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Protein

Exosome complex protein LRP1

Gene

LRP1

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

Required for exosome-dependent processing of pre-rRNA and small nucleolar RNA (snRNA) precursors. Involved in processing of 35S pre-rRNA at the A0, A1 and A2 sites. Required for activity of RRP6 in 7S pre-rRNA processing. Also has a role in 3'-processing of U4 and U5 small nuclear RNAs (snRNAs). Acts as a mRNA export factor. Mediates mRNA degradation upon UV irradiation. Maintains genome integrity where it is involved in both non-homologous end joining (NHEJ) and homologous recombination pathway repair of double strand DNA breaks. During NHEJ, required for joining 3'-overhanging ends. Also involved in telomere length regulation and maintenance.5 Publications

GO - Molecular functioni

  1. double-stranded DNA binding Source: SGD
  2. double-stranded RNA binding Source: SGD
  3. enzyme regulator activity Source: SGD

GO - Biological processi

  1. exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  2. nuclear mRNA surveillance Source: SGD
  3. nuclear polyadenylation-dependent CUT catabolic process Source: SGD
  4. nuclear polyadenylation-dependent rRNA catabolic process Source: SGD
  5. nuclear retention of pre-mRNA at the site of transcription Source: SGD
  6. polyadenylation-dependent snoRNA 3'-end processing Source: SGD
  7. posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery Source: SGD
  8. regulation of exoribonuclease activity Source: SGD
  9. U4 snRNA 3'-end processing Source: SGD
  10. U5 snRNA 3'-end processing Source: SGD
Complete GO annotation...

Keywords - Biological processi

rRNA processing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-31128-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex protein LRP1
Alternative name(s):
Like an rRNA processing protein 1
Yeast C1D domain-containing protein
rRNA processing protein 47
Gene namesi
Name:LRP1
Synonyms:RRP47, YC1D
Ordered Locus Names:YHR081W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome VIII

Organism-specific databases

CYGDiYHR081w.
EuPathDBiFungiDB:YHR081W.
SGDiS000001123. LRP1.

Subcellular locationi

  1. Nucleus 3 Publications

GO - Cellular componenti

  1. exosome (RNase complex) Source: UniProtKB-KW
  2. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Exosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 184184Exosome complex protein LRP1PRO_0000202902Add
BLAST

Proteomic databases

MaxQBiP38801.
PaxDbiP38801.

Expressioni

Gene expression databases

GenevestigatoriP38801.

Interactioni

Subunit structurei

Associated with nuclear form of the RNA exosome complex. Interacts with RRP4, RRP6, RRP45 and RRP46.3 Publications

Protein-protein interaction databases

BioGridi36516. 261 interactions.
DIPiDIP-4359N.
IntActiP38801. 7 interactions.
MINTiMINT-499454.
STRINGi4932.YHR081W.

Structurei

Secondary structure

1
184
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi4 – 63Combined sources
Helixi8 – 2821Combined sources
Helixi33 – 397Combined sources
Helixi43 – 6725Combined sources
Helixi74 – 11946Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4WFCX-ray2.35B/D/F1-133[»]
4WFDX-ray2.40B/E/H1-103[»]
ProteinModelPortaliP38801.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the C1D family.Curated

Phylogenomic databases

eggNOGiNOG315595.
HOGENOMiHOG000000879.
InParanoidiP38801.
KOiK12592.
OMAiNFQGKHT.
OrthoDBiEOG7RFTW7.

Family and domain databases

InterProiIPR011082. Exosome-assoc_fac/DNA_repair.
IPR007146. Sas10/Utp3/C1D.
[Graphical view]
PANTHERiPTHR15341. PTHR15341. 1 hit.
PfamiPF04000. Sas10_Utp3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P38801-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEDIEKIKPY VRSFSKALDE LKPEIEKLTS KSLDEQLLLL SDERAKLELI
60 70 80 90 100
NRYAYVLSSL MFANMKVLGV KDMSPILGEL KRVKSYMDKA KQYDNRITKS
110 120 130 140 150
NEKSQAEQEK AKNIISNVLD GNKNQFEPSI SRSNFQGKHT KFENDELAES
160 170 180
TTTKIIDSTD HIRKASSKKS KRLDKVGKKK GGKK
Length:184
Mass (Da):21,045
Last modified:February 1, 1995 - v1
Checksum:i27D00668C296CC9A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U10556 Genomic DNA. Translation: AAB68886.1.
BK006934 Genomic DNA. Translation: DAA06776.1.
PIRiS46808.
RefSeqiNP_011949.1. NM_001179211.1.

Genome annotation databases

EnsemblFungiiYHR081W; YHR081W; YHR081W.
GeneIDi856481.
KEGGisce:YHR081W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U10556 Genomic DNA. Translation: AAB68886.1.
BK006934 Genomic DNA. Translation: DAA06776.1.
PIRiS46808.
RefSeqiNP_011949.1. NM_001179211.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4WFCX-ray2.35B/D/F1-133[»]
4WFDX-ray2.40B/E/H1-103[»]
ProteinModelPortaliP38801.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36516. 261 interactions.
DIPiDIP-4359N.
IntActiP38801. 7 interactions.
MINTiMINT-499454.
STRINGi4932.YHR081W.

Proteomic databases

MaxQBiP38801.
PaxDbiP38801.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYHR081W; YHR081W; YHR081W.
GeneIDi856481.
KEGGisce:YHR081W.

Organism-specific databases

CYGDiYHR081w.
EuPathDBiFungiDB:YHR081W.
SGDiS000001123. LRP1.

Phylogenomic databases

eggNOGiNOG315595.
HOGENOMiHOG000000879.
InParanoidiP38801.
KOiK12592.
OMAiNFQGKHT.
OrthoDBiEOG7RFTW7.

Enzyme and pathway databases

BioCyciYEAST:G3O-31128-MONOMER.

Miscellaneous databases

NextBioi982167.
PROiP38801.

Gene expression databases

GenevestigatoriP38801.

Family and domain databases

InterProiIPR011082. Exosome-assoc_fac/DNA_repair.
IPR007146. Sas10/Utp3/C1D.
[Graphical view]
PANTHERiPTHR15341. PTHR15341. 1 hit.
PfamiPF04000. Sas10_Utp3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: SUBCELLULAR LOCATION.
  4. "Saccharomyces cerevisiae C1D is implicated in both non-homologous DNA end joining and homologous recombination."
    Erdemir T., Bilican B., Cagatay T., Goding C.R., Yavuzer U.
    Mol. Microbiol. 46:947-957(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  5. Cited for: FUNCTION, INTERACTION WITH RRP45 AND RRP46.
  6. "Rrp47p is an exosome-associated protein required for the 3' processing of stable RNAs."
    Mitchell P., Petfalski E., Houalla R., Podtelejnikov A., Mann M., Tollervey D.
    Mol. Cell. Biol. 23:6982-6992(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH RRP4 AND RRP6, SUBCELLULAR LOCATION, IDENTIFICATION BY MASS SPECTROMETRY.
  7. "Genome-wide mRNA surveillance is coupled to mRNA export."
    Hieronymus H., Yu M.C., Silver P.A.
    Genes Dev. 18:2652-2662(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION RRP6, SUBCELLULAR LOCATION.
  8. "A genome-wide screen for Saccharomyces cerevisiae deletion mutants that affect telomere length."
    Askree S.H., Yehuda T., Smolikov S., Gurevich R., Hawk J., Coker C., Krauskopf A., Kupiec M., McEachern M.J.
    Proc. Natl. Acad. Sci. U.S.A. 101:8658-8663(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiLRP1_YEAST
AccessioniPrimary (citable) accession number: P38801
Secondary accession number(s): D3DL32
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: April 29, 2015
This is version 102 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

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 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.