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UniProtKB - D4A817 (D4A817_RAT)

Entry version 96 (02 Dec 2020)
Sequence version 3 (22 Jul 2015)
Previous versions | rss
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Protein

Histone H2B

Gene

Hist2h2be

Organism
Rattus norvegicus (Rat)
Status
Unreviewed-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>-Protein inferred from homologyi <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

<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

Molecular functionDNA-binding

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-RNO-110330, Recognition and association of DNA glycosylase with site containing an affected purine
R-RNO-110331, Cleavage of the damaged purine
R-RNO-171306, Packaging Of Telomere Ends
R-RNO-201722, Formation of the beta-catenin:TCF transactivating complex
R-RNO-212300, PRC2 methylates histones and DNA
R-RNO-2299718, Condensation of Prophase Chromosomes
R-RNO-2559580, Oxidative Stress Induced Senescence
R-RNO-2559582, Senescence-Associated Secretory Phenotype (SASP)
R-RNO-2559586, DNA Damage/Telomere Stress Induced Senescence
R-RNO-3214847, HATs acetylate histones
R-RNO-427359, SIRT1 negatively regulates rRNA expression
R-RNO-427413, NoRC negatively regulates rRNA expression
R-RNO-5250924, B-WICH complex positively regulates rRNA expression
R-RNO-5578749, Transcriptional regulation by small RNAs
R-RNO-5625886, Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
R-RNO-5693565, Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-RNO-5693571, Nonhomologous End-Joining (NHEJ)
R-RNO-5693607, Processing of DNA double-strand break ends
R-RNO-606279, Deposition of new CENPA-containing nucleosomes at the centromere
R-RNO-69473, G2/M DNA damage checkpoint
R-RNO-73728, RNA Polymerase I Promoter Opening
R-RNO-73772, RNA Polymerase I Promoter Escape
R-RNO-8866654, E3 ubiquitin ligases ubiquitinate target proteins
R-RNO-8936459, RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-RNO-9018519, Estrogen-dependent gene expression
R-RNO-9670095, Inhibition of DNA recombination at telomere

<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:
Histone H2BUniRule annotation
<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:Hist2h2beImported
<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>OrganismiRattus norvegicus (Rat)Imported
<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 identifieri10116 [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 › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Rattus
<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
  • UP000002494 <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 2

Organism-specific databases

Rat genome database

More...RGDi		1562346, Hist2h2be

<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 Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Chromosome, Nucleosome coreUniRule annotation, NucleusUniRule annotation

<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

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		D4A817

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

More...PaxDbi		D4A817

PRoteomics IDEntifications database

More...PRIDEi		D4A817

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...Bgeei		ENSRNOG00000045753, Expressed in thymus and 20 other tissues

<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

The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.

UniRule annotation

GO - Molecular functioni

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		10116.ENSRNOP00000042464

<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		D4A817

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%5Fand%5Fdomains%5Fsection">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>Domaini11 – 101HistoneInterPro annotationAdd BLAST91

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 35DisorderedSequence analysisAdd BLAST35

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 biasi17 – 35BasicSequence analysisAdd BLAST19

<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 histone H2B family.UniRule annotationARBA annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG1744, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT01010000222347

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_075666_2_1_1

Identification of Orthologs from Complete Genome Data

More...OMAi		QSIEMAP

Database of Orthologous Groups

More...OrthoDBi		1536672at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		D4A817

TreeFam database of animal gene trees

More...TreeFami		TF300212

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.20.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR009072, Histone-fold
IPR007125, Histone_H2A/H2B/H3
IPR000558, Histone_H2B

The PANTHER Classification System

More...PANTHERi		PTHR23428, PTHR23428, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00125, Histone, 1 hit

Protein Motif fingerprint database; a protein domain database

More...PRINTSi		PR00621, HISTONEH2B

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00427, H2B, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF47113, SSF47113, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS00357, HISTONE_H2B, 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.

D4A817-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MPELAKSAPA PKKGSKKAVT KGQKKDGKKR KRSRKESYSI YVYKVLKQVH 
        60         70         80         90        100
PDTGISSKAM GIMNSFVNDI FERIANEASR LAHYNKRSTI TSREIQTAVR 
       110        120 
LLLPGELAKH AVSEGTKAVT KYTSAK
Length:126
Mass (Da):13,963
Last modified:July 22, 2015 - v3
<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:i13A8B2D629C87639
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
AABR07012582 Genomic DNA No translation available.

NCBI Reference Sequences

More...RefSeqi		XP_001061909.1, XM_001061909.5
XP_227459.1, XM_227459.6

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSRNOT00000046129; ENSRNOP00000042464; ENSRNOG00000045753

Database of genes from NCBI RefSeq genomes

More...GeneIDi		295274

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		rno:295274

<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
AABR07012582 Genomic DNA No translation available.
RefSeqiXP_001061909.1, XM_001061909.5
XP_227459.1, XM_227459.6

3D structure databases

SMRiD4A817
ModBaseiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000042464

Proteomic databases

jPOSTiD4A817
PaxDbiD4A817
PRIDEiD4A817

Genome annotation databases

EnsembliENSRNOT00000046129; ENSRNOP00000042464; ENSRNOG00000045753
GeneIDi295274
KEGGirno:295274

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		295274
RGDi1562346, Hist2h2be

Phylogenomic databases

eggNOGiKOG1744, Eukaryota
GeneTreeiENSGT01010000222347
HOGENOMiCLU_075666_2_1_1
OMAiQSIEMAP
OrthoDBi1536672at2759
PhylomeDBiD4A817
TreeFamiTF300212

Enzyme and pathway databases

ReactomeiR-RNO-110330, Recognition and association of DNA glycosylase with site containing an affected purine
R-RNO-110331, Cleavage of the damaged purine
R-RNO-171306, Packaging Of Telomere Ends
R-RNO-201722, Formation of the beta-catenin:TCF transactivating complex
R-RNO-212300, PRC2 methylates histones and DNA
R-RNO-2299718, Condensation of Prophase Chromosomes
R-RNO-2559580, Oxidative Stress Induced Senescence
R-RNO-2559582, Senescence-Associated Secretory Phenotype (SASP)
R-RNO-2559586, DNA Damage/Telomere Stress Induced Senescence
R-RNO-3214847, HATs acetylate histones
R-RNO-427359, SIRT1 negatively regulates rRNA expression
R-RNO-427413, NoRC negatively regulates rRNA expression
R-RNO-5250924, B-WICH complex positively regulates rRNA expression
R-RNO-5578749, Transcriptional regulation by small RNAs
R-RNO-5625886, Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
R-RNO-5693565, Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-RNO-5693571, Nonhomologous End-Joining (NHEJ)
R-RNO-5693607, Processing of DNA double-strand break ends
R-RNO-606279, Deposition of new CENPA-containing nucleosomes at the centromere
R-RNO-69473, G2/M DNA damage checkpoint
R-RNO-73728, RNA Polymerase I Promoter Opening
R-RNO-73772, RNA Polymerase I Promoter Escape
R-RNO-8866654, E3 ubiquitin ligases ubiquitinate target proteins
R-RNO-8936459, RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-RNO-9018519, Estrogen-dependent gene expression
R-RNO-9670095, Inhibition of DNA recombination at telomere

Gene expression databases

BgeeiENSRNOG00000045753, Expressed in thymus and 20 other tissues

Family and domain databases

Gene3Di1.10.20.10, 1 hit
InterProiView protein in InterPro
IPR009072, Histone-fold
IPR007125, Histone_H2A/H2B/H3
IPR000558, Histone_H2B
PANTHERiPTHR23428, PTHR23428, 1 hit
PfamiView protein in Pfam
PF00125, Histone, 1 hit
PRINTSiPR00621, HISTONEH2B
SMARTiView protein in SMART
SM00427, H2B, 1 hit
SUPFAMiSSF47113, SSF47113, 1 hit
PROSITEiView protein in PROSITE
PS00357, HISTONE_H2B, 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 nameiD4A817_RAT
<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: D4A817
<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/TrEMBL: April 20, 2010
Last sequence update: July 22, 2015
Last modified: December 2, 2020
This is version 96 of the entry and version 3 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 statusiUnreviewed (UniProtKB/TrEMBL)

<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

Reference proteomeImported
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