RPH1/YER169W Summary Help

Standard Name RPH1 1
Systematic Name YER169W
Feature Type ORF, Verified
Description JmjC domain-containing histone demethylase; specifically demethylates H3K36 tri- and dimethyl modification states; associates with actively transcribed (RNAP II) regions in vivo and specifically targets H3K36 in its trimethylation state as its substrate; transcriptional repressor of PHR1; Rph1p phosphorylation during DNA damage is under control of the MEC1-RAD53 pathway; target of stess-induced hormesis; RPH1 has a paralog, GIS1, that arose from the whole genome duplication (1, 2, 3, 4, 5, 6, 7)
Name Description Regulator of PHR1 1
Gene Product Alias KDM4 8
Chromosomal Location
ChrV:523369 to 525759 | ORF Map | GBrowse
Gbrowse
Gene Ontology Annotations All RPH1 GO evidence and references
  View Computational GO annotations for RPH1
Molecular Function
Manually curated
High-throughput
Biological Process
Manually curated
Cellular Component
Manually curated
Targets 34 genes
Regulators 2 genes
Resources
Classical genetics
null
Large-scale survey
null
overexpression
Resources
44 total interaction(s) for 39 unique genes/features.
Physical Interactions
  • Affinity Capture-MS: 3
  • Affinity Capture-RNA: 1
  • Affinity Capture-Western: 2
  • Biochemical Activity: 2
  • Co-localization: 4
  • Protein-peptide: 2

Genetic Interactions
  • Dosage Rescue: 2
  • Negative Genetic: 18
  • Phenotypic Enhancement: 1
  • Positive Genetic: 7
  • Synthetic Growth Defect: 2

Resources
Expression Summary
histogram
Resources
Length (a.a.) 796
Molecular Weight (Da) 90,211
Isoelectric Point (pI) 9.84
Localization
Phosphorylation PhosphoGRID | PhosphoPep Database
Structure
Homologs
sequence information
ChrV:523369 to 525759 | ORF Map | GBrowse
SGD ORF map
Last Update Coordinates: 2011-02-03 | Sequence: 1996-07-31
Subfeature details
Relative
Coordinates
Chromosomal
Coordinates
Most Recent Updates
Coordinates Sequence
CDS 1..2391 523369..525759 2011-02-03 1996-07-31
Retrieve sequences
Analyze Sequence
S288C only
S288C vs. other species
S288C vs. other strains
Resources
External Links All Associated Seq | Entrez Gene | Entrez RefSeq Protein | MIPS | Search all NCBI (Entrez) | UniProtKB
Primary SGDIDS000000971
References cited on this page View Complete Literature Guide for RPH1
1) Jang YK, et al.  (1999) RPH1 and GIS1 are damage-responsive repressors of PHR1. Mol Cell Biol 19(11):7630-8
2) Kim EM, et al.  (2002) Phosphorylation of Rph1, a damage-responsive repressor of PHR1 in Saccharomyces cerevisiae, is dependent upon Rad53 kinase. Nucleic Acids Res 30(3):643-8
3) Byrne KP and Wolfe KH  (2005) The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res 15(10):1456-61
4) Tu S, et al.  (2007) Identification of histone demethylases in Saccharomyces cerevisiae. J Biol Chem 282(19):14262-71
5) Klose RJ, et al.  (2007) Demethylation of histone H3K36 and H3K9 by Rph1: a vestige of an H3K9 methylation system in Saccharomyces cerevisiae? Mol Cell Biol 27(11):3951-61
6) Kwon DW and Ahn SH  (2011) Role of yeast JmjC-domain containing histone demethylases in actively transcribed regions. Biochem Biophys Res Commun 410(3):614-9
7) Schroeder EA, et al.  (2013) Epigenetic silencing mediates mitochondria stress-induced longevity. Cell Metab 17(6):954-64
8) Allis CD, et al.  (2007) New nomenclature for chromatin-modifying enzymes. Cell 131(4):633-6
9) Badis G, et al.  (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol Cell 32(6):878-87
10) Zhu C, et al.  (2009) High-resolution DNA-binding specificity analysis of yeast transcription factors. Genome Res 19(4):556-66