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Protein

Histone H3

Gene

his-2

more
Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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

Complete GO annotation...

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-CEL-2559580. Oxidative Stress Induced Senescence.
R-CEL-5578749. Transcriptional regulation by small RNAs.
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

GO - Cellular componenti

Complete GO annotation...

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.

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

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
Beta strandi25 – 27Combined 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.
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.

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.

Cross-referencesi

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.

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...

Protein-protein interaction databases

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

PTM databases

iPTMnetiP08898.

Proteomic databases

PaxDbiP08898.
PeptideAtlasiP08898.
PRIDEiP08898.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

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.

Organism-specific databases

CTDi13221387.
175030.
175031.
177628.
180074.
181821.
184113.
184200.
184804.
186250.
186325.
191668.
191672.
191673.
246024.
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.

Phylogenomic databases

eggNOGiKOG1745. Eukaryota.
COG2036. LUCA.
HOGENOMiHOG000155290.
InParanoidiP08898.
KOiK11253.
OrthoDBiEOG091G0XGD.
PhylomeDBiP08898.

Enzyme and pathway databases

ReactomeiR-CEL-2559580. Oxidative Stress Induced Senescence.
R-CEL-5578749. Transcriptional regulation by small RNAs.
R-CEL-983231. Factors involved in megakaryocyte development and platelet production.

Miscellaneous databases

EvolutionaryTraceiP08898.
PROiP08898.

Gene expression databases

BgeeiWBGene00001876.

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...

Entry informationi

Entry nameiH3_CAEEL
AccessioniPrimary (citable) accession number: P08898
Secondary accession number(s): Q9TW44
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: January 23, 2007
Last modified: November 30, 2016
This is version 150 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

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

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.