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Protein

RNA polymerase II subunit B1 CTD phosphatase RTR1

Gene

RTR1

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 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.2 Publications

Catalytic activityi

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri50 – 13687RTR1-typeAdd
BLAST

GO - Molecular functioni

  1. CTD phosphatase activity Source: SGD
  2. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. dephosphorylation of RNA polymerase II C-terminal domain Source: SGD
  2. transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protein phosphatase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-30300-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended 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 namesi
Name:RTR1
Ordered Locus Names:YER139C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome V

Organism-specific databases

CYGDiYER139c.
SGDiS000000941. RTR1.

Subcellular locationi

Cytoplasm. Nucleus
Note: Shuttles constitutively between the cytoplasm and the nucleus.

GO - Cellular componenti

  1. cytoplasm Source: SGD
  2. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi73 – 731C → S: Loss of function. 1 Publication
Mutagenesisi112 – 1121C → S: Loss of function; when associated with S-116. 1 Publication
Mutagenesisi116 – 1161H → S: Loss of function; when associated with S-112. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 226226RNA polymerase II subunit B1 CTD phosphatase RTR1PRO_0000202653Add
BLAST

Proteomic databases

MaxQBiP40084.
PaxDbiP40084.
PeptideAtlasiP40084.

Expressioni

Gene expression databases

GenevestigatoriP40084.

Interactioni

Subunit structurei

Interacts with RPO21.1 Publication

Protein-protein interaction databases

BioGridi36888. 84 interactions.
DIPiDIP-6690N.
IntActiP40084. 8 interactions.
MINTiMINT-649086.
STRINGi4932.YER139C.

Structurei

3D structure databases

ProteinModelPortaliP40084.
SMRiP40084. Positions 1-146.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RPAP2 family.Curated
Contains 1 RTR1-type zinc finger.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri50 – 13687RTR1-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiNOG315830.
GeneTreeiENSGT00530000069589.
HOGENOMiHOG000000844.
InParanoidiP40084.
OMAiHFRCSQF.
OrthoDBiEOG7TXKVF.

Family and domain databases

InterProiIPR007308. DUF408.
[Graphical view]
PfamiPF04181. RPAP2_Rtr1. 1 hit.
[Graphical view]
PROSITEiPS51479. ZF_RTR1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P40084-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATIEDIKET ALIPFQKHRQ LSMHEAEVIT LEIIGLLCDS ECKDEKTLKY
60 70 80 90 100
LGRFLTPDMY QDLVDERNLN KRCGYPLCGK SPERIRDPFS MNDTTKKFLL
110 120 130 140 150
ENNPYAYLSH YCSKFHFRCS QFYQVQLSDE ALFARTGVHL FEDPEQDKHD
160 170 180 190 200
IDFKVTLFEE LLREKASEED IKSLISGLKK LGLNPDSGTT EKDDTELEDD
210 220
LSKWLAQIKI VENDNPSILG DFTRED
Length:226
Mass (Da):26,240
Last modified:January 31, 1995 - v1
Checksum:iE234D9ADC18C3FCA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18917 Genomic DNA. Translation: AAB64666.1.
BK006939 Genomic DNA. Translation: DAA07800.1.
PIRiS50642.
RefSeqiNP_011066.3. NM_001179029.3.

Genome annotation databases

EnsemblFungiiYER139C; YER139C; YER139C.
GeneIDi856882.
KEGGisce:YER139C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18917 Genomic DNA. Translation: AAB64666.1.
BK006939 Genomic DNA. Translation: DAA07800.1.
PIRiS50642.
RefSeqiNP_011066.3. NM_001179029.3.

3D structure databases

ProteinModelPortaliP40084.
SMRiP40084. Positions 1-146.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36888. 84 interactions.
DIPiDIP-6690N.
IntActiP40084. 8 interactions.
MINTiMINT-649086.
STRINGi4932.YER139C.

Proteomic databases

MaxQBiP40084.
PaxDbiP40084.
PeptideAtlasiP40084.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYER139C; YER139C; YER139C.
GeneIDi856882.
KEGGisce:YER139C.

Organism-specific databases

CYGDiYER139c.
SGDiS000000941. RTR1.

Phylogenomic databases

eggNOGiNOG315830.
GeneTreeiENSGT00530000069589.
HOGENOMiHOG000000844.
InParanoidiP40084.
OMAiHFRCSQF.
OrthoDBiEOG7TXKVF.

Enzyme and pathway databases

BioCyciYEAST:G3O-30300-MONOMER.

Miscellaneous databases

NextBioi983269.
PROiP40084.

Gene expression databases

GenevestigatoriP40084.

Family and domain databases

InterProiIPR007308. DUF408.
[Graphical view]
PfamiPF04181. RPAP2_Rtr1. 1 hit.
[Graphical view]
PROSITEiPS51479. ZF_RTR1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  4. 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(2007) [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(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiRTR1_YEAST
AccessioniPrimary (citable) accession number: P40084
Secondary accession number(s): D3DM46
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 31, 1995
Last sequence update: January 31, 1995
Last modified: January 6, 2015
This is version 107 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 5480 molecules/cell in log phase SD medium.1 Publication

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

External Data

Dasty 3

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 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.