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Protein

pH-response transcription factor pacC/RIM101

Gene

RIM101

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

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.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri146 – 17126C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri182 – 20625C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri212 – 23423C2H2-type 3PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. metal ion binding Source: UniProtKB-KW
  3. RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription Source: SGD

GO - Biological processi

  1. ascospore formation Source: SGD
  2. barrier septum assembly Source: SGD
  3. cellular response to alkaline pH Source: SGD
  4. cellular response to anoxia Source: SGD
  5. fungal-type cell wall biogenesis Source: SGD
  6. meiotic nuclear division Source: SGD
  7. negative regulation of transcription from RNA polymerase II promoter Source: SGD
  8. positive regulation of transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Activator, Repressor

Keywords - Biological processi

Meiosis, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-31047-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
pH-response transcription factor pacC/RIM101
Alternative name(s):
Regulator of IME2 protein 1
pH-response regulator protein RIM101
Gene namesi
Name:RIM101
Synonyms:RIM1
Ordered Locus Names:YHL027W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome VIII

Organism-specific databases

CYGDiYHL027w.
EuPathDBiFungiDB:YHL027W.
SGDiS000001019. RIM101.

Subcellular locationi

  1. Cytoplasm 1 Publication
  2. Nucleus 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi153 – 1531C → S: Abolishes transcriptional activation of target genes. 1 Publication
Mutagenesisi189 – 1891C → S: Abolishes transcriptional activation of target genes. 1 Publication
Mutagenesisi217 – 2171C → S: Abolishes transcriptional activation of target genes. 1 Publication
Mutagenesisi255 – 2551S → A: Reduces transcriptional activation of target genes. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 625625pH-response transcription factor pacC/RIM101PRO_0000046847Add
BLAST

Post-translational modificationi

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.1 Publication

Proteomic databases

MaxQBiP33400.
PaxDbiP33400.

Expressioni

Gene expression databases

GenevestigatoriP33400.

Interactioni

Subunit structurei

Binds to DNA. Interacts with RIM20, which probably binds to the two YPX[LI] motifs and is required for proteolytic processing.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
LSB3P436032EBI-14422,EBI-22980
RIM20Q120333EBI-14422,EBI-38947
YSC84P327932EBI-14422,EBI-24460

Protein-protein interaction databases

BioGridi36395. 368 interactions.
DIPiDIP-1564N.
IntActiP33400. 9 interactions.
MINTiMINT-386832.
STRINGi4932.YHL027W.

Structurei

3D structure databases

ProteinModelPortaliP33400.
SMRiP33400. Positions 148-235.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi228 – 2347Nuclear localization signalBy similarity
Motifi450 – 4534YPX[LI] motif 1
Motifi620 – 6234YPX[LI] motif 2

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi76 – 12045Ser-richAdd
BLAST
Compositional biasi131 – 14010Poly-Asp
Compositional biasi579 – 60123Asp/Glu-rich (acidic)Add
BLAST

Sequence similaritiesi

Belongs to the pacC/RIM101 family.Curated
Contains 3 C2H2-type zinc fingers.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri146 – 17126C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri182 – 20625C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri212 – 23423C2H2-type 3PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiNOG245897.
InParanoidiP33400.
OrthoDBiEOG75F4P2.

Family and domain databases

Gene3Di3.30.160.60. 1 hit.
InterProiIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00096. zf-C2H2. 1 hit.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 3 hits.
[Graphical view]
PROSITEiPS00028. ZINC_FINGER_C2H2_1. 2 hits.
PS50157. ZINC_FINGER_C2H2_2. 3 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P33400-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVPLEDLLNK ENGTAAPQHS RESIVENGTD VSNVTKKDGL PSPNLSKRSS
60 70 80 90 100
DCSKRPRIRC TTEAIGLNGQ EDERMSPGST SSSCLPYHST SHLNTPPYDL
110 120 130 140 150
LGASAVSPTT SSSSDSSSSS PLAQAHNPAG DDDDADNDGD SEDITLYCKW
160 170 180 190 200
DNCGMIFNQP ELLYNHLCHD HVGRKSHKNL QLNCHWGDCT TKTEKRDHIT
210 220 230 240 250
SHLRVHVPLK PFGCSTCSKK FKRPQDLKKH LKIHLESGGI LKRKRGPKWG
260 270 280 290 300
SKRTSKKNKS CASDAVSSCS ASVPSAIAGS FKSHSTSPQI LPPLPVGISQ
310 320 330 340 350
HLPSQQQQRA ISLNQLCSDE LSQYKPVYSP QLSARLQTIL PPLYYNNGST
360 370 380 390 400
VSQGANSRSM NVYEDGCSNK TIANATQFFT KLSRNMTNNY ILQQSGGSTE
410 420 430 440 450
SSSSSGRIPV AQTSYVQPPN APSYQSVQGG SSISATANTA TYVPVRLAKY
460 470 480 490 500
PTGPSLTEHL PPLHSNTAGG VFNRQSQYAM PHYPSVRAAP SYSSSGCSIL
510 520 530 540 550
PPLQSKIPML PSRRTMAGGT SLKPNWEFSL NQKSCTNDII MSKLAIEEVD
560 570 580 590 600
DESEIEDDFV EMLGIVNIIK DYLLCCVMED LDDEESEDKD EENAFLQESL
610 620
EKLSLQNQMG TNSVRILTKY PKILV
Length:625
Mass (Da):68,232
Last modified:February 1, 1995 - v2
Checksum:iAD71E7B2D679E17E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti68 – 681N → K in CAA51462 (PubMed:8367297).Curated
Sequence conflicti90 – 901T → S in CAA51462 (PubMed:8367297).Curated
Sequence conflicti111 – 1111S → P in CAA51462 (PubMed:8367297).Curated
Sequence conflicti249 – 2491W → L in CAA51462 (PubMed:8367297).Curated
Sequence conflicti261 – 2611C → S in CAA51462 (PubMed:8367297).Curated
Sequence conflicti276 – 2761A → G in CAA51462 (PubMed:8367297).Curated
Sequence conflicti308 – 3081Q → QQQQ (PubMed:8367297).Curated
Sequence conflicti358 – 3581R → Q in CAA51462 (PubMed:8367297).Curated
Sequence conflicti486 – 4861V → I in CAA51462 (PubMed:8367297).Curated
Sequence conflicti519 – 5191G → E in CAA51462 (PubMed:8367297).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X72960 Genomic DNA. Translation: CAA51462.1.
U11583 Genomic DNA. Translation: AAB65039.1.
AY693138 Genomic DNA. Translation: AAT93157.1.
BK006934 Genomic DNA. Translation: DAA06658.1.
PIRiS48941.
RefSeqiNP_011836.1. NM_001179107.1.

Genome annotation databases

EnsemblFungiiYHL027W; YHL027W; YHL027W.
GeneIDi856358.
KEGGisce:YHL027W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X72960 Genomic DNA. Translation: CAA51462.1.
U11583 Genomic DNA. Translation: AAB65039.1.
AY693138 Genomic DNA. Translation: AAT93157.1.
BK006934 Genomic DNA. Translation: DAA06658.1.
PIRiS48941.
RefSeqiNP_011836.1. NM_001179107.1.

3D structure databases

ProteinModelPortaliP33400.
SMRiP33400. Positions 148-235.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36395. 368 interactions.
DIPiDIP-1564N.
IntActiP33400. 9 interactions.
MINTiMINT-386832.
STRINGi4932.YHL027W.

Proteomic databases

MaxQBiP33400.
PaxDbiP33400.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYHL027W; YHL027W; YHL027W.
GeneIDi856358.
KEGGisce:YHL027W.

Organism-specific databases

CYGDiYHL027w.
EuPathDBiFungiDB:YHL027W.
SGDiS000001019. RIM101.

Phylogenomic databases

eggNOGiNOG245897.
InParanoidiP33400.
OrthoDBiEOG75F4P2.

Enzyme and pathway databases

BioCyciYEAST:G3O-31047-MONOMER.

Miscellaneous databases

NextBioi981811.
PROiP33400.

Gene expression databases

GenevestigatoriP33400.

Family and domain databases

Gene3Di3.30.160.60. 1 hit.
InterProiIPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00096. zf-C2H2. 1 hit.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 3 hits.
[Graphical view]
PROSITEiPS00028. ZINC_FINGER_C2H2_1. 2 hits.
PS50157. ZINC_FINGER_C2H2_2. 3 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. 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. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  10. 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].

Entry informationi

Entry nameiPACC_YEAST
AccessioniPrimary (citable) accession number: P33400
Secondary accession number(s): D3DKU1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1995
Last modified: April 29, 2015
This is version 140 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 1822 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 VIII
    Yeast (Saccharomyces cerevisiae) chromosome VIII: 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.