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Entry version 170 (18 Sep 2019)
Sequence version 1 (01 Nov 1996)
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Protein

Nucleolar protein 56

Gene

NOP56

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Required for 60S ribosomal subunit synthesis.1 Publication

Miscellaneous

Present with 13500 molecules/cell in log phase SD medium.1 Publication

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

  • rRNA 2'-O-methylation Source: Reactome
  • rRNA methylation Source: Reactome
  • rRNA modification Source: SGD
  • rRNA processing Source: SGD

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionRibonucleoprotein
Biological processRibosome biogenesis

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
YEAST:G3O-32318-MONOMER

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-SCE-6791226 Major pathway of rRNA processing in the nucleolus and cytosol

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Nucleolar protein 56
Alternative name(s):
Ribosome biosynthesis protein SIK1
Suppressor of I kappa b protein 1
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:NOP56
Synonyms:SIK1
Ordered Locus Names:YLR197W
ORF Names:L8167.9
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri559292 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002311 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome XII

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:YLR197W

Saccharomyces Genome Database

More...
SGDi
S000004187 NOP56

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi333V → A: Reduced growth rate at all temperatures; when associated with R-385. 1 Publication1
Mutagenesisi355Y → C: At 37 degrees, growth slows after 6 to 8 hours and cell division stops after 20 hours. 1 Publication1
Mutagenesisi385M → R: Reduced growth rate at all temperatures; when associated with A-333. 1 Publication1

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002190301 – 504Nucleolar protein 56Add BLAST504

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei321PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q12460

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q12460

PRoteomics IDEntifications database

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PRIDEi
Q12460

PTM databases

CarbonylDB database of protein carbonylation sites

More...
CarbonylDBi
Q12460

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q12460

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with NOP1 and NOP58.

Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.

2 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
31467, 459 interactors

ComplexPortal: manually curated resource of macromolecular complexes

More...
ComplexPortali
CPX-1604 Small ribosomal subunit processome, variant 1
CPX-1607 Small ribosomal subunit processome, variant 2
CPX-1608 Small ribosomal subunit processome, variant 3
CPX-729 Box C/D snoRNP complex

Database of interacting proteins

More...
DIPi
DIP-4405N

Protein interaction database and analysis system

More...
IntActi
Q12460, 43 interactors

Molecular INTeraction database

More...
MINTi
Q12460

STRING: functional protein association networks

More...
STRINGi
4932.YLR197W

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q12460

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini299 – 417NopPROSITE-ProRule annotationAdd BLAST119

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi443 – 504Asp/Glu/Lys-richAdd BLAST62

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the NOP5/NOP56 family.Curated

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000196309

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q12460

KEGG Orthology (KO)

More...
KOi
K14564

Identification of Orthologs from Complete Genome Data

More...
OMAi
LKFYESG

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.246.90, 1 hit
1.10.287.660, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR029012 Helix_hairpin_bin_sf
IPR012974 NOP5_N
IPR042239 Nop_C
IPR002687 Nop_dom
IPR036070 Nop_dom_sf
IPR012976 NOSIC

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01798 Nop, 1 hit
PF08156 NOP5NT, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00931 NOSIC, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF89124 SSF89124, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51358 NOP, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

Q12460-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAPIEYLLFE EPTGYAVFKV KLQQDDIGSR LKEVQEQIND FGAFTKLIEL
60 70 80 90 100
VSFAPFKGAA EALENANDIS EGLVSESLKA ILDLNLPKAS SKKKNITLAI
110 120 130 140 150
SDKNLGPSIK EEFPYVDCIS NELAQDLIRG VRLHGEKLFK GLQSGDLERA
160 170 180 190 200
QLGLGHAYSR AKVKFSVQKN DNHIIQAIAL LDQLDKDINT FAMRVKEWYG
210 220 230 240 250
WHFPELAKLV PDNYTFAKLV LFIKDKASLN DDSLHDLAAL LNEDSGIAQR
260 270 280 290 300
VIDNARISMG QDISETDMEN VCVFAQRVAS LADYRRQLYD YLCEKMHTVA
310 320 330 340 350
PNLSELIGEV IGARLISHAG SLTNLSKQAA STVQILGAEK ALFRALKTKG
360 370 380 390 400
NTPKYGLIYH SGFISKASAK NKGRISRYLA NKCSMASRID NYSEEPSNVF
410 420 430 440 450
GSVLKKQVEQ RLEFYNTGKP TLKNELAIQE AMELYNKDKP AAEVEETKEK
460 470 480 490 500
ESSKKRKLED DDEEKKEKKE KKSKKEKKEK KEKKDKKEKK DKKEKKDKKK

KSKD
Length:504
Mass (Da):56,864
Last modified:November 1, 1996 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iF8522A5870EF4842
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
U20237 Genomic DNA Translation: AAC49066.1
U14913 Genomic DNA Translation: AAB67431.1
BK006945 Genomic DNA Translation: DAA09516.1

Protein sequence database of the Protein Information Resource

More...
PIRi
S48550

NCBI Reference Sequences

More...
RefSeqi
NP_013298.1, NM_001182084.1

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
YLR197W_mRNA; YLR197W; YLR197W

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
850894

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
sce:YLR197W

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U20237 Genomic DNA Translation: AAC49066.1
U14913 Genomic DNA Translation: AAB67431.1
BK006945 Genomic DNA Translation: DAA09516.1
PIRiS48550
RefSeqiNP_013298.1, NM_001182084.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5WLCelectron microscopy3.80SA1-504[»]
5WYJelectron microscopy8.703D1-504[»]
5WYKelectron microscopy4.503D1-504[»]
SMRiQ12460
ModBaseiSearch...

Protein-protein interaction databases

BioGridi31467, 459 interactors
ComplexPortaliCPX-1604 Small ribosomal subunit processome, variant 1
CPX-1607 Small ribosomal subunit processome, variant 2
CPX-1608 Small ribosomal subunit processome, variant 3
CPX-729 Box C/D snoRNP complex
DIPiDIP-4405N
IntActiQ12460, 43 interactors
MINTiQ12460
STRINGi4932.YLR197W

PTM databases

CarbonylDBiQ12460
iPTMnetiQ12460

Proteomic databases

MaxQBiQ12460
PaxDbiQ12460
PRIDEiQ12460

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR197W_mRNA; YLR197W; YLR197W
GeneIDi850894
KEGGisce:YLR197W

Organism-specific databases

EuPathDBiFungiDB:YLR197W
SGDiS000004187 NOP56

Phylogenomic databases

HOGENOMiHOG000196309
InParanoidiQ12460
KOiK14564
OMAiLKFYESG

Enzyme and pathway databases

BioCyciYEAST:G3O-32318-MONOMER
ReactomeiR-SCE-6791226 Major pathway of rRNA processing in the nucleolus and cytosol

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q12460

Family and domain databases

Gene3Di1.10.246.90, 1 hit
1.10.287.660, 1 hit
InterProiView protein in InterPro
IPR029012 Helix_hairpin_bin_sf
IPR012974 NOP5_N
IPR042239 Nop_C
IPR002687 Nop_dom
IPR036070 Nop_dom_sf
IPR012976 NOSIC
PfamiView protein in Pfam
PF01798 Nop, 1 hit
PF08156 NOP5NT, 1 hit
SMARTiView protein in SMART
SM00931 NOSIC, 1 hit
SUPFAMiSSF89124 SSF89124, 1 hit
PROSITEiView protein in PROSITE
PS51358 NOP, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiNOP56_YEAST
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q12460
Secondary accession number(s): D6VYK0
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: September 18, 2019
This is version 170 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Yeast chromosome XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names
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