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Protein

13 kDa ribonucleoprotein-associated protein

Gene

SNU13

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

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.3 Publications

GO - Molecular functioni

  • RNA binding Source: SGD
  • U3 snoRNA binding Source: GO_Central
  • U4 snRNA binding Source: GO_Central

GO - Biological processi

  • maturation of LSU-rRNA Source: GO_Central
  • maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • mRNA splicing, via spliceosome Source: SGD
  • rRNA 2'-O-methylation Source: Reactome
  • rRNA methylation Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing, Ribosome biogenesis, rRNA processing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-30149-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus and cytosol.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-SCE-72165. mRNA Splicing - Minor Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
13 kDa ribonucleoprotein-associated protein
Alternative name(s):
Small nuclear ribonucleoprotein-associated protein 1
Gene namesi
Name:SNU13
Ordered Locus Names:YEL026W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome V

Organism-specific databases

EuPathDBiFungiDB:YEL026W.
SGDiS000000752. SNU13.

Subcellular locationi

GO - Cellular componenti

  • box C/D snoRNP complex Source: SGD
  • nucleolus Source: SGD
  • nucleoplasm Source: Reactome
  • precatalytic spliceosome Source: GO_Central
  • small-subunit processome Source: SGD
  • U4/U6 x U5 tri-snRNP complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi59E → A: Impairs binding to U4 snRNA, but not U3 snoRNA. Causes pre-mRNA splicing and pre-rRNA processing defects. 1 Publication1
Mutagenesisi81V → L: Impairs binding to U4 snRNA, but not U3 snoRNA, and causes pre rRNA processing defects and an accumulation of unspliced U3 snoRNA; when associated with A-84. 1 Publication1
Mutagenesisi84R → A: Impairs binding to U4 snRNA, but not U3 snoRNA, and causes pre rRNA processing defects and an accumulation of unspliced U3 snoRNA; when associated with L-81. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001367771 – 12613 kDa ribonucleoprotein-associated proteinAdd BLAST126

Proteomic databases

MaxQBiP39990.
PRIDEiP39990.

Interactioni

Subunit structurei

Binds to the C'/D and B/C motifs in U3 snoRNA. Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRP3, PRP4, PRP6, PRP8, PRP18, PRP31, PRP38, SNU13, SNU23, SNU66, SNU114, SPP381, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, LSM2, LSM3, LSM4, LSM5, LSM6, LSM7, LSM8, BRR2 and DIB1. Binds to the 5'-stem-loop of U4 snRNA. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.6 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
NOP1P156464EBI-12032,EBI-6838

Protein-protein interaction databases

BioGridi36703. 57 interactors.
DIPiDIP-2870N.
IntActiP39990. 23 interactors.
MINTiMINT-627070.

Structurei

Secondary structure

1126
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi14 – 29Combined sources16
Beta strandi33 – 36Combined sources4
Helixi37 – 46Combined sources10
Beta strandi49 – 55Combined sources7
Helixi61 – 64Combined sources4
Helixi66 – 74Combined sources9
Beta strandi78 – 82Combined sources5
Helixi84 – 90Combined sources7
Beta strandi98 – 103Combined sources6
Helixi110 – 124Combined sources15

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZWZX-ray1.90A/B1-126[»]
2ALEX-ray1.80A1-126[»]
3JCMelectron microscopy3.80M1-126[»]
4NUTX-ray1.55A1-126[»]
5GANelectron microscopy3.60K1-126[»]
5GAPelectron microscopy3.60K1-126[»]
ProteinModelPortaliP39990.
SMRiP39990.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP39990.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L7Ae family.Curated

Phylogenomic databases

GeneTreeiENSGT00550000074840.
HOGENOMiHOG000055226.
InParanoidiP39990.
KOiK12845.
OMAiWPLADQK.
OrthoDBiEOG092C5PRN.

Family and domain databases

Gene3Di3.30.1330.30. 1 hit.
InterProiIPR002415. H/ACA_rnp_Nhp2_euk.
IPR029064. L30e-like.
IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
IPR018492. Ribosomal_L7Ae/L8/Nhp2.
IPR004037. Ribosomal_L7Ae_CS.
[Graphical view]
PfamiPF01248. Ribosomal_L7Ae. 1 hit.
[Graphical view]
PRINTSiPR00881. L7ARS6FAMILY.
PR00883. NUCLEARHMG.
SUPFAMiSSF55315. SSF55315. 1 hit.
PROSITEiPS01082. RIBOSOMAL_L7AE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P39990-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAPNPKAFP LADAALTQQI LDVVQQAANL RQLKKGANEA TKTLNRGISE
60 70 80 90 100
FIIMAADCEP IEILLHLPLL CEDKNVPYVF VPSRVALGRA CGVSRPVIAA
110 120
SITTNDASAI KTQIYAVKDK IETLLI
Length:126
Mass (Da):13,569
Last modified:February 1, 1995 - v1
Checksum:i4489780153E8F182
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18530 Genomic DNA. Translation: AAB64503.1.
AY558377 Genomic DNA. Translation: AAS56703.1.
BK006939 Genomic DNA. Translation: DAA07626.1.
PIRiS50433.
RefSeqiNP_010888.1. NM_001178841.1.

Genome annotation databases

EnsemblFungiiYEL026W; YEL026W; YEL026W.
GeneIDi856687.
KEGGisce:YEL026W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18530 Genomic DNA. Translation: AAB64503.1.
AY558377 Genomic DNA. Translation: AAS56703.1.
BK006939 Genomic DNA. Translation: DAA07626.1.
PIRiS50433.
RefSeqiNP_010888.1. NM_001178841.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZWZX-ray1.90A/B1-126[»]
2ALEX-ray1.80A1-126[»]
3JCMelectron microscopy3.80M1-126[»]
4NUTX-ray1.55A1-126[»]
5GANelectron microscopy3.60K1-126[»]
5GAPelectron microscopy3.60K1-126[»]
ProteinModelPortaliP39990.
SMRiP39990.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36703. 57 interactors.
DIPiDIP-2870N.
IntActiP39990. 23 interactors.
MINTiMINT-627070.

Proteomic databases

MaxQBiP39990.
PRIDEiP39990.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYEL026W; YEL026W; YEL026W.
GeneIDi856687.
KEGGisce:YEL026W.

Organism-specific databases

EuPathDBiFungiDB:YEL026W.
SGDiS000000752. SNU13.

Phylogenomic databases

GeneTreeiENSGT00550000074840.
HOGENOMiHOG000055226.
InParanoidiP39990.
KOiK12845.
OMAiWPLADQK.
OrthoDBiEOG092C5PRN.

Enzyme and pathway databases

BioCyciYEAST:G3O-30149-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus and cytosol.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-SCE-72165. mRNA Splicing - Minor Pathway.

Miscellaneous databases

EvolutionaryTraceiP39990.
PROiP39990.

Family and domain databases

Gene3Di3.30.1330.30. 1 hit.
InterProiIPR002415. H/ACA_rnp_Nhp2_euk.
IPR029064. L30e-like.
IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
IPR018492. Ribosomal_L7Ae/L8/Nhp2.
IPR004037. Ribosomal_L7Ae_CS.
[Graphical view]
PfamiPF01248. Ribosomal_L7Ae. 1 hit.
[Graphical view]
PRINTSiPR00881. L7ARS6FAMILY.
PR00883. NUCLEARHMG.
SUPFAMiSSF55315. SSF55315. 1 hit.
PROSITEiPS01082. RIBOSOMAL_L7AE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSNU13_YEAST
AccessioniPrimary (citable) accession number: P39990
Secondary accession number(s): D3DLM2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: November 2, 2016
This is version 147 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. Ribosomal proteins
    Ribosomal proteins families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families
  4. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  5. Yeast chromosome V
    Yeast (Saccharomyces cerevisiae) chromosome V: 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.