13 kDa ribonucleoprotein-associated protein - Saccharomyces cerevisiae (Baker's yeast)

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Reviewed, UniProtKB/Swiss-Prot P39990 (SNU13_YEAST)

Last modified November 24, 2009. Version 86. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
13 kDa ribonucleoprotein-associated protein
Alternative name(s):
Small nuclear ribonucleoprotein-associated protein 1

Gene names

Name:	SNU13
Ordered Locus Names:	YEL026W

Organism

Saccharomyces cerevisiae (Baker's yeast) [Complete proteome]

Taxonomic identifier

4932 [NCBI]

Taxonomic lineage

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

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Protein attributes

Sequence length	126 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Function	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. Ref.5 Ref.7 Ref.10
Subunit structure	Binds to the C'/D and B/C motifs in U3 snoRNA. Component of the 25S U4/U6.U5 tri-snRNP particle, a subcomplex of the spliceosome. 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.
Subcellular location	Nucleus › nucleolus.
Sequence similarities	Belongs to the ribosomal protein L7Ae family.

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Ontologies

Keywords
Biological process	Ribosome biogenesis mRNA processing mRNA splicing rRNA processing
Cellular component	Nucleus Spliceosome
Ligand	RNA-binding
Molecular function	Ribonucleoprotein
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Ref.10 Inferred from mutant phenotype. Source: SGD nuclear mRNA splicing, via spliceosome Ref.4 Ref.10 Inferred from mutant phenotype. Source: SGD
Cellular component	U4/U6 x U5 tri-snRNP complex Ref.3 Ref.4 Inferred from direct assay. Source: SGD box C/D snoRNP complex Ref.5 Inferred from direct assay. Source: SGD small-subunit processome Ref.8 Inferred from direct assay. Source: SGD spliceosomal complex Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	RNA binding Ref.10 Inferred from mutant phenotype. Source: SGD
Complete GO annotation...

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 126

126

13 kDa ribonucleoprotein-associated protein

PRO_0000136777

Experimental info

Mutagenesis

E → A: Impairs binding to U4 snRNA, but not U3 snoRNA. Causes pre-mRNA splicing and pre-rRNA processing defects. Ref.10

Mutagenesis

V → 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. Ref.10

Mutagenesis

R → 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. Ref.10

Secondary structure

126

Helix Strand Turn

Details...

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Sequences

Sequence

Length

Mass (Da)

Tools

P39990-1 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: 4489780153E8F182
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FASTA

126

13,569

        10         20         30         40         50         60 
MSAPNPKAFP LADAALTQQI LDVVQQAANL RQLKKGANEA TKTLNRGISE FIIMAADCEP 

        70         80         90        100        110        120 
IEILLHLPLL CEDKNVPYVF VPSRVALGRA CGVSRPVIAA SITTNDASAI KTQIYAVKDK 


IETLLI

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome V." Dietrich F.S., Mulligan J.T., Hennessy K.M., Yelton M.A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Guzman E., Hartzell G., Hunicke-Smith S., Hyman R.W. Davis R.W. Nature 387:78-81(1997) [PubMed: 9169868] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. LaBaer J. Genome Res. 17:536-543(2007) [PubMed: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	"Identification by mass spectrometry and functional analysis of novel proteins of the yeast [U4/U6.U5] tri-snRNP." Gottschalk A., Neubauer G., Banroques J., Mann M., Luehrmann R., Fabrizio P. EMBO J. 18:4535-4548(1999) [PubMed: 10449419] [Abstract] Cited for: IDENTIFICATION IN U4/U6.U5 TRI-SNRNP COMPLEX, MASS SPECTROMETRY.
[4]	"Purification of the yeast U4/U6.U5 small nuclear ribonucleoprotein particle and identification of its proteins." Stevens S.W., Abelson J. Proc. Natl. Acad. Sci. U.S.A. 96:7226-7231(1999) [PubMed: 10377396] [Abstract] Cited for: IDENTIFICATION IN U4/U6.U5 TRI-SNRNP COMPLEX, MASS SPECTROMETRY.
[5]	"A common core RNP structure shared between the small nucleoar box C/D RNPs and the spliceosomal U4 snRNP." Watkins N.J., Segault V., Charpentier B., Nottrott S., Fabrizio P., Bachi A., Wilm M., Rosbash M., Branlant C., Luehrmann R. Cell 103:457-466(2000) [PubMed: 11081632] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN U3 SNORNP, MASS SPECTROMETRY, RNA-BINDING.
[6]	"Composition and functional characterization of the yeast spliceosomal penta-snRNP." Stevens S.W., Ryan D.E., Ge H.Y., Moore R.E., Young M.K., Lee T.D., Abelson J. Mol. Cell 9:31-44(2002) [PubMed: 11804584] [Abstract] Cited for: IDENTIFICATION IN U1.U2.U4/U6.U5 PENTA-SNRNP COMPLEX, MASS SPECTROMETRY.
[7]	"Purified box C/D snoRNPs are able to reproduce site-specific 2'-O-methylation of target RNA in vitro." Galardi S., Fatica A., Bachi A., Scaloni A., Presutti C., Bozzoni I. Mol. Cell. Biol. 22:6663-6668(2002) [PubMed: 12215523] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN U3 SNORNP, MASS SPECTROMETRY.
[8]	"A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis." Dragon F., Gallagher J.E.G., Compagnone-Post P.A., Mitchell B.M., Porwancher K.A., Wehner K.A., Wormsley S., Settlage R.E., Shabanowitz J., Osheim Y., Beyer A.L., Hunt D.F., Baserga S.J. Nature 417:967-970(2002) [PubMed: 12068309] [Abstract] Cited for: IDENTIFICATION IN SSU PROCESSOME BY MASS SPECTROMETRY.
[9]	"A structural, phylogenetic, and functional study of 15.5-kD/Snu13 protein binding on U3 small nucleolar RNA." Marmier-Gourrier N., Clery A., Senty-Segault V., Charpentier B., Schlotter F., Leclerc F., Fournier R., Branlant C. RNA 9:821-838(2003) [PubMed: 12810916] [Abstract] Cited for: RNA-BINDING.
[10]	"Analysis of Snu13p mutations reveals differential interactions with the U4 snRNA and U3 snoRNA." Dobbyn H.C., O'Keefe R.T. RNA 10:308-320(2004) [PubMed: 14730029] [Abstract] Cited for: FUNCTION, MUTAGENESIS OF GLU-59; VAL-81 AND ARG-84, RNA-BINDING.
[11]	"Structural comparison of yeast snoRNP and spliceosomal protein Snu13p with its homologs." Oruganti S., Zhang Y., Li H. Biochem. Biophys. Res. Commun. 333:550-554(2005) [PubMed: 15963469] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).
+	Additional computationally mapped references.

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Cross-references

Sequence databases

U18530 Genomic DNA. Translation: AAB64503.1.
AY558377 Genomic DNA. Translation: AAS56703.1.

PIR

S50433.

RefSeq

NP_010888.1.

3D structure databases

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1ZWZ	X-ray	1.90	A/B	1-126	[»]
2ALE	X-ray	1.80	A	1-126	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP:2870N.

IntAct

P39990. 11 interactions.

STRING

P39990.

Proteomic databases

PeptideAtlas

P39990.

PRIDE

P39990.

Genome annotation databases

Ensembl

YEL026W; YEL026W; YEL026W; Saccharomyces cerevisiae. [Genome view]

GeneID

856687.

KEGG

sce:YEL026W.

NMPDR

fig|4932.3.peg.1942.

Organism-specific databases

CYGD

YEL026w.

SGD

S000000752. SNU13.

Phylogenomic databases

HOGENOM

P39990.

OMA

GVNPKAF

OrthoDB

EOG973R7R

Gene expression databases

ArrayExpress

P39990.

Genevestigator

P39990.

GermOnline

YEL026W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR002415. HMG_nuclear.
IPR018492. Ribosomal_L7A/RS6_fam.
IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
IPR004037. Ribosomal_L7Ae_CS.
[Graphical view]

Pfam

PF01248. Ribosomal_L7Ae. 1 hit.
[Graphical view]

PRINTS

PR00881. L7ARS6FAMILY.
PR00883. NUCLEARHMG.

PROSITE

PS01082. RIBOSOMAL_L7AE. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

982724.

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Entry information

Entry name

SNU13_YEAST

Accession

Primary (citable) accession number: P39990

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	November 24, 2009
This is version 86 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)

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