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Protein

Poly(A) RNA polymerase protein 1

Gene

TRF5

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

Catalytic subunit of the TRAMP5 complex which has a poly(A) RNA polymerase activity and is involved in a post-transcriptional quality control mechanism limiting inappropriate expression of genetic information. Polyadenylation is required for the degradative activity of the exosome on several of its nuclear RNA substrates like cryptic transcripts generated by RNA polymerase II and III, or hypomethylated pre-tRNAi-Met. Polyadenylates RNA processing and degradation intermediates of snRNAs, snoRNAs and mRNAs that accumulate in strains lacking a functional exosome. TRF5 is also required for proper nuclear division in mitosis and sister chromatid cohesion. Involved in the regulation of histone mRNA levels. May mediate mitotic chromosome condensation.8 Publications

Miscellaneous

Present with 2240 molecules/cell in log phase SD medium.1 Publication

Cofactori

Mg2+By similarity, Mn2+By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi233Magnesium or manganese; catalyticBy similarity1
Metal bindingi235Magnesium or manganese; catalyticBy similarity1

GO - Molecular functioni

  • metal ion binding Source: UniProtKB-KW
  • polynucleotide adenylyltransferase activity Source: SGD

GO - Biological processi

  • cell division Source: UniProtKB-KW
  • histone mRNA catabolic process Source: SGD
  • mitotic nuclear division Source: UniProtKB-KW
  • ncRNA polyadenylation Source: SGD
  • nuclear polyadenylation-dependent CUT catabolic process Source: SGD
  • nuclear polyadenylation-dependent mRNA catabolic process Source: SGD
  • nuclear polyadenylation-dependent rRNA catabolic process Source: SGD
  • nuclear polyadenylation-dependent snoRNA catabolic process Source: SGD
  • nuclear polyadenylation-dependent snRNA catabolic process Source: SGD
  • nuclear polyadenylation-dependent tRNA catabolic process Source: SGD
  • polyadenylation-dependent snoRNA 3'-end processing Source: SGD
  • snoRNA polyadenylation Source: SGD
  • U4 snRNA 3'-end processing Source: SGD

Keywordsi

Molecular functionNucleotidyltransferase, Transferase
Biological processCell cycle, Cell division, Mitosis
LigandMagnesium, Manganese, Metal-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-33287-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Poly(A) RNA polymerase protein 1 (EC:2.7.7.-)
Alternative name(s):
Topoisomerase 1-related protein TRF5
Gene namesi
Name:TRF5
Ordered Locus Names:YNL299W
ORF Names:N0440
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNL299W.
SGDiS000005243. TRF5.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: UniProtKB-SubCell
  • TRAMP complex Source: SGD

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001203161 – 642Poly(A) RNA polymerase protein 1Add BLAST642

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei596PhosphoserineCombined sources1
Modified residuei602PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP48561.
PRIDEiP48561.

PTM databases

iPTMnetiP48561.

Interactioni

Subunit structurei

Component of the TRAMP5 complex composed of at least AIR1, MTR4 and TFR5. Interacts with POL2, DPB2 and DPB11.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
MTR4P470476EBI-19525,EBI-11592

Protein-protein interaction databases

BioGridi35539. 203 interactors.
IntActiP48561. 3 interactors.
MINTiMINT-1776475.

Structurei

3D structure databases

ProteinModelPortaliP48561.
SMRiP48561.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini368 – 428PAP-associatedAdd BLAST61

Sequence similaritiesi

Belongs to the DNA polymerase type-B-like family.Curated

Phylogenomic databases

GeneTreeiENSGT00400000022055.
HOGENOMiHOG000246586.
InParanoidiP48561.
KOiK12596.
OMAiDFNDERD.
OrthoDBiEOG092C144L.

Family and domain databases

InterProiView protein in InterPro
IPR002058. PAP_assoc.
IPR002934. Polymerase_NTP_transf_dom.
PfamiView protein in Pfam
PF01909. NTP_transf_2. 1 hit.
PF03828. PAP_assoc. 1 hit.

Sequencei

Sequence statusi: Complete.

P48561-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTRLKAKYSP TKGKRKEDKH TKRMRKSSFT RTQKMLEVFN DNRSHFNKYE
60 70 80 90 100
SLAIDVEDDD TFGNLVLMEN DKSDVDIPVI EEVTSSEDEQ RAESSKRNNS
110 120 130 140 150
LEDNQDFIAF SDSSEDETEQ IKEDDDERSS FLLTDEHEVS KLTSQQSLNT
160 170 180 190 200
ESACNVEYPW IRNHCHSKQR RIADWLTSEI KDFVHYISPS KNEIKCRNRT
210 220 230 240 250
IDKLRRAVKE LWSDADLHVF GSFATDLYLP GSDIDCVVNS RNRDKEDRNY
260 270 280 290 300
IYELARHLKN KGLAIRMEVI VKTRVPIIKF IEPQSQLHID VSFERTNGLE
310 320 330 340 350
AAKLIREWLR DSPGLRELVL IIKQFLHSRR LNNVHTGGLG GFTVICLVYS
360 370 380 390 400
FLNMHPRIKS NDIDVLDNLG VLLIDFFELY GKNFGYDDVA ISISDGYASY
410 420 430 440 450
IPKSCWRTLE PSRSKFSLAI QDPGDPNNNI SRGSFNMKDI KKAFAGAFEL
460 470 480 490 500
LVNKCWELNS ATFKDRVGKS ILGNVIKYRG QKRDFNDERD LVQNKAIIEN
510 520 530 540 550
ERYHKRRTRI VQEDLFINDT EDLPVEEIYK LDEPAKKKQK AKKDKREGEI
560 570 580 590 600
KKSAIPSPPP DFGVSRSKLK RKVKKTDQGS LLHQNNLSID DLMGLSENDQ
610 620 630 640
ESDQDQKGRD TPSGQDEKSP LETKTVDAQT RRDYWLSKGQ AL
Length:642
Mass (Da):74,179
Last modified:May 29, 2007 - v2
Checksum:i67D4CD75AEBAE1A4
GO

Sequence cautioni

The sequence AAC49099 differs from that shown. Reason: Frameshift at position 612.Curated
The sequence AAC49397 differs from that shown. Reason: Frameshift at position 614.Curated
The sequence CAA96217 differs from that shown. Reason: Frameshift at position 612.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti354 – 355MH → ID in AAC49397 (PubMed:8710513).Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U47282 Genomic DNA. Translation: AAC49397.1. Frameshift.
U23084 Genomic DNA. Translation: AAC49099.1. Frameshift.
Z71575 Genomic DNA. Translation: CAA96217.1. Frameshift.
BK006947 Genomic DNA. Translation: DAA10261.1.
PIRiS60401.
RefSeqiNP_014100.2. NM_001183137.1.

Genome annotation databases

EnsemblFungiiYNL299W; YNL299W; YNL299W.
GeneIDi855417.
KEGGisce:YNL299W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U47282 Genomic DNA. Translation: AAC49397.1. Frameshift.
U23084 Genomic DNA. Translation: AAC49099.1. Frameshift.
Z71575 Genomic DNA. Translation: CAA96217.1. Frameshift.
BK006947 Genomic DNA. Translation: DAA10261.1.
PIRiS60401.
RefSeqiNP_014100.2. NM_001183137.1.

3D structure databases

ProteinModelPortaliP48561.
SMRiP48561.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35539. 203 interactors.
IntActiP48561. 3 interactors.
MINTiMINT-1776475.

PTM databases

iPTMnetiP48561.

Proteomic databases

MaxQBiP48561.
PRIDEiP48561.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNL299W; YNL299W; YNL299W.
GeneIDi855417.
KEGGisce:YNL299W.

Organism-specific databases

EuPathDBiFungiDB:YNL299W.
SGDiS000005243. TRF5.

Phylogenomic databases

GeneTreeiENSGT00400000022055.
HOGENOMiHOG000246586.
InParanoidiP48561.
KOiK12596.
OMAiDFNDERD.
OrthoDBiEOG092C144L.

Enzyme and pathway databases

BioCyciYEAST:G3O-33287-MONOMER.

Miscellaneous databases

PROiPR:P48561.

Family and domain databases

InterProiView protein in InterPro
IPR002058. PAP_assoc.
IPR002934. Polymerase_NTP_transf_dom.
PfamiView protein in Pfam
PF01909. NTP_transf_2. 1 hit.
PF03828. PAP_assoc. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiTRF5_YEAST
AccessioniPrimary (citable) accession number: P48561
Secondary accession number(s): D6W0P5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: May 29, 2007
Last modified: April 12, 2017
This is version 128 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Caution

Was originally thought to have DNA polymerase activity.Curated

Keywords - Technical termi

Complete proteome, 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 XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: 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.