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UniProtKB - D3ZJ08 (D3ZJ08_RAT)

Entry version 104 (31 Jul 2019)
Sequence version 1 (20 Apr 2010)
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Protein

Histone H3

Gene

Hist2h3c2

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>-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

<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 ...

<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-1266695 Interleukin-7 signaling
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-3214841 PKMTs methylate histone lysines
R-RNO-3214842 HDMs demethylate histones
R-RNO-3214847 HATs acetylate histones
R-RNO-3214858 RMTs methylate histone arginines
R-RNO-3247509 Chromatin modifying enzymes
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-73728 RNA Polymerase I Promoter Opening
R-RNO-73772 RNA Polymerase I Promoter Escape
R-RNO-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-RNO-9018519 Estrogen-dependent gene expression
R-RNO-983231 Factors involved in megakaryocyte development and platelet production

<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:
Histone H3UniRule annotation
<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:Hist2h3c2Imported
Synonyms:Hist1h3aImported, Hist1h3cImported, Hist1h3fImported, LOC102548682Imported, LOC102549173Imported, LOC684762Imported, LOC684819Imported, LOC684841Imported, LOC690126Imported
ORF Names:rCG_45187Imported, rCG_45215Imported, rCG_51970Imported
<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>OrganismiRattus norvegicus (Rat)Imported
<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 identifieri10116 [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 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_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
  • UP000002494 <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 2

Organism-specific databases

Rat genome database

More...RGDi		1306445 Hist2h3c2
7725170 LOC102548682
7709329 LOC102549173
1586732 LOC684762
1584042 LOC690126

<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 annotationSAAS annotation, NucleusUniRule annotationSAAS annotation

<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		ENSRNOG00000028975 Expressed in 7 organ(s), highest expression level in adult mammalian kidney

<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

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.ENSRNOP00000067675

<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>Domaini1 – 132HistoneInterPro annotationAdd BLAST132

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 – 43DisorderedSequence analysisAdd BLAST43

<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 H3 family.UniRule annotationSAAS annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG1745 Eukaryota
COG2036 LUCA

Ensembl GeneTree

More...GeneTreei		ENSGT00960000186578

KEGG Orthology (KO)

More...KOi		K11253
K11254

Identification of Orthologs from Complete Genome Data

More...OMAi		CQILANH

Database of Orthologous Groups

More...OrthoDBi		1564596at2759

TreeFam database of animal gene trees

More...TreeFami		TF314241

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
IPR000164 Histone_H3/CENP-A

The PANTHER Classification System

More...PANTHERi		PTHR11426 PTHR11426, 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		PR00622 HISTONEH3

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00428 H3, 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
PS00322 HISTONE_H3_1, 1 hit
PS00959 HISTONE_H3_2, 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.

D3ZJ08-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MARTKQTARK STGGKAPRKQ LATKAARKSA PATGGVKKPH RYRPGTVALR 
        60         70         80         90        100
EIRRYQKSTE LLIRKLPFQR LVREIAQDFK TDLRFQSSAV MALQEASEAY 
       110        120        130 
LVGLFEDTNL CAIHAKRVTI MPKDIQLARR IRGERA
Length:136
Mass (Da):15,388
Last modified:April 20, 2010 - 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:i6FD8508EA50A0EEC
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.
AABR07012583 Genomic DNA No translation available.
AABR07027752 Genomic DNA No translation available.
AABR07027753 Genomic DNA No translation available.
AC130391 Genomic DNA No translation available.
CH474015 Genomic DNA Translation: EDL85636.1
CH474064 Genomic DNA Translation: EDL86583.1
CH474064 Genomic DNA Translation: EDL86588.1

NCBI Reference Sequences

More...RefSeqi		NP_001101168.1, NM_001107698.1
XP_006222460.2, XM_006222398.2
XP_006254041.2, XM_006253979.2
XP_008769899.1, XM_008771677.2
XP_008772193.1, XM_008773971.2
XP_017443211.1, XM_017587722.1
XP_017456207.1, XM_017600718.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSRNOT00000040906; ENSRNOP00000044600; ENSRNOG00000028975
ENSRNOT00000072119; ENSRNOP00000065312; ENSRNOG00000045646
ENSRNOT00000074024; ENSRNOP00000067504; ENSRNOG00000049198
ENSRNOT00000074292; ENSRNOP00000066277; ENSRNOG00000050478
ENSRNOT00000074763; ENSRNOP00000067675; ENSRNOG00000045644
ENSRNOT00000081042; ENSRNOP00000071260; ENSRNOG00000053081
ENSRNOT00000085945; ENSRNOP00000070519; ENSRNOG00000060366
ENSRNOT00000089055; ENSRNOP00000074347; ENSRNOG00000061185

Database of genes from NCBI RefSeq genomes

More...GeneIDi		102548682
102549173
310678
684762

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		rno:102548682
rno:102549173
rno:310678
rno:684762

<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.
AABR07012583 Genomic DNA No translation available.
AABR07027752 Genomic DNA No translation available.
AABR07027753 Genomic DNA No translation available.
AC130391 Genomic DNA No translation available.
CH474015 Genomic DNA Translation: EDL85636.1
CH474064 Genomic DNA Translation: EDL86583.1
CH474064 Genomic DNA Translation: EDL86588.1
RefSeqiNP_001101168.1, NM_001107698.1
XP_006222460.2, XM_006222398.2
XP_006254041.2, XM_006253979.2
XP_008769899.1, XM_008771677.2
XP_008772193.1, XM_008773971.2
XP_017443211.1, XM_017587722.1
XP_017456207.1, XM_017600718.1

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-protein interaction databases

STRINGi10116.ENSRNOP00000067675

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000040906; ENSRNOP00000044600; ENSRNOG00000028975
ENSRNOT00000072119; ENSRNOP00000065312; ENSRNOG00000045646
ENSRNOT00000074024; ENSRNOP00000067504; ENSRNOG00000049198
ENSRNOT00000074292; ENSRNOP00000066277; ENSRNOG00000050478
ENSRNOT00000074763; ENSRNOP00000067675; ENSRNOG00000045644
ENSRNOT00000081042; ENSRNOP00000071260; ENSRNOG00000053081
ENSRNOT00000085945; ENSRNOP00000070519; ENSRNOG00000060366
ENSRNOT00000089055; ENSRNOP00000074347; ENSRNOG00000061185
GeneIDi102548682
102549173
310678
684762
KEGGirno:102548682
rno:102549173
rno:310678
rno:684762

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		97114
RGDi1306445 Hist2h3c2
7725170 LOC102548682
7709329 LOC102549173
1586732 LOC684762
1584042 LOC690126

Phylogenomic databases

eggNOGiKOG1745 Eukaryota
COG2036 LUCA
GeneTreeiENSGT00960000186578
KOiK11253
K11254
OMAiCQILANH
OrthoDBi1564596at2759
TreeFamiTF314241

Enzyme and pathway databases

ReactomeiR-RNO-1266695 Interleukin-7 signaling
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-3214841 PKMTs methylate histone lysines
R-RNO-3214842 HDMs demethylate histones
R-RNO-3214847 HATs acetylate histones
R-RNO-3214858 RMTs methylate histone arginines
R-RNO-3247509 Chromatin modifying enzymes
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-73728 RNA Polymerase I Promoter Opening
R-RNO-73772 RNA Polymerase I Promoter Escape
R-RNO-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-RNO-9018519 Estrogen-dependent gene expression
R-RNO-983231 Factors involved in megakaryocyte development and platelet production

Gene expression databases

BgeeiENSRNOG00000028975 Expressed in 7 organ(s), highest expression level in adult mammalian kidney

Family and domain databases

Gene3Di1.10.20.10, 1 hit
InterProiView protein in InterPro
IPR009072 Histone-fold
IPR007125 Histone_H2A/H2B/H3
IPR000164 Histone_H3/CENP-A
PANTHERiPTHR11426 PTHR11426, 1 hit
PfamiView protein in Pfam
PF00125 Histone, 1 hit
PRINTSiPR00622 HISTONEH3
SMARTiView protein in SMART
SM00428 H3, 1 hit
SUPFAMiSSF47113 SSF47113, 1 hit
PROSITEiView protein in PROSITE
PS00322 HISTONE_H3_1, 1 hit
PS00959 HISTONE_H3_2, 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 nameiD3ZJ08_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: D3ZJ08
<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/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: July 31, 2019
This is version 104 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 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

Complete proteome, Reference proteomeImported
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Main funding by: National Institutes of Health

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