Product Description: histone H2B variant
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: None
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0000791 | euchromatin |
| Component | GO:1903561 | extracellular vesicle |
| Component | GO:0000786 | nucleosome |
| Component | GO:0005634 | nucleus |
| Function | GO:0003677 | DNA binding |
| Process | GO:0006333 | chromatin assembly or disassembly |
| Process | GO:0006334 | nucleosome assembly |
Expression by stage (LR - Le Roch et al., and MCA - Malaria Cell Atlas):
| Stage | LR class | MCA mean | MCA prop. zeros |
|---|---|---|---|
| Sporozoite | expressed | N/A | N/A |
| Ring | expressed | 0.43 | 0.78 |
| Trophozoite | expressed | 0.67 | 0.63 |
| Schizont | expressed | 1.09 | 0.45 |
| Gametocyte | expressed | 0.35 | 0.79 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_0714000
Resistome Missense Mutations: None
Resistome Compounds with Missense Mutations: None
Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)
Zhang Phenotype: Non - Mutable in CDS *tentative
MIS: 0.769 | MFS: -2.375 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1420600)
RMgmDB ABS Phenotype: Not tested (Pb ortholog: PBANKA_1420600)
Modification: Tagged | RMgm-638
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8IBV7
"Best" AlphaFill ligand hit: RU7 (para-cymene ruthenium chloride, Local RMSD=0.01) with 4J8X (Global RMSD=0.98)
No associated EC numbersNo evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_100082
Most Similar Human Ortholog: U3KQK0
TM-align score: 0.79 | RMSD: 0.92
Seq Identity: 0.66 | Length: 101 / 123
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000124635 | H2B clustered histone 11 |
| ENSG00000146047 | H2B clustered histone 1 |
| ENSG00000158373 | H2B clustered histone 5 |
| ENSG00000180596 | H2B clustered histone 4 |
| ENSG00000184678 | H2B clustered histone 21 |
| ENSG00000185130 | H2B clustered histone 13 |
| ENSG00000196890 | H2B.U histone 1 |
| ENSG00000197903 | H2B clustered histone 12 |
| ENSG00000203814 | H2B clustered histone 18 |
| ENSG00000233822 | H2B clustered histone 15 |
| ENSG00000273703 | H2B clustered histone 14 |
| ENSG00000273802 | H2B clustered histone 8 |
| ENSG00000274290 | H2B clustered histone 6 |
| ENSG00000274641 | H2B clustered histone 17 |
| ENSG00000275713 | H2B clustered histone 9 |
| ENSG00000276410 | H2B clustered histone 3 |
| ENSG00000277224 | H2B clustered histone 7 |
| ENSG00000278588 | H2B clustered histone 10 |
| ENSG00000285449 | H2B.U histone 1 |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 0 | 0 | 0 | 0 |
| disruptive | 0 | 0 | 0 | 0 |
| missense | 0 | 0 | 0 | 0 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 0 | 0 | 0 | 0 |
| disruptive | 0 | 0 | 1 | 2 |
| missense | 0 | 0 | 0 | 0 |
PlasmoDB Total SNPs: 79
Non-coding: 77 | Synonymous: 2 | Nonsynonymous: 0 | Stop Codon: 0
Protein Length: 123 | Molecular Weight (kDa): 13.763
UniProt ID(s): Q8IBV7
PDB ID(s): None
Isoelectric Point: 11.48
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR000558 | Histone H2B |
| InterPro | IPR007125 | Histone H2A/H2B/H3 |
| InterPro | IPR009072 | Histone-fold |
| PFam | PF00125 | Histone H2A/H2B/H3 |
| Superfamily | SSF47113 | Histone-fold |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 23181666 | Organellar proteomics reveals hundreds of novel nuclear proteins in the malariaparasite Plasmodium falciparum. | Oehring SC, Woodcroft BJ, ..., Voss TS | 10.1186/gb-2012-13-11-r108 |
| 23320541 | H2A.Z/H2B.Z double-variant nucleosomes inhabit the AT-rich promoter regions ofthe Plasmodium falciparum genome. | Hoeijmakers WA, Salcedo-Amaya AM, ..., Bartfai R | 10.1111/mmi.12151 |
| 23373537 | H2A.Z and H2B.Z double-variant nucleosomes define intergenic regions anddynamically occupy var gene promoters in the malaria parasite Plasmodiumfalciparum. | Petter M, Selvarajah SA, ..., Duffy MF | 10.1111/mmi.12154 |
| 28944300 | Proteomic analysis of extracellular vesicles from a Plasmodium falciparum Kenyanclinical isolate defines a core parasite secretome. | Abdi A, Yu L, ..., Rayner J | 10.12688/wellcomeopenres.11910.2 |
| 30379851 | Identification of Plasmodium falciparum nuclear proteins by mass spectrometry andproposed protein annotation. | Briquet S, Ourimi A, ..., Vaquero C | 10.1371/journal.pone.0205596 |
| 37882786 | The P. falciparum alternative histones Pf H2A.Z and Pf H2B.Z are dynamicallyacetylated and antagonized by PfSir2 histone deacetylases at heterochromatinboundaries | Azizan S, Selvarajah SA, ..., Duffy MF | 10.1128/mbio.02014-23 |
| 35164683 | Genome-wide localization of histone variants in Toxoplasma gondii implicatesvariant exchange in stage-specific gene expression | Nardelli SC, Silmon de Monerri NC, ..., Kim K | 10.1186/s12864-022-08338-6 |
| 37217032 | Histone variant H2B.Z acetylation is necessary for maintenance of Toxoplasmagondii biological fitness | Vanagas L, Munoz D, ..., Angel SO | 10.1016/j.bbagrm.2023.194943 |
| 36135316 | Architecture, Chromatin and Gene Organization of Toxoplasma gondii Subtelomeres | Contreras SM, Zambrano Siri RT, ..., Angel SO | 10.3390/epigenomes6030029 |
| 37013531 | Plasmodium falciparum gametocytes display global chromatin remodelling duringsexual differentiation | Jeninga MD, Tang J, ..., Petter M | 10.1186/s12915-023-01568-4 |
| 36824796 | Histone variant H2B.Z acetylation is necessary for maintenance of Toxoplasmagondii biological fitness | Vanagas L, Munoz D, ..., Angel SO | 10.1101/2023.02.14.528480 |
| 25286383 | Canonical histone H2Ba and H2A.X dimerize in an opposite genomic localization toH2A.Z/H2B.Z dimers in Toxoplasma gondii | Bogado SS, Dalmasso MC, ..., Vanagas L | 10.1016/j.molbiopara.2014.09.009 |
| 38354788 | Mechanisms of adaptation and evolution in Toxoplasma gondii | Angel SO, Vanagas L, Alonso AM | 10.1016/j.molbiopara.2024.111615 |