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Protein

RNA polymerase I-specific transcription initiation factor RRN3

Gene

RRN3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Required for efficient transcription initiation by RNA polymerase I. Interacts with Pol I in the absence of template DNA and stimulates recruitment of Pol I, but does not remain as part of stable preinitiation complex.

GO - Molecular functioni

  • rDNA binding Source: SGD
  • RNA polymerase I core binding Source: SGD
  • RNA polymerase I transcription factor binding Source: SGD
  • transcription factor activity, core RNA polymerase I binding Source: SGD
  • transcription factor activity, RNA polymerase I transcription factor binding Source: SGD

GO - Biological processi

  • transcription initiation from RNA polymerase I promoter for nuclear large rRNA transcript Source: SGD
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciYEAST:G3O-31907-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase I-specific transcription initiation factor RRN3
Gene namesi
Name:RRN3
Ordered Locus Names:YKL125W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XI

Organism-specific databases

EuPathDBiFungiDB:YKL125W.
SGDiS000001608. RRN3.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 627627RNA polymerase I-specific transcription initiation factor RRN3PRO_0000211430Add
BLAST

Proteomic databases

MaxQBiP36070.
PRIDEiP36070.

Interactioni

Subunit structurei

Monomer (Probable). Interacts with NOP53.Curated1 Publication

GO - Molecular functioni

  • RNA polymerase I core binding Source: SGD
  • RNA polymerase I transcription factor binding Source: SGD

Protein-protein interaction databases

BioGridi34011. 19 interactions.
DIPiDIP-6657N.
IntActiP36070. 7 interactions.
MINTiMINT-624762.

Structurei

Secondary structure

1
627
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi49 – 6416Combined sources
Helixi69 – 7911Combined sources
Helixi90 – 10213Combined sources
Helixi103 – 1075Combined sources
Helixi110 – 1123Combined sources
Helixi113 – 1208Combined sources
Helixi125 – 1273Combined sources
Helixi130 – 14617Combined sources
Helixi148 – 1503Combined sources
Helixi151 – 16010Combined sources
Helixi161 – 1633Combined sources
Helixi166 – 18217Combined sources
Helixi184 – 1863Combined sources
Helixi187 – 19610Combined sources
Helixi205 – 22117Combined sources
Helixi223 – 2253Combined sources
Helixi226 – 25126Combined sources
Helixi323 – 3253Combined sources
Helixi326 – 34621Combined sources
Helixi349 – 3535Combined sources
Helixi357 – 37014Combined sources
Turni371 – 3744Combined sources
Helixi383 – 3897Combined sources
Helixi393 – 40816Combined sources
Beta strandi410 – 4123Combined sources
Helixi414 – 43017Combined sources
Helixi436 – 45722Combined sources
Helixi458 – 4603Combined sources
Beta strandi463 – 4653Combined sources
Helixi467 – 4704Combined sources
Helixi471 – 48717Combined sources
Helixi488 – 4914Combined sources
Helixi499 – 5013Combined sources
Helixi502 – 51110Combined sources
Helixi516 – 5194Combined sources
Helixi522 – 53413Combined sources
Helixi541 – 55313Combined sources
Helixi579 – 59012Combined sources
Helixi600 – 6067Combined sources
Helixi607 – 6093Combined sources
Helixi613 – 6164Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3TJ1X-ray2.85A/B1-627[»]
ProteinModelPortaliP36070.
SMRiP36070. Positions 46-252, 322-617.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi252 – 2598Poly-Asp
Compositional biasi267 – 2748Poly-Asp
Compositional biasi277 – 2804Poly-Asp
Compositional biasi546 – 5494Poly-Asn

Sequence similaritiesi

Belongs to the RRN3 family.Curated

Phylogenomic databases

GeneTreeiENSGT00390000001488.
HOGENOMiHOG000093739.
InParanoidiP36070.
KOiK15216.
OMAiCYIFCFR.
OrthoDBiEOG7B5X4M.

Family and domain databases

InterProiIPR007991. RNA_pol_I_trans_ini_fac_RRN3.
[Graphical view]
PANTHERiPTHR12790. PTHR12790. 1 hit.
PfamiPF05327. RRN3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P36070-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMAFENTSKR PPQDFVAPID QKKRKVQFSD STGLVTLQPE EIKDEVFSAA
60 70 80 90 100
MYSRFVKSAL DDLDKNDSTQ IGIIANQVAL PSKNPERIND KNLNILLDIL
110 120 130 140 150
SSNINRIESS RGTFLIQSII NFEKWWELPP HTLSKYIYFI KILCSSIPKW
160 170 180 190 200
WQDVSMILVS CFILPIKQTV CHHDMLKYFL RMIPSSMGFI DTYLAKFFPN
210 220 230 240 250
KNDTRRKLVN YTSNLLKLRG YCSELGFQIW SLLIEKIISI DVELQNELDE
260 270 280 290 300
LDDDVDDDDL EEVDLEDDDD LDDDSGDDDD ENCGNSNEEL RSGAADGSQS
310 320 330 340 350
DSEDMDIIEG MDGTEEYNVE LTQGIKELST KLDSILTLVS THVEEQVTPE
360 370 380 390 400
SLESGEGVGV FNTLTTLFKT HVLPTYYTRS IQYIMFHVSQ QQLELMDSFL
410 420 430 440 450
VTLIDISFAV NEAAEKKIKS LQYLGSYIAR AKKLSRTQII FVASYLTSWL
460 470 480 490 500
NRYVIEREEE VDQRGGMERF KHFYAAFQAL CYIFCFRHNI FRDTDGNWEC
510 520 530 540 550
ELDKFFQRMV ISKFNPLKFC NENVMLMFAR IAQQESVAYC FSIIENNNNE
560 570 580 590 600
RLRGIIGKAD SDKKENSAQA NTTSSSWSLA TRQQFIDLQS YFPYDPLFLK
610 620
NYKILMKEYY IEWSEASGEY ESDGSDD
Length:627
Mass (Da):72,388
Last modified:June 1, 1994 - v1
Checksum:iA31E7386A9873FDB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71927 Genomic DNA. Translation: CAA96470.1.
Z28125 Genomic DNA. Translation: CAA81966.1.
BK006944 Genomic DNA. Translation: DAA09036.1.
PIRiS37954.
RefSeqiNP_012797.1. NM_001179691.1.

Genome annotation databases

EnsemblFungiiYKL125W; YKL125W; YKL125W.
GeneIDi853734.
KEGGisce:YKL125W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71927 Genomic DNA. Translation: CAA96470.1.
Z28125 Genomic DNA. Translation: CAA81966.1.
BK006944 Genomic DNA. Translation: DAA09036.1.
PIRiS37954.
RefSeqiNP_012797.1. NM_001179691.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3TJ1X-ray2.85A/B1-627[»]
ProteinModelPortaliP36070.
SMRiP36070. Positions 46-252, 322-617.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34011. 19 interactions.
DIPiDIP-6657N.
IntActiP36070. 7 interactions.
MINTiMINT-624762.

Proteomic databases

MaxQBiP36070.
PRIDEiP36070.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYKL125W; YKL125W; YKL125W.
GeneIDi853734.
KEGGisce:YKL125W.

Organism-specific databases

EuPathDBiFungiDB:YKL125W.
SGDiS000001608. RRN3.

Phylogenomic databases

GeneTreeiENSGT00390000001488.
HOGENOMiHOG000093739.
InParanoidiP36070.
KOiK15216.
OMAiCYIFCFR.
OrthoDBiEOG7B5X4M.

Enzyme and pathway databases

BioCyciYEAST:G3O-31907-MONOMER.

Miscellaneous databases

PROiP36070.

Family and domain databases

InterProiIPR007991. RNA_pol_I_trans_ini_fac_RRN3.
[Graphical view]
PANTHERiPTHR12790. PTHR12790. 1 hit.
PfamiPF05327. RRN3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "RRN3 gene of Saccharomyces cerevisiae encodes an essential RNA polymerase I transcription factor which interacts with the polymerase independently of DNA template."
    Yamamoto R.T., Nogi Y., Dodd J.A., Nomura M.
    EMBO J. 15:3964-3973(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
  2. "Complete DNA sequence of yeast chromosome XI."
    Dujon B., Alexandraki D., Andre B., Ansorge W., Baladron V., Ballesta J.P.G., Banrevi A., Bolle P.-A., Bolotin-Fukuhara M., Bossier P., Bou G., Boyer J., Buitrago M.J., Cheret G., Colleaux L., Daignan-Fornier B., del Rey F., Dion C.
    , Domdey H., Duesterhoeft A., Duesterhus S., Entian K.-D., Erfle H., Esteban P.F., Feldmann H., Fernandes L., Fobo G.M., Fritz C., Fukuhara H., Gabel C., Gaillon L., Garcia-Cantalejo J.M., Garcia-Ramirez J.J., Gent M.E., Ghazvini M., Goffeau A., Gonzalez A., Grothues D., Guerreiro P., Hegemann J.H., Hewitt N., Hilger F., Hollenberg C.P., Horaitis O., Indge K.J., Jacquier A., James C.M., Jauniaux J.-C., Jimenez A., Keuchel H., Kirchrath L., Kleine K., Koetter P., Legrain P., Liebl S., Louis E.J., Maia e Silva A., Marck C., Monnier A.-L., Moestl D., Mueller S., Obermaier B., Oliver S.G., Pallier C., Pascolo S., Pfeiffer F., Philippsen P., Planta R.J., Pohl F.M., Pohl T.M., Poehlmann R., Portetelle D., Purnelle B., Puzos V., Ramezani Rad M., Rasmussen S.W., Remacha M.A., Revuelta J.L., Richard G.-F., Rieger M., Rodrigues-Pousada C., Rose M., Rupp T., Santos M.A., Schwager C., Sensen C., Skala J., Soares H., Sor F., Stegemann J., Tettelin H., Thierry A., Tzermia M., Urrestarazu L.A., van Dyck L., van Vliet-Reedijk J.C., Valens M., Vandenbol M., Vilela C., Vissers S., von Wettstein D., Voss H., Wiemann S., Xu G., Zimmermann J., Haasemann M., Becker I., Mewes H.-W.
    Nature 369:371-378(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  5. "Nop53p interacts with 5.8S rRNA co-transcriptionally, and regulates processing of pre-rRNA by the exosome."
    Granato D.C., Machado-Santelli G.M., Oliveira C.C.
    FEBS J. 275:4164-4178(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH NOP53.

Entry informationi

Entry nameiRRN3_YEAST
AccessioniPrimary (citable) accession number: P36070
Secondary accession number(s): D6VX70
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: July 6, 2016
This is version 130 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 138 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XI
    Yeast (Saccharomyces cerevisiae) chromosome XI: entries and gene names

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 one 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.