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P40084 (RTR1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 104. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
RNA polymerase II subunit B1 CTD phosphatase RTR1

EC=3.1.3.16
Alternative name(s):
RNA polymerase II-associated protein 2 homolog RTR1
Regulator of transcription 1
Gene names
Name:RTR1
Ordered Locus Names:YER139C
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length226 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

RNA polymerase II subunit B1 C-terminal domain (CTD) phosphatase that dephosphorylates 'Ser-5' of the CTD and regulates RNA polymerase II during the transition from 'Ser-5' to 'Ser-2' phosphorylation. Ref.5 Ref.6

Catalytic activity

[a protein]-serine/threonine phosphate + H2O = [a protein]-serine/threonine + phosphate.

Subunit structure

Interacts with RPO21. Ref.5

Subcellular location

Cytoplasm. Nucleus. Note: Shuttles constitutively between the cytoplasm and the nucleus. Ref.3 Ref.5 Ref.6

Miscellaneous

Present with 5480 molecules/cell in log phase SD medium.

Sequence similarities

Belongs to the RPAP2 family.

Contains 1 RTR1-type zinc finger.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 226226RNA polymerase II subunit B1 CTD phosphatase RTR1
PRO_0000202653

Regions

Zinc finger50 – 13687RTR1-type

Experimental info

Mutagenesis731C → S: Loss of function. Ref.5
Mutagenesis1121C → S: Loss of function; when associated with S-116. Ref.5
Mutagenesis1161H → S: Loss of function; when associated with S-112. Ref.5

Sequences

Sequence LengthMass (Da)Tools
P40084 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: E234D9ADC18C3FCA

FASTA22626,240
        10         20         30         40         50         60 
MATIEDIKET ALIPFQKHRQ LSMHEAEVIT LEIIGLLCDS ECKDEKTLKY LGRFLTPDMY 

        70         80         90        100        110        120 
QDLVDERNLN KRCGYPLCGK SPERIRDPFS MNDTTKKFLL ENNPYAYLSH YCSKFHFRCS 

       130        140        150        160        170        180 
QFYQVQLSDE ALFARTGVHL FEDPEQDKHD IDFKVTLFEE LLREKASEED IKSLISGLKK 

       190        200        210        220 
LGLNPDSGTT EKDDTELEDD LSKWLAQIKI VENDNPSILG DFTRED 

« Hide

References

« Hide 'large scale' references
[1]"The nucleotide sequence of Saccharomyces cerevisiae chromosome V."
Dietrich F.S., Mulligan J.T., Hennessy K.M., Yelton M.A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Guzman E., Hartzell G., Hunicke-Smith S., Hyman R.W. expand/collapse author list , Kayser A., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Norgren R., Oefner P., Oh C., Petel F.X., Roberts D., Sehl P., Schramm S., Shogren T., Smith V., Taylor P., Wei Y., Botstein D., Davis R.W.
Nature 387:78-81(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[2]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[3]"Global analysis of protein localization in budding yeast."
Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K.
Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[4]"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].
[5]"Rtr1 is the Saccharomyces cerevisiae homolog of a novel family of RNA polymerase II-binding proteins."
Gibney P.A., Fries T., Bailer S.M., Morano K.A.
Eukaryot. Cell 7:938-948(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION, ZINC-FINGER, MUTAGENESIS OF CYS-73; CYS-112 AND HIS-116, INTERACTION WITH RPO21.
[6]"Rtr1 is a CTD phosphatase that regulates RNA polymerase II during the transition from serine 5 to serine 2 phosphorylation."
Mosley A.L., Pattenden S.G., Carey M., Venkatesh S., Gilmore J.M., Florens L., Workman J.L., Washburn M.P.
Mol. Cell 34:168-178(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U18917 Genomic DNA. Translation: AAB64666.1.
BK006939 Genomic DNA. Translation: DAA07800.1.
PIRS50642.
RefSeqNP_011066.3. NM_001179029.3.

3D structure databases

ProteinModelPortalP40084.
SMRP40084. Positions 1-146.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid36888. 84 interactions.
DIPDIP-6690N.
IntActP40084. 8 interactions.
MINTMINT-649086.
STRING4932.YER139C.

Proteomic databases

MaxQBP40084.
PaxDbP40084.
PeptideAtlasP40084.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYER139C; YER139C; YER139C.
GeneID856882.
KEGGsce:YER139C.

Organism-specific databases

CYGDYER139c.
SGDS000000941. RTR1.

Phylogenomic databases

eggNOGNOG315830.
GeneTreeENSGT00530000069589.
HOGENOMHOG000000844.
OMAKRCGYPL.
OrthoDBEOG7TXKVF.

Enzyme and pathway databases

BioCycYEAST:G3O-30300-MONOMER.

Gene expression databases

GenevestigatorP40084.

Family and domain databases

InterProIPR007308. DUF408.
[Graphical view]
PfamPF04181. RPAP2_Rtr1. 1 hit.
[Graphical view]
PROSITEPS51479. ZF_RTR1. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio983269.
PROP40084.

Entry information

Entry nameRTR1_YEAST
AccessionPrimary (citable) accession number: P40084
Secondary accession number(s): D3DM46
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: July 9, 2014
This is version 104 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome V

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

Yeast

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

SIMILARITY comments

Index of protein domains and families