Ribonuclease 3 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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Q02555 (RNT1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 97. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Ribonuclease 3
EC=3.1.26.3

Alternative name(s):
Ribonuclease III
Short name=RNase III

Gene names

Name:	RNT1
Ordered Locus Names:	YMR239C
ORF Names:	YM9408.01C, YM9959.21

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	471 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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 activity	Endonucleolytic cleavage to 5'-phosphomonoester.
Miscellaneous	Present with 4970 molecules/cell in log phase SD medium. Ref.4
Sequence similarities	Contains 1 DRBM (double-stranded RNA-binding) domain. Contains 1 RNase III domain.

Ontologies

Keywords
Ligand	RNA-binding
Molecular function	Endonuclease Hydrolase Nuclease
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	U1 snRNA 3'-end processing Inferred from mutant phenotype. Source: SGD U4 snRNA 3'-end processing Inferred from mutant phenotype. Source: SGD U5 snRNA 3'-end processing Inferred from mutant phenotype. Source: SGD chromatin organization Inferred from mutant phenotype. Source: SGD mRNA cleavage Inferred from direct assay. Source: SGD rRNA catabolic process Inferred from electronic annotation. Source: InterPro rRNA processing Inferred from mutant phenotype. Source: SGD rRNA transcription Inferred from mutant phenotype. Source: SGD termination of RNA polymerase II transcription, exosome-dependent Inferred from mutant phenotype. Source: SGD
Cellular component	nucleolus Inferred from direct assay. Source: SGD nucleoplasm Inferred from direct assay. Source: SGD
Molecular function	double-stranded RNA binding Inferred from electronic annotation. Source: InterPro ribonuclease III activity Inferred from direct assay. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
SEN1	Q00416	2	EBI-15673,EBI-16945

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 471

471

Ribonuclease 3

PRO_0000180466

Regions

Domain

227 – 331

105

RNase III

Domain

369 – 437

DRBM

Secondary structure

471

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

Q02555 [UniParc].

Last modified November 1, 1997. Version 1.
Checksum: 570294172E66A0DE
Show »

FASTA

471

54,071

        10         20         30         40         50         60 
MGSKVAGKKK TQNDNKLDNE NGSQQRENIN TKTLLKGNLK ISNYKYLEVI QLEHAVTKLV 

        70         80         90        100        110        120 
ESYNKIIELS PNLVAYNEAV NNQDRVPVQI LPSLSRYQLK LAAELKTLHD LKKDAILTEI 

       130        140        150        160        170        180 
TDYENEFDTE QKQPILQEIS KADMEKLEKL EQVKREKREK IDVNVYENLN EKEDEEEDEG 

       190        200        210        220        230        240 
EDSYDPTKAG DIVKATKWPP KLPEIQDLAI RARVFIHKST IKDKVYLSGS EMINAHNERL 

       250        260        270        280        290        300 
EFLGDSILNS VMTLIIYNKF PDYSEGQLST LRMNLVSNEQ IKQWSIMYNF HEKLKTNFDL 

       310        320        330        340        350        360 
KDENSNFQNG KLKLYADVFE AYIGGLMEDD PRNNLPKIRK WLRKLAKPVI EEATRNQVAL 

       370        380        390        400        410        420 
EKTDKLDMNA KRQLYSLIGY ASLRLHYVTV KKPTAVDPNS IVECRVGDGT VLGTGVGRNI 

       430        440        450        460        470 
KIAGIRAAEN ALRDKKMLDF YAKQRAAIPR SESVLKDPSQ KNKKRKFSDT S

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 8620530] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII." Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T., Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K., Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P. Barrell B.G. Nature 387:90-93(1997) [PubMed: 9169872] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"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: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U27016 Genomic DNA. Translation: AAB04172.1.
Z48756 Genomic DNA. Translation: CAA88649.1.
Z49939 Genomic DNA. Translation: CAA90210.1.
BK006946 Genomic DNA. Translation: DAA10139.1.

PIR

S56053.

RefSeq

NP_013966.1. NM_001182746.1.

3D structure databases

PDBe
RCSB PDB
PDBj

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	[»]

ProteinModelPortal

Q02555.

SMR

Q02555. Positions 94-453.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-4298N.

IntAct

Q02555. 8 interactions.

MINT

MINT-567072.

STRING

Q02555.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YMR239C; YMR239C; YMR239C.

GeneID

855280.

KEGG

sce:YMR239C.

NMPDR

fig|4932.3.peg.5020.

Organism-specific databases

CYGD

YMR239c.

SGD

S000004852. RNT1.

Phylogenomic databases

eggNOG

fuNOG05633.

GeneTree

EFGT00050000006311.

HOGENOM

HBG203499.

OMA

VIRARVF.

OrthoDB

EOG4JT3FD.

Enzyme and pathway databases

BRENDA

3.1.26.3. 984.

Gene expression databases

ArrayExpress

Q02555.

Genevestigator

Q02555.

GermOnline

YMR239C. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR001159. Ds-RNA-bd.
IPR014720. dsRNA-bd-like.
IPR000999. RNase_III.
IPR011907. RNase_III_bac.
[Graphical view]

Gene3D

G3DSA:3.30.160.20. dsRNA-bd-like. 1 hit.
G3DSA:1.10.1520.10. RNase_III. 1 hit.

K03685.

PANTHER

PTHR11207. PTHR11207. 1 hit.

Pfam

PF00035. dsrm. 1 hit.
PF00636. Ribonuclease_3. 1 hit.
[Graphical view]

SMART

SM00358. DSRM. 1 hit.
SM00535. RIBOc. 1 hit.
[Graphical view]

SUPFAM

SSF69065. RNase_III. 1 hit.

PROSITE

PS50137. DS_RBD. 1 hit.
PS00517. RNASE_3_1. 1 hit.
PS50142. RNASE_3_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

978911.

Entry information

Entry name

RNT1_YEAST

Accession

Primary (citable) accession number: Q02555
Secondary accession number(s): D6W065, Q04008, Q05038

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 97 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

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

Yeast chromosome XIII

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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents