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Q02555

- RNT1_YEAST

UniProt

Q02555 - RNT1_YEAST

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Protein
Ribonuclease 3
Gene
RNT1, YMR239C, YM9408.01C, YM9959.21
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

DsRNA-specific nuclease that cleaves eukaryotic pre-ribosomal RNA at the U3 snoRNP-dependent A0 site in the 5'-external transcribed spacer (ETS) and in the 3'-ETS. In vitro, cleaves synthetic 5'-ETS RNA A0 site in the absence of snoRNA or other factors. Has an essential growth function in addition to pre-rRNA processing.

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.

GO - Molecular functioni

  1. RNA binding Source: UniProtKB-KW
  2. protein binding Source: IntAct
  3. ribonuclease III activity Source: SGD

GO - Biological processi

  1. RNA phosphodiester bond hydrolysis Source: GOC
  2. RNA phosphodiester bond hydrolysis, endonucleolytic Source: GOC
  3. U1 snRNA 3'-end processing Source: SGD
  4. U4 snRNA 3'-end processing Source: SGD
  5. U5 snRNA 3'-end processing Source: SGD
  6. box C/D snoRNA processing Source: SGD
  7. box H/ACA snoRNA processing Source: SGD
  8. chromatin organization Source: SGD
  9. mRNA cleavage Source: SGD
  10. rRNA catabolic process Source: InterPro
  11. rRNA processing Source: SGD
  12. rRNA transcription Source: SGD
  13. regulation of fungal-type cell wall organization Source: SGD
  14. termination of RNA polymerase II transcription, exosome-dependent Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciYEAST:YMR239C-MONOMER.
BRENDAi3.1.26.3. 984.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease 3 (EC:3.1.26.3)
Alternative name(s):
Ribonuclease III
Short name:
RNase III
Gene namesi
Name:RNT1
Ordered Locus Names:YMR239C
ORF Names:YM9408.01C, YM9959.21
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome XIII

Organism-specific databases

CYGDiYMR239c.
SGDiS000004852. RNT1.

Subcellular locationi

GO - Cellular componenti

  1. nucleolus Source: SGD
  2. nucleoplasm Source: SGD
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 471471Ribonuclease 3
PRO_0000180466Add
BLAST

Proteomic databases

MaxQBiQ02555.
PaxDbiQ02555.

Expressioni

Gene expression databases

GenevestigatoriQ02555.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
SEN1Q004162EBI-15673,EBI-16945

Protein-protein interaction databases

BioGridi35418. 50 interactions.
DIPiDIP-4298N.
IntActiQ02555. 8 interactions.
MINTiMINT-567072.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi46 – 6924
Helixi73 – 819
Beta strandi84 – 863
Helixi88 – 958
Helixi97 – 11014
Helixi116 – 12611
Beta strandi136 – 1383
Helixi140 – 14910
Helixi208 – 2136
Helixi218 – 2214
Helixi229 – 2335
Helixi238 – 25922
Helixi265 – 27612
Helixi278 – 28710
Helixi290 – 2934
Turni306 – 3094
Helixi313 – 32917
Helixi331 – 35626
Helixi358 – 3603
Helixi370 – 3789
Helixi381 – 3833
Beta strandi386 – 3916
Beta strandi394 – 3963
Beta strandi400 – 4056
Turni407 – 4093
Beta strandi411 – 4199
Helixi420 – 43314
Helixi435 – 4417
Helixi450 – 4534

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1T4LNMR-B366-453[»]
1T4NNMR-A364-447[»]
1T4OX-ray2.50A/B362-471[»]
2LBSNMR-B366-453[»]
2LUPNMR-B366-453[»]
2LUQNMR-A366-453[»]
4OOGX-ray2.50A/B42-151[»]
C197-457[»]
ProteinModelPortaliQ02555.
SMRiQ02555. Positions 201-453.

Miscellaneous databases

EvolutionaryTraceiQ02555.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini227 – 331105RNase III
Add
BLAST
Domaini369 – 43769DRBM
Add
BLAST

Sequence similaritiesi

Contains 1 RNase III domain.

Phylogenomic databases

eggNOGiCOG0571.
HOGENOMiHOG000000766.
KOiK03685.
OMAiYAALNLH.
OrthoDBiEOG7M0P26.

Family and domain databases

Gene3Di1.10.1520.10. 1 hit.
3.30.160.20. 1 hit.
InterProiIPR014720. dsRNA-bd_dom.
IPR011907. RNase_III.
IPR000999. RNase_III_dom.
[Graphical view]
PANTHERiPTHR11207. PTHR11207. 1 hit.
PfamiPF00035. dsrm. 1 hit.
PF00636. Ribonuclease_3. 1 hit.
[Graphical view]
SMARTiSM00358. DSRM. 1 hit.
SM00535. RIBOc. 1 hit.
[Graphical view]
SUPFAMiSSF69065. SSF69065. 1 hit.
PROSITEiPS50137. DS_RBD. 1 hit.
PS00517. RNASE_3_1. 1 hit.
PS50142. RNASE_3_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q02555-1 [UniParc]FASTAAdd to Basket

« Hide

MGSKVAGKKK TQNDNKLDNE NGSQQRENIN TKTLLKGNLK ISNYKYLEVI    50
QLEHAVTKLV ESYNKIIELS PNLVAYNEAV NNQDRVPVQI LPSLSRYQLK 100
LAAELKTLHD LKKDAILTEI TDYENEFDTE QKQPILQEIS KADMEKLEKL 150
EQVKREKREK IDVNVYENLN EKEDEEEDEG EDSYDPTKAG DIVKATKWPP 200
KLPEIQDLAI RARVFIHKST IKDKVYLSGS EMINAHNERL EFLGDSILNS 250
VMTLIIYNKF PDYSEGQLST LRMNLVSNEQ IKQWSIMYNF HEKLKTNFDL 300
KDENSNFQNG KLKLYADVFE AYIGGLMEDD PRNNLPKIRK WLRKLAKPVI 350
EEATRNQVAL EKTDKLDMNA KRQLYSLIGY ASLRLHYVTV KKPTAVDPNS 400
IVECRVGDGT VLGTGVGRNI KIAGIRAAEN ALRDKKMLDF YAKQRAAIPR 450
SESVLKDPSQ KNKKRKFSDT S 471
Length:471
Mass (Da):54,071
Last modified:November 1, 1997 - v1
Checksum:i570294172E66A0DE
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U27016 Genomic DNA. Translation: AAB04172.1.
Z48756 Genomic DNA. Translation: CAA88649.1.
Z49939 Genomic DNA. Translation: CAA90210.1.
BK006946 Genomic DNA. Translation: DAA10139.1.
PIRiS56053.
RefSeqiNP_013966.1. NM_001182746.1.

Genome annotation databases

EnsemblFungiiYMR239C; YMR239C; YMR239C.
GeneIDi855280.
KEGGisce:YMR239C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U27016 Genomic DNA. Translation: AAB04172.1 .
Z48756 Genomic DNA. Translation: CAA88649.1 .
Z49939 Genomic DNA. Translation: CAA90210.1 .
BK006946 Genomic DNA. Translation: DAA10139.1 .
PIRi S56053.
RefSeqi NP_013966.1. NM_001182746.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1T4L NMR - B 366-453 [» ]
1T4N NMR - A 364-447 [» ]
1T4O X-ray 2.50 A/B 362-471 [» ]
2LBS NMR - B 366-453 [» ]
2LUP NMR - B 366-453 [» ]
2LUQ NMR - A 366-453 [» ]
4OOG X-ray 2.50 A/B 42-151 [» ]
C 197-457 [» ]
ProteinModelPortali Q02555.
SMRi Q02555. Positions 201-453.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 35418. 50 interactions.
DIPi DIP-4298N.
IntActi Q02555. 8 interactions.
MINTi MINT-567072.

Proteomic databases

MaxQBi Q02555.
PaxDbi Q02555.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YMR239C ; YMR239C ; YMR239C .
GeneIDi 855280.
KEGGi sce:YMR239C.

Organism-specific databases

CYGDi YMR239c.
SGDi S000004852. RNT1.

Phylogenomic databases

eggNOGi COG0571.
HOGENOMi HOG000000766.
KOi K03685.
OMAi YAALNLH.
OrthoDBi EOG7M0P26.

Enzyme and pathway databases

BioCyci YEAST:YMR239C-MONOMER.
BRENDAi 3.1.26.3. 984.

Miscellaneous databases

EvolutionaryTracei Q02555.
NextBioi 978911.
PROi Q02555.

Gene expression databases

Genevestigatori Q02555.

Family and domain databases

Gene3Di 1.10.1520.10. 1 hit.
3.30.160.20. 1 hit.
InterProi IPR014720. dsRNA-bd_dom.
IPR011907. RNase_III.
IPR000999. RNase_III_dom.
[Graphical view ]
PANTHERi PTHR11207. PTHR11207. 1 hit.
Pfami PF00035. dsrm. 1 hit.
PF00636. Ribonuclease_3. 1 hit.
[Graphical view ]
SMARTi SM00358. DSRM. 1 hit.
SM00535. RIBOc. 1 hit.
[Graphical view ]
SUPFAMi SSF69065. SSF69065. 1 hit.
PROSITEi PS50137. DS_RBD. 1 hit.
PS00517. RNASE_3_1. 1 hit.
PS50142. RNASE_3_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "RNase III cleaves eukaryotic preribosomal RNA at a U3 snoRNP-dependent site."
    Elela S.A., Igel H., Ares M. Jr.
    Cell 85:115-124(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  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: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiRNT1_YEAST
AccessioniPrimary (citable) accession number: Q02555
Secondary accession number(s): D6W065, Q04008, Q05038
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: July 9, 2014
This is version 120 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 4970 molecules/cell in log phase SD medium.

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

External Data

Dasty 3

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