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P33400 (PACC_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 135. 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·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
pH-response transcription factor pacC/RIM101
Alternative name(s):
Regulator of IME2 protein 1
pH-response regulator protein RIM101
Gene names
Name:RIM101
Synonyms:RIM1
Ordered Locus Names:YHL027W
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length625 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Transcription factor that mediates regulation of both acid- and alkaline-expressed genes in response to ambient pH. At alkaline ambient pH, activates transcription of alkaline-expressed genes (including RIM101 itself), mainly by repressing transcriptional repressors of those genes, and represses transcription of acid-expressed genes. Required for meiosis, sporulation and invasive growth. Ref.6 Ref.8

Subunit structure

Binds to DNA. Interacts with RIM20, which probably binds to the two YPX[LI] motifs and is required for proteolytic processing. Ref.7

Subcellular location

Cytoplasm. Nucleus Ref.9.

Post-translational modification

Activated by C-terminal proteolytic cleavage. At neutral to alkaline ambient pH, the signaling protease (probably RIM13) cleaves RIM101, removing a C-terminal 8 kDa peptide to yield the active form.

Miscellaneous

Present with 1822 molecules/cell in log phase SD medium.

Sequence similarities

Belongs to the pacC/RIM101 family.

Contains 3 C2H2-type zinc fingers.

Ontologies

Keywords
   Biological processMeiosis
Transcription
Transcription regulation
   Cellular componentCytoplasm
Nucleus
   DomainRepeat
Zinc-finger
   LigandDNA-binding
Metal-binding
Zinc
   Molecular functionActivator
Repressor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processascospore formation

Inferred from mutant phenotype PubMed 8417990. Source: SGD

barrier septum assembly

Inferred from genetic interaction PubMed 19633265. Source: SGD

cellular response to alkalinity

Inferred from mutant phenotype Ref.6. Source: SGD

cellular response to anoxia

Inferred from mutant phenotype PubMed 20402793. Source: SGD

fungal-type cell wall biogenesis

Inferred from mutant phenotype PubMed 16524906. Source: SGD

meiotic nuclear division

Inferred from mutant phenotype Ref.1. Source: SGD

negative regulation of transcription from RNA polymerase II promoter

Inferred from direct assay Ref.8. Source: SGD

positive regulation of transcription from RNA polymerase II promoter

Inferred from mutant phenotype PubMed 8417990. Source: SGD

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

nucleus

Inferred from direct assay PubMed 20382759. Source: SGD

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription

Inferred from direct assay PubMed 16024810. Source: SGD

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

protein binding

Inferred from physical interaction Ref.7PubMed 14737190PubMed 19841731. Source: IntAct

Complete GO annotation...

Binary interactions

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 625625pH-response transcription factor pacC/RIM101
PRO_0000046847

Regions

Zinc finger146 – 17126C2H2-type 1
Zinc finger182 – 20625C2H2-type 2
Zinc finger212 – 23423C2H2-type 3
Motif228 – 2347Nuclear localization signal By similarity
Motif450 – 4534YPX[LI] motif 1
Motif620 – 6234YPX[LI] motif 2
Compositional bias76 – 12045Ser-rich
Compositional bias131 – 14010Poly-Asp
Compositional bias579 – 60123Asp/Glu-rich (acidic)

Experimental info

Mutagenesis1531C → S: Abolishes transcriptional activation of target genes. Ref.1
Mutagenesis1891C → S: Abolishes transcriptional activation of target genes. Ref.1
Mutagenesis2171C → S: Abolishes transcriptional activation of target genes. Ref.1
Mutagenesis2551S → A: Reduces transcriptional activation of target genes. Ref.1
Sequence conflict681N → K in CAA51462. Ref.1
Sequence conflict901T → S in CAA51462. Ref.1
Sequence conflict1111S → P in CAA51462. Ref.1
Sequence conflict2491W → L in CAA51462. Ref.1
Sequence conflict2611C → S in CAA51462. Ref.1
Sequence conflict2761A → G in CAA51462. Ref.1
Sequence conflict3081Q → QQQQ Ref.1
Sequence conflict3581R → Q in CAA51462. Ref.1
Sequence conflict4861V → I in CAA51462. Ref.1
Sequence conflict5191G → E in CAA51462. Ref.1

Sequences

Sequence LengthMass (Da)Tools
P33400 [UniParc].

Last modified February 1, 1995. Version 2.
Checksum: AD71E7B2D679E17E

FASTA62568,232
        10         20         30         40         50         60 
MVPLEDLLNK ENGTAAPQHS RESIVENGTD VSNVTKKDGL PSPNLSKRSS DCSKRPRIRC 

        70         80         90        100        110        120 
TTEAIGLNGQ EDERMSPGST SSSCLPYHST SHLNTPPYDL LGASAVSPTT SSSSDSSSSS 

       130        140        150        160        170        180 
PLAQAHNPAG DDDDADNDGD SEDITLYCKW DNCGMIFNQP ELLYNHLCHD HVGRKSHKNL 

       190        200        210        220        230        240 
QLNCHWGDCT TKTEKRDHIT SHLRVHVPLK PFGCSTCSKK FKRPQDLKKH LKIHLESGGI 

       250        260        270        280        290        300 
LKRKRGPKWG SKRTSKKNKS CASDAVSSCS ASVPSAIAGS FKSHSTSPQI LPPLPVGISQ 

       310        320        330        340        350        360 
HLPSQQQQRA ISLNQLCSDE LSQYKPVYSP QLSARLQTIL PPLYYNNGST VSQGANSRSM 

       370        380        390        400        410        420 
NVYEDGCSNK TIANATQFFT KLSRNMTNNY ILQQSGGSTE SSSSSGRIPV AQTSYVQPPN 

       430        440        450        460        470        480 
APSYQSVQGG SSISATANTA TYVPVRLAKY PTGPSLTEHL PPLHSNTAGG VFNRQSQYAM 

       490        500        510        520        530        540 
PHYPSVRAAP SYSSSGCSIL PPLQSKIPML PSRRTMAGGT SLKPNWEFSL NQKSCTNDII 

       550        560        570        580        590        600 
MSKLAIEEVD DESEIEDDFV EMLGIVNIIK DYLLCCVMED LDDEESEDKD EENAFLQESL 

       610        620 
EKLSLQNQMG TNSVRILTKY PKILV 

« Hide

References

« Hide 'large scale' references
[1]"Molecular characterization of the yeast meiotic regulatory gene RIM1."
Su S.S.Y., Mitchell A.P.
Nucleic Acids Res. 21:3789-3797(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], MUTAGENESIS OF CYS-153; CYS-189; CYS-217 AND SER-255.
Strain: SK1.
[2]"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII."
Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Dover J., Du Z., Favello A., Fulton L., Gattung S., Geisel C., Kirsten J., Kucaba T., Hillier L.W., Jier M., Johnston L., Langston Y., Latreille P. expand/collapse author list , Louis E.J., Macri C., Mardis E., Menezes S., Mouser L., Nhan M., Rifkin L., Riles L., St Peter H., Trevaskis E., Vaughan K., Vignati D., Wilcox L., Wohldman P., Waterston R., Wilson R., Vaudin M.
Science 265:2077-2082(1994) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[3]"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.
[4]"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae."
Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. expand/collapse author list , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J.
Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[5]"Proteolytic activation of Rim1p, a positive regulator of yeast sporulation and invasive growth."
Li W., Mitchell A.P.
Genetics 145:63-73(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEOLYTIC PROCESSING.
[6]"Alkaline response genes of Saccharomyces cerevisiae and their relationship to the RIM101 pathway."
Lamb T.M., Xu W., Diamond A., Mitchell A.P.
J. Biol. Chem. 276:1850-1856(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
[7]"Yeast PalA/AIP1/Alix homolog Rim20p associates with a PEST-like region and is required for its proteolytic cleavage."
Xu W., Mitchell A.P.
J. Bacteriol. 183:6917-6923(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH RIM20.
[8]"The transcription factor Rim101p governs ion tolerance and cell differentiation by direct repression of the regulatory genes NRG1 and SMP1 in Saccharomyces cerevisiae."
Lamb T.M., Mitchell A.P.
Mol. Cell. Biol. 23:677-686(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION IN TRANSCRIPTIONAL REPRESSION, DNA-BINDING.
[9]"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].
[10]"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].
[11]"Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X72960 Genomic DNA. Translation: CAA51462.1.
U11583 Genomic DNA. Translation: AAB65039.1.
AY693138 Genomic DNA. Translation: AAT93157.1.
BK006934 Genomic DNA. Translation: DAA06658.1.
PIRS48941.
RefSeqNP_011836.1. NM_001179107.1.

3D structure databases

ProteinModelPortalP33400.
SMRP33400. Positions 148-270.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid36395. 364 interactions.
DIPDIP-1564N.
IntActP33400. 9 interactions.
MINTMINT-386832.
STRING4932.YHL027W.

Proteomic databases

MaxQBP33400.
PaxDbP33400.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYHL027W; YHL027W; YHL027W.
GeneID856358.
KEGGsce:YHL027W.

Organism-specific databases

CYGDYHL027w.
SGDS000001019. RIM101.

Phylogenomic databases

eggNOGNOG245897.
OMATIANATQ.
OrthoDBEOG75F4P2.

Enzyme and pathway databases

BioCycYEAST:G3O-31047-MONOMER.

Gene expression databases

GenevestigatorP33400.

Family and domain databases

Gene3D3.30.160.60. 1 hit.
InterProIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamPF00096. zf-C2H2. 1 hit.
[Graphical view]
SMARTSM00355. ZnF_C2H2. 3 hits.
[Graphical view]
PROSITEPS00028. ZINC_FINGER_C2H2_1. 2 hits.
PS50157. ZINC_FINGER_C2H2_2. 3 hits.
[Graphical view]
ProtoNetSearch...

Other

NextBio981811.

Entry information

Entry namePACC_YEAST
AccessionPrimary (citable) accession number: P33400
Secondary accession number(s): D3DKU1
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1995
Last modified: June 11, 2014
This is version 135 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome VIII

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

Yeast

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

SIMILARITY comments

Index of protein domains and families