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UniProtKB - P87123 (RPB11_SCHPO)

Entry version 143 (12 Aug 2020)
Sequence version 1 (01 Jul 1997)
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Protein

DNA-directed RNA polymerase II subunit RPB11

Gene

rpb11

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score:

Annotation score:3 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

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB11 is part of the core element with the central large cleft (By similarity).By similarity

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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

Biological processTranscription

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-SPO-113418, Formation of the Early Elongation Complex
R-SPO-674695, RNA Polymerase II Pre-transcription Events
R-SPO-6781823, Formation of TC-NER Pre-Incision Complex
R-SPO-6782135, Dual incision in TC-NER
R-SPO-6782210, Gap-filling DNA repair synthesis and ligation in TC-NER
R-SPO-6796648, TP53 Regulates Transcription of DNA Repair Genes
R-SPO-6807505, RNA polymerase II transcribes snRNA genes
R-SPO-72086, mRNA Capping
R-SPO-72163, mRNA Splicing - Major Pathway
R-SPO-72165, mRNA Splicing - Minor Pathway
R-SPO-73776, RNA Polymerase II Promoter Escape
R-SPO-73779, RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-SPO-75953, RNA Polymerase II Transcription Initiation
R-SPO-75955, RNA Polymerase II Transcription Elongation
R-SPO-76042, RNA Polymerase II Transcription Initiation And Promoter Clearance
R-SPO-77075, RNA Pol II CTD phosphorylation and interaction with CE
R-SPO-9018519, Estrogen-dependent gene expression

<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%5Fand%5Ftaxonomy%5Fsection">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:
DNA-directed RNA polymerase II subunit RPB11
Short name:
RNA polymerase II subunit B11
Alternative name(s):
DNA-directed RNA polymerase II 14.1 kDa polypeptide
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:rpb11
ORF Names:SPAC3A12.07
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri284812 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiEukaryota › Fungi › Dikarya › Ascomycota › Taphrinomycotina › Schizosaccharomycetes › Schizosaccharomycetales › Schizosaccharomycetaceae › Schizosaccharomyces ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
  • UP000002485 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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 I

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...EuPathDBi		FungiDB:SPAC3A12.07

Schizosaccharomyces pombe database

More...PomBasei		SPAC3A12.07, rpb11

<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

DNA-directed RNA polymerase, Nucleus

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001493141 – 123DNA-directed RNA polymerase II subunit RPB11Add BLAST123

Proteomic databases

MaxQB - The MaxQuant DataBase

More...MaxQBi		P87123

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

More...PaxDbi		P87123

PRoteomics IDEntifications database

More...PRIDEi		P87123

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		P87123

<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%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits.

By similarity

GO - Molecular functioni

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...BioGRIDi		279544, 11 interactors

Protein interaction database and analysis system

More...IntActi		P87123, 2 interactors

STRING: functional protein association networks

More...STRINGi		4896.SPAC3A12.07.1

<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

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		P87123

<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

<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 archaeal RpoL/eukaryotic RPB11/RPC19 RNA polymerase subunit family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG4392, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_090381_2_1_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P87123

KEGG Orthology (KO)

More...KOi		K03008

Identification of Orthologs from Complete Genome Data

More...OMAi		HKFVLRI

Database for complete collections of gene phylogenies

More...PhylomeDBi		P87123

Family and domain databases

Conserved Domains Database

More...CDDi		cd06926, RNAP_II_RPB11, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.30.1360.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR037685, RBP11
IPR036603, RBP11-like
IPR009025, RBP11-like_dimer
IPR008193, RNA_pol_Rpb11_13-16kDa_CS

Pfam protein domain database

More...Pfami		View protein in Pfam
PF13656, RNA_pol_L_2, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF55257, SSF55257, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS01154, RNA_POL_L_13KD, 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%5Flength">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

P87123-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MNQPERYELI ELMGLPKVTY ELDSKSPNAA VVTLEKEDHT LANMLANQLL 
        60         70         80         90        100
SDERVLFAGY KVPHPLNHNF ILRVQTVEDC SPKQVIVDAA KSLITHLEEI 
       110        120 
KVNFMREWEL KMISVEGVEM EFS
Length:123
Mass (Da):14,127
Last modified:July 1, 1997 - 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:i73FAFDF2F468386E
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
D89597 Genomic DNA Translation: BAA22806.1
D85902 mRNA Translation: BAA22801.1
AF027822 mRNA Translation: AAB92517.1
CU329670 Genomic DNA Translation: CAB08752.1

Protein sequence database of the Protein Information Resource

More...PIRi		T38675

NCBI Reference Sequences

More...RefSeqi		NP_593333.1, NM_001018765.2

Genome annotation databases

Ensembl fungal genome annotation project

More...EnsemblFungii		SPAC3A12.07.1; SPAC3A12.07.1:pep; SPAC3A12.07

Database of genes from NCBI RefSeq genomes

More...GeneIDi		2543112

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		spo:SPAC3A12.07

<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
D89597 Genomic DNA Translation: BAA22806.1
D85902 mRNA Translation: BAA22801.1
AF027822 mRNA Translation: AAB92517.1
CU329670 Genomic DNA Translation: CAB08752.1
PIRiT38675
RefSeqiNP_593333.1, NM_001018765.2

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
3H0GX-ray3.65K/W1-123[»]
5U0Selectron microscopy7.80k1-123[»]
ModBaseiSearch...
SWISS-MODEL-WorkspaceiSubmit a new modelling project...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi279544, 11 interactors
IntActiP87123, 2 interactors
STRINGi4896.SPAC3A12.07.1

PTM databases

iPTMnetiP87123

Proteomic databases

MaxQBiP87123
PaxDbiP87123
PRIDEiP87123

Genome annotation databases

EnsemblFungiiSPAC3A12.07.1; SPAC3A12.07.1:pep; SPAC3A12.07
GeneIDi2543112
KEGGispo:SPAC3A12.07

Organism-specific databases

EuPathDBiFungiDB:SPAC3A12.07
PomBaseiSPAC3A12.07, rpb11

Phylogenomic databases

eggNOGiKOG4392, Eukaryota
HOGENOMiCLU_090381_2_1_1
InParanoidiP87123
KOiK03008
OMAiHKFVLRI
PhylomeDBiP87123

Enzyme and pathway databases

ReactomeiR-SPO-113418, Formation of the Early Elongation Complex
R-SPO-674695, RNA Polymerase II Pre-transcription Events
R-SPO-6781823, Formation of TC-NER Pre-Incision Complex
R-SPO-6782135, Dual incision in TC-NER
R-SPO-6782210, Gap-filling DNA repair synthesis and ligation in TC-NER
R-SPO-6796648, TP53 Regulates Transcription of DNA Repair Genes
R-SPO-6807505, RNA polymerase II transcribes snRNA genes
R-SPO-72086, mRNA Capping
R-SPO-72163, mRNA Splicing - Major Pathway
R-SPO-72165, mRNA Splicing - Minor Pathway
R-SPO-73776, RNA Polymerase II Promoter Escape
R-SPO-73779, RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-SPO-75953, RNA Polymerase II Transcription Initiation
R-SPO-75955, RNA Polymerase II Transcription Elongation
R-SPO-76042, RNA Polymerase II Transcription Initiation And Promoter Clearance
R-SPO-77075, RNA Pol II CTD phosphorylation and interaction with CE
R-SPO-9018519, Estrogen-dependent gene expression

Miscellaneous databases

EvolutionaryTraceiP87123

Protein Ontology

More...PROi		PR:P87123

Family and domain databases

CDDicd06926, RNAP_II_RPB11, 1 hit
Gene3Di3.30.1360.10, 1 hit
InterProiView protein in InterPro
IPR037685, RBP11
IPR036603, RBP11-like
IPR009025, RBP11-like_dimer
IPR008193, RNA_pol_Rpb11_13-16kDa_CS
PfamiView protein in Pfam
PF13656, RNA_pol_L_2, 1 hit
SUPFAMiSSF55257, SSF55257, 1 hit
PROSITEiView protein in PROSITE
PS01154, RNA_POL_L_13KD, 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 nameiRPB11_SCHPO
<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: P87123
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: July 1, 1997
Last modified: August 12, 2020
This is version 143 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, Reference proteome

Documents

  1. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
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