Tbio H3F3A Histone H3.3

Protein Summary

Description

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. Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. This gene contains introns and its mRNA is polyadenylated, unlike most histone genes. The protein encoded is a replication-independent member of the histone H3 family. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• P84243
• P06351
• P33155
• Q5VV55
• Q5VV56
• Q66I33
• Q9V3W4

Gene Name

• H3F3A

Ensembl ID

• ENST00000254810
• ENSP00000254810
• ENSG00000132475
• ENST00000366813
• ENSP00000355778
• ENSG00000163041
• ENST00000366815
• ENSP00000355780
• ENST00000366816
• ENSP00000355781
• ENST00000586607
• ENSP00000466020
• ENST00000587560
• ENSP00000468714
• ENST00000589599
• ENSP00000465813

Symbol

• H3.3A
• H3F3
• H3F3
• H3.3A

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
cellular component	0.98
kinase	0.98
transcription factor perturbation	0.98
transcription factor binding site profile	0.97
kinase perturbation	0.93

Protein Classes

No PANTHER Classes or DTO Classes found

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 191.13   (req: < 5)

Gene RIFs: 46   (req: <= 3)

Antibodies: 501   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 191.13   (req: >= 5)

Gene RIFs: 46   (req: > 3)

Antibodies: 501   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 30

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Expression Data (0 Tissues)

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No expression data found

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Target Illumination GWAS Analytics (TIGA)

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GENEVA

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GlyGen

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (263)

Explore Interacting Targets

1 – 10 of 263

• See Interactions on String-DB

LACC1

Tbio

Family:  Enzyme

Novelty:  0.03928871

p_int:  0.999999933

p_ni:  6.6e-8

p_wrong:  1e-9

Data Source:  BioPlex

KIF3A

Tbio

Novelty:  0.00555124

p_int:  0.999999876

p_ni:  6.3e-8

p_wrong:  6.2e-8

Data Source:  BioPlex

SGO2

Tbio

Novelty:  0.05544423

p_int:  0.999656444

p_ni:  2.93e-7

p_wrong:  0.000343263

Data Source:  BioPlex

NASP

Tbio

Novelty:  0.00902599

p_int:  0.990936769

p_ni:  3.5e-8

p_wrong:  0.009063196

Score:  0.647

Data Source:  BioPlex,STRINGDB

HIST1H4A

Tchem

Novelty:  0.00279614

Score:  0.993

Data Source:  Reactome,STRINGDB

HIST1H3A

Tbio

Novelty:  0.00991842

Score:  0.989

Data Source:  Reactome,STRINGDB

HIST3H3

Tbio

Novelty:  0.04915012

Score:  0.989

Data Source:  STRINGDB

CENPA

Tbio

Novelty:  0.00154245

Score:  0.985

Data Source:  STRINGDB

UBN1

Tbio

Novelty:  0.01703683

Score:  0.985

Data Source:  STRINGDB

H2AFZ

Tbio

Novelty:  0.00222512

Score:  0.981

Data Source:  STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (68)

Reactome (56)

KEGG (3)

PathwayCommons (3)

WikiPathways (6)

Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 (R-HSA-5625886)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3	36 targets	R-HSA-5625886
Reactome	Activation of HOX genes during differentiation	90 targets	R-HSA-5619507
Reactome	Activation of anterior HOX genes in hindbrain development during early embryogenesis	90 targets	R-HSA-5617472
Reactome	Amyloid fiber formation	79 targets	R-HSA-977225
Reactome	B-WICH complex positively regulates rRNA expression	61 targets	R-HSA-5250924

Name	Explore in Pharos	Explore in Source
Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3	36 targets	R-HSA-5625886
Activation of HOX genes during differentiation	90 targets	R-HSA-5619507
Activation of anterior HOX genes in hindbrain development during early embryogenesis	90 targets	R-HSA-5617472
Amyloid fiber formation	79 targets	R-HSA-977225
B-WICH complex positively regulates rRNA expression	61 targets	R-HSA-5250924

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (40)

Functions (4)

Components (10)

Processes (26)

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1 – 4 of 4

GO Term	Evidence	Assigned by
nucleosomal DNA binding	Inferred from Direct Assay (IDA)	UniProtKB
RNA polymerase II core promoter sequence-specific DNA binding	Inferred from Direct Assay (IDA)	UniProtKB
RNA polymerase II distal enhancer sequence-specific DNA binding	Inferred from Direct Assay (IDA)	UniProtKB
protein heterodimerization activity	Inferred from Electronic Annotation (IEA)	InterPro

Disease Associations ()

No disease associations found

GWAS Traits (18)

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1 – 5 of 18

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
sex hormone-binding globulin measurement	EFO_0004696	6	3	6		93.3
low density lipoprotein cholesterol measurement	EFO_0004611	6	4	6		91.7
white matter hyperintensity measurement	EFO_0005665	3	1	3		81.3
eosinophil count	EFO_0004842	3	2	3		79
mean platelet volume	EFO_0004584	1	1	1		72.3

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 5 of 18

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
sex hormone-binding globulin measurement	EFO_0004696	6		93.3
low density lipoprotein cholesterol measurement	EFO_0004611	6		91.7
white matter hyperintensity measurement	EFO_0005665	3		81.3
eosinophil count	EFO_0004842	3		79
mean platelet volume	EFO_0004584	1		72.3

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UniProt Keyword Find Similar Targets

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3D-structure
Acetylation
ADP-ribosylation
Chromosome
Citrullination
Complete proteome
Direct protein sequencing
Disease mutation
DNA-binding
Hydroxylation

GWAS Trait Find Similar Targets

No Header	No Header
apolipoprotein A 1 measurement
apolipoprotein B measurement
body height
body mass index
eosinophil count
eosinophil percentage of leukocytes
leukocyte count
low density lipoprotein cholesterol measurement
mean corpuscular volume
mean platelet volume

MGI Phenotype Find Similar Targets

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behavior/neurological phenotype
growth/size/body region phenotype
mortality/aging
reproductive system phenotype

IDG Resources

No IDG generated resources found

Orthologs (5)

1 – 5 of 5

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Mouse	H3 histone, family 3A	MGI:1097686	15078
Pig	H3 histone, family 3A		396970
Opossum	H3 histone, family 3B		100022653
Zebrafish	H3 histone, family 3A	ZDB-GENE-040426-1928	406269
C. elegans	Histone H3.3 type 1		181057

Species	Name	OMA	EggNOG	Inparanoid
Mouse	H3 histone, family 3A
Pig	H3 histone, family 3A
Opossum	H3 histone, family 3B
Zebrafish	H3 histone, family 3A
C. elegans	Histone H3.3 type 1

Publication Statistics

PubMed Score 191.13

PubMed score by year

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PubTator Score 73.68

PubTator score by year

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Related Publications

Text Mined References (115)

GeneRif Annotations (46)

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PMID	Year	Title