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Protein

Histone H3.3 type 2

Gene

his-72

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Variant histone H3 which replaces conventional H3 in a wide range of nucleosomes in active genes. Constitutes the predominant form of histone H3 in non-dividing cells and is incorporated into chromatin independently of DNA synthesis. Deposited at sites of nucleosomal displacement throughout transcribed genes, suggesting that it represents an epigenetic imprint of transcriptionally active chromatin. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.1 Publication

GO - Molecular functioni

Complete GO annotation...

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H3.3 type 2
Gene namesi
Name:his-72
ORF Names:Y49E10.6
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome III

Organism-specific databases

WormBaseiY49E10.6a; CE22223; WBGene00001946; his-72.

Subcellular locationi

  • Nucleus 1 Publication
  • Chromosome 1 Publication

  • Note: Depleted from the meiotically silenced X chromosome.

GO - Cellular componenti

  • nucleosome Source: WormBase
  • nucleus Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 136135Histone H3.3 type 2PRO_0000268632Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei5 – 51N6,N6,N6-trimethyllysine; alternateBy similarity
Modified residuei5 – 51N6,N6-dimethyllysine; alternateBy similarity
Modified residuei5 – 51N6-acetyllysine; alternateBy similarity
Modified residuei5 – 51N6-methyllysine; alternateBy similarity
Modified residuei10 – 101N6,N6,N6-trimethyllysine; alternateBy similarity
Modified residuei10 – 101N6,N6-dimethyllysine; alternateBy similarity
Modified residuei10 – 101N6-acetyllysine; alternateBy similarity
Modified residuei11 – 111PhosphoserineBy similarity
Modified residuei15 – 151N6-acetyllysineBy similarity
Modified residuei24 – 241N6-acetyllysineBy similarity
Modified residuei28 – 281N6,N6,N6-trimethyllysine; alternateBy similarity
Modified residuei28 – 281N6,N6-dimethyllysine; alternateBy similarity
Modified residuei28 – 281N6-methyllysine; alternateBy similarity
Modified residuei29 – 291PhosphoserineBy similarity
Modified residuei37 – 371N6,N6,N6-trimethyllysine; alternateBy similarity
Modified residuei37 – 371N6-methyllysine; alternateBy similarity
Modified residuei80 – 801N6-methyllysineBy similarity

Post-translational modificationi

Acetylation is generally linked to gene activation.By similarity
Methylation at Lys-5 is linked to gene activation. Methylation at Lys-10 is linked to gene repression (By similarity).By similarity

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

EPDiQ9U281.
PaxDbiQ9U281.

Expressioni

Tissue specificityi

Highly expressed in nearly all larval and adult nuclei. Expressed only at low levels in intestine. Expressed throughout all stages of gametogenesis.1 Publication

Developmental stagei

Present at all embryonic stages (at protein level).1 Publication

Gene expression databases

ExpressionAtlasiQ9U281. baseline.

Interactioni

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.

Protein-protein interaction databases

BioGridi41839. 3 interactions.
DIPiDIP-26716N.
IntActiQ9U281. 1 interaction.
MINTiMINT-1119612.
STRINGi6239.F45E1.6.2.

Structurei

3D structure databases

ProteinModelPortaliQ9U281.
SMRiQ9U281. Positions 17-136.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H3 family.Curated

Phylogenomic databases

eggNOGiKOG1745. Eukaryota.
COG2036. LUCA.
HOGENOMiHOG000155290.
InParanoidiQ9U281.
PhylomeDBiQ9U281.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_H2A/H2B/H3.
IPR000164. Histone_H3/CENP-A.
[Graphical view]
PANTHERiPTHR11426. PTHR11426. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00622. HISTONEH3.
SMARTiSM00428. H3. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00322. HISTONE_H3_1. 1 hit.
PS00959. HISTONE_H3_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9U281-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARTKQTARK STGGKAPRKQ LATKAARKSA PTTGGVKKPH RYRPGTVALR
60 70 80 90 100
EIRRYQKSTE LLIRKLPFQR LVREIAQDFK TDLRFQSAAI GALQEASEAY
110 120 130
LVGLFEDTNL CAIHAKRVTI MPKDMQLARR IRGERA
Length:136
Mass (Da):15,360
Last modified:January 23, 2007 - v3
Checksum:i57E8809451022E77
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z98866 Genomic DNA. Translation: CAB11546.1.
PIRiT27037.
RefSeqiNP_001255163.1. NM_001268234.1.
UniGeneiCel.38653.

Genome annotation databases

EnsemblMetazoaiY49E10.6a; Y49E10.6a; WBGene00001946.
GeneIDi176660.
UCSCiY49E10.6.2. c. elegans.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z98866 Genomic DNA. Translation: CAB11546.1.
PIRiT27037.
RefSeqiNP_001255163.1. NM_001268234.1.
UniGeneiCel.38653.

3D structure databases

ProteinModelPortaliQ9U281.
SMRiQ9U281. Positions 17-136.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi41839. 3 interactions.
DIPiDIP-26716N.
IntActiQ9U281. 1 interaction.
MINTiMINT-1119612.
STRINGi6239.F45E1.6.2.

Proteomic databases

EPDiQ9U281.
PaxDbiQ9U281.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiY49E10.6a; Y49E10.6a; WBGene00001946.
GeneIDi176660.
UCSCiY49E10.6.2. c. elegans.

Organism-specific databases

CTDi176660.
WormBaseiY49E10.6a; CE22223; WBGene00001946; his-72.

Phylogenomic databases

eggNOGiKOG1745. Eukaryota.
COG2036. LUCA.
HOGENOMiHOG000155290.
InParanoidiQ9U281.
PhylomeDBiQ9U281.

Miscellaneous databases

NextBioi893500.
PROiQ9U281.

Gene expression databases

ExpressionAtlasiQ9U281. baseline.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_H2A/H2B/H3.
IPR000164. Histone_H3/CENP-A.
[Graphical view]
PANTHERiPTHR11426. PTHR11426. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00622. HISTONEH3.
SMARTiSM00428. H3. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00322. HISTONE_H3_1. 1 hit.
PS00959. HISTONE_H3_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.
  2. "Histone H3.3 variant dynamics in the germline of Caenorhabditis elegans."
    Ooi S.L., Priess J.R., Henikoff S.
    PLoS Genet. 2:883-895(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiH332_CAEEL
AccessioniPrimary (citable) accession number: Q9U281
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 12, 2006
Last sequence update: January 23, 2007
Last modified: May 11, 2016
This is version 109 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.