNSK

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The FIP1 gene encodes a component of a yeast pre-mRNA polyadenylation factor that directly interacts with poly(A) polymerase." Preker P.J., Lingner J., Minvielle-Sebastia L., Keller W. Cell 81:379-389(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], INTERACTION WITH PAP1.
[2]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X." Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K. Karpfinger-Hartl L. EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"The WD-repeat protein pfs2p bridges two essential factors within the yeast pre-mRNA 3'-end-processing complex." Ohnacker M., Barabino S.M.L., Preker P.J., Keller W. EMBO J. 19:37-47(2000) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PFS2; RNA14 AND YSH1.
[5]	"Fip1 regulates the activity of Poly(A) polymerase through multiple interactions." Helmling S., Zhelkovsky A., Moore C.L. Mol. Cell. Biol. 21:2026-2037(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH PAP1 AND YTH1.
[6]	"Organization and function of APT, a subcomplex of the yeast cleavage and polyadenylation factor involved in the formation of mRNA and small nucleolar RNA 3'-ends." Nedea E., He X., Kim M., Pootoolal J., Zhong G., Canadien V., Hughes T., Buratowski S., Moore C.L., Greenblatt J. J. Biol. Chem. 278:33000-33010(2003) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE CPF COMPLEX, SUBCELLULAR LOCATION, IDENTIFICATION BY MASS SPECTROMETRY.
[7]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[8]	"Functional dissection of the zinc finger and flanking domains of the Yth1 cleavage/polyadenylation factor." Tacahashi Y., Helmling S., Moore C.L. Nucleic Acids Res. 31:1744-1752(2003) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH YTH1.
[9]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-50 AND THR-145, MASS SPECTROMETRY.
[10]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-50, MASS SPECTROMETRY.
[11]	"Structure of yeast poly(A) polymerase in complex with a peptide from Fip1, an intrinsically disordered protein." Meinke G., Ezeokonkwo C., Balbo P., Stafford W., Moore C., Bohm A. Biochemistry 47:6859-6869(2008) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) OF 80-105 IN COMPLEX WITH PAP1, SUBUNIT, DOMAIN, CIRCULAR DICHROISM.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X83796 Genomic DNA. Translation: CAA58727.1.
Z49593 Genomic DNA. Translation: CAA89621.1.
BK006943 Genomic DNA. Translation: DAA08877.1.

PIR

A56545.

RefSeq

NP_012626.1. NM_001181750.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3C66	X-ray	2.60	C/D	80-105	[»]

ProteinModelPortal

P45976.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-2029N.

IntAct

P45976. 37 interactions.

MINT

MINT-383835.

STRING

4932.YJR093C.

Proteomic databases

PaxDb

P45976.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YJR093C; YJR093C; YJR093C.

GeneID

853555.

KEGG

sce:YJR093C.

Organism-specific databases

CYGD

YJR093c.

SGD

S000003853. FIP1.

Phylogenomic databases

eggNOG

COG5213.

GeneTree

ENSGT00690000102147.

HOGENOM

HOG000000819.

K14405.

OMA

TWMEYLH.

OrthoDB

EOG4K6KDG.

Gene expression databases

Genevestigator

P45976.

GermOnline

YJR093C. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR007854. Fip1.
[Graphical view]

Pfam

PF05182. Fip1. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P45976.

NextBio

974296.

Entry information

Entry name

FIP1_YEAST

Accession

Primary (citable) accession number: P45976
Secondary accession number(s): D6VWR1

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1995
Last sequence update:	November 1, 1995
Last modified:	April 3, 2013
This is version 95 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome X

Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents