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Protein

Histone H3

Gene

his-2

more
Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Core component of nucleosome. 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.

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding

Enzyme and pathway databases

ReactomeiR-CEL-212300 PRC2 methylates histones and DNA
R-CEL-2299718 Condensation of Prophase Chromosomes
R-CEL-2559580 Oxidative Stress Induced Senescence
R-CEL-3214815 HDACs deacetylate histones
R-CEL-3214841 PKMTs methylate histone lysines
R-CEL-3214842 HDMs demethylate histones
R-CEL-3214847 HATs acetylate histones
R-CEL-3214858 RMTs methylate histone arginines
R-CEL-427359 SIRT1 negatively regulates rRNA expression
R-CEL-5578749 Transcriptional regulation by small RNAs
R-CEL-5625886 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
R-CEL-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-CEL-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-CEL-9018519 Estrogen-dependent gene expression
R-CEL-983231 Factors involved in megakaryocyte development and platelet production

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H3
Gene namesi
Name:his-2
ORF Names:T10C6.13
AND
Name:his-6
ORF Names:F45F2.13
AND
Name:his-9
ORF Names:ZK131.3
AND
Name:his-13
ORF Names:ZK131.7
AND
Name:his-17
ORF Names:K06C4.5
AND
Name:his-25
ORF Names:ZK131.2
AND
Name:his-27
ORF Names:K06C4.13
AND
Name:his-32
ORF Names:F17E9.10
AND
Name:his-42
ORF Names:F08G2.3
AND
Name:his-45
ORF Names:B0035.10
AND
Name:his-49
ORF Names:F07B7.5
AND
Name:his-55
ORF Names:F54E12.1
AND
Name:his-59
ORF Names:F55G1.2
AND
Name:his-63
ORF Names:F22B3.2
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componentsi: Chromosome II, Chromosome IV, Chromosome V

Organism-specific databases

WormBaseiB0035.10 ; CE03253 ; WBGene00001919 ; his-45
F07B7.5 ; CE03253 ; WBGene00001923 ; his-49
F08G2.3 ; CE03253 ; WBGene00001916 ; his-42
F17E9.10 ; CE03253 ; WBGene00001906 ; his-32
F22B3.2 ; CE03253 ; WBGene00001937 ; his-63
F45F2.13 ; CE03253 ; WBGene00001880 ; his-6
F54E12.1 ; CE03253 ; WBGene00001929 ; his-55
F55G1.2 ; CE03253 ; WBGene00001933 ; his-59
K06C4.13 ; CE03253 ; WBGene00001901 ; his-27
K06C4.5 ; CE03253 ; WBGene00001891 ; his-17
T10C6.13 ; CE03253 ; WBGene00001876 ; his-2
ZK131.2 ; CE03253 ; WBGene00001899 ; his-25
ZK131.3 ; CE03253 ; WBGene00001883 ; his-9
ZK131.7 ; CE03253 ; WBGene00001887 ; his-13

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; Source: COMPARTMENTS

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00002212972 – 136Histone H3Add BLAST135

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei5N6,N6,N6-trimethyllysine; alternate4 Publications1
Modified residuei5N6,N6-dimethyllysine; alternate4 Publications1
Modified residuei5N6-acetyllysine; alternate1 Publication1
Modified residuei5N6-methyllysine; alternate4 Publications1
Modified residuei10N6,N6,N6-trimethyllysine; alternate6 Publications1
Modified residuei10N6,N6-dimethyllysine; alternate6 Publications1
Modified residuei10N6-acetyllysine; alternate2 Publications1
Modified residuei11Phosphoserine7 Publications1
Modified residuei15N6-acetyllysine3 Publications1
Modified residuei24N6-acetyllysine1 Publication1
Modified residuei28N6,N6,N6-trimethyllysine; alternate2 Publications1
Modified residuei28N6,N6-dimethyllysine; alternate2 Publications1
Modified residuei28N6-methyllysine; alternate2 Publications1
Modified residuei29Phosphoserine2 Publications1
Modified residuei37N6,N6,N6-trimethyllysine; alternate3 Publications1
Modified residuei37N6,N6-dimethyllysine; alternate3 Publications1
Modified residuei37N6-methyllysine; alternate3 Publications1
Modified residuei80N6-methyllysine1 Publication1

Post-translational modificationi

Phosphorylated at Ser-11 and Ser-29 during M phase. Phosphorylation of Ser-11 requires air-2 but not air-1. Dephosphorylated by gsp-1 and/or gsp-2 during chromosome segregation.7 Publications
Acetylation is generally linked to gene activation.By similarity
Methylation at Lys-5 is linked to gene activation and is absent from male inactive X chromosome chromatin. Methylation at Lys-10 is linked to gene repression and is enriched in male inactive X chromosome chromatin. Methylation at Lys-37 occurs on the entire length of autosomes during meiotic prophase. Trimethylation at Lys-10 and Lys-37 is specifically antagonized by jmjd-2. Dimethylation and trimethylation at Lys-28 occurs in all nuclei. The mes-2-mes-3-mes-6 complex may be responsible for Lys-28 methylation in most of the germline and in the early embryo.7 Publications

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

PaxDbiP08898
PeptideAtlasiP08898
PRIDEiP08898

PTM databases

iPTMnetiP08898

Expressioni

Gene expression databases

BgeeiWBGene00001876
ExpressionAtlasiP08898 baseline and differential

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.

GO - Molecular functioni

Protein-protein interaction databases

BioGridi42741, 1 interactor
45065, 3 interactors
50996, 1 interactor
IntActiP08898, 1 interactor
STRINGi6239.ZK131.7

Structurei

Secondary structure

1136
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 6Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3N9LX-ray2.80B2-16[»]
3N9NX-ray2.30B/C2-33[»]
3N9OX-ray2.31B2-16[»]
C2-18[»]
3N9PX-ray2.39B/C2-33[»]
3N9QX-ray2.30B2-16[»]
C20-36[»]
ProteinModelPortaliP08898
SMRiP08898
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP08898

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H3 family.Curated

Phylogenomic databases

eggNOGiKOG1745 Eukaryota
COG2036 LUCA
HOGENOMiHOG000155290
InParanoidiP08898
KOiK11253
OrthoDBiEOG091G0XGD
PhylomeDBiP08898

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

Sequencei

Sequence statusi: Complete.

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

P08898-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARTKQTARK STGGKAPRKQ LATKAARKSA PASGGVKKPH RYRPGTVALR
60 70 80 90 100
EIRRYQKSTE LLIRRAPFQR LVREIAQDFK TDLRFQSSAV MALQEACEAY
110 120 130
LVGLFEDTNL CAIHAKRVTI MPKDIQLARR IRGERA
Length:136
Mass (Da):15,376
Last modified:January 23, 2007 - v4
Checksum:i40D7DE0EF5BA6F1F
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti97C → A. 1
Natural varianti101L → I. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15634 Genomic DNA Translation: CAA33644.1
FO081018 Genomic DNA Translation: CCD68531.1
FO081059 Genomic DNA Translation: CCD68868.1
FO081135 Genomic DNA Translation: CCD69390.1
FO081223 Genomic DNA Translation: CCD70027.1
FO081551 Genomic DNA Translation: CCD72363.1
FO081551 Genomic DNA Translation: CCD72373.1
Z68336 Genomic DNA Translation: CAA92733.1
Z73102 Genomic DNA Translation: CAA97411.1
Z81495 Genomic DNA Translation: CAB04057.1
Z82271 Genomic DNA Translation: CAB05209.1
Z83245 Genomic DNA Translation: CAB05831.1
Z83245 Genomic DNA Translation: CAB05833.1
Z83245 Genomic DNA Translation: CAB05834.1
Z93388 Genomic DNA Translation: CAB07653.1
AF304122 mRNA Translation: AAG50235.1
PIRiS04241 HSKW3
RefSeqiNP_001263958.1, NM_001277029.1
NP_496890.1, NM_064489.1
NP_496894.1, NM_064493.5
NP_496895.1, NM_064494.1
NP_496899.1, NM_064498.1
NP_501204.1, NM_068803.3
NP_501407.1, NM_069006.3
NP_502134.1, NM_069733.3
NP_502138.1, NM_069737.1
NP_502153.1, NM_069752.3
NP_505199.1, NM_072798.1
NP_505276.1, NM_072875.1
NP_505292.1, NM_072891.1
NP_505297.1, NM_072896.3
NP_507033.1, NM_074632.3
UniGeneiCel.12716
Cel.12871
Cel.21447
Cel.21596
Cel.21806
Cel.21871
Cel.2350
Cel.27007
Cel.29106
Cel.29299
Cel.32605
Cel.32856
Cel.33056

Genome annotation databases

GeneIDi13221387
175030
175031
177628
180074
181821
184113
184200
184804
186250
186325
191668
191672
191673
246024
KEGGicel:CELE_B0035.10
cel:CELE_F07B7.5
cel:CELE_F08G2.3
cel:CELE_F17E9.10
cel:CELE_F22B3.2
cel:CELE_F45F2.13
cel:CELE_F54E12.1
cel:CELE_F55G1.2
cel:CELE_K03A1.1
cel:CELE_K06C4.13
cel:CELE_K06C4.5
cel:CELE_T10C6.13
cel:CELE_ZK131.2
cel:CELE_ZK131.3
cel:CELE_ZK131.7
UCSCiZK131.7 c. elegans

Similar proteinsi

Entry informationi

Entry nameiH3_CAEEL
AccessioniPrimary (citable) accession number: P08898
Secondary accession number(s): Q9TW44
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: January 23, 2007
Last modified: May 23, 2018
This is version 160 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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