Genome location: Pf3D7_09_v3:1,028,046..1,031,647(-)
Genome classification: Core
Product Description: histone deacetylase 1
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: 3.5.1.98 (Histone deacetylase)
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0005634 | nucleus |
| Function | GO:0004407 | histone deacetylase activity |
| Function | GO:0005515 | protein binding |
| Function | GO:0046625 | sphingolipid binding |
| Process | GO:0035690 | cellular response to drug |
| Process | GO:0016575 | histone deacetylation |
| Process | GO:0009410 | response to xenobiotic stimulus |
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 | 0.05 | 0.97 |
| Trophozoite | expressed | 0.12 | 0.92 |
| Schizont | expressed | 0.06 | 0.95 |
| Gametocyte | expressed | 0.22 | 0.87 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_0925700
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
MIS: 0.128 | MFS: -2.762 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0826500)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q7K6A1
"Best" AlphaFill ligand hit: DMF (dimethylformamide, Local RMSD=0.02) with 4CQF (Global RMSD=3.05)
BRENDA EC Inhibitors:
| EC # | Name | EC Inhibitors |
|---|---|---|
| 3.5.1.98 | histone deacetylase | EDTAPAOASAHAFOXPFK228MCP30shRNAsiRNAMS-275LAQ824MC1575MC1568... |
Orthology to BindingDB Entries:
| UniProt | Protein Name | Species | Homology Source | BindingDB Ligands |
|---|---|---|---|---|
| Q7K6A1 | Histone deacetylase | Plasmodium falciparum (isolate 3D7) | HOGENOM, OMA, OrthoDB, OrthoMCL, OrthoMCL BLAST | Trichostatin A (TSA)VorinostatPanobinostatbenzamide-type inhibitor, 3... |
| Q4QQW4 | Histone deacetylase 1 | Rattus norvegicus | HOGENOM, OrthoDB | CHEMBL3319215CHEMBL360194CHEMBL263884CHEMBL260080... |
| O09106 | Histone deacetylase 1 | Mus musculus | HOGENOM, OrthoDB | US8476255, 15US8476255, 19US8476255, 22US8476255, 28... |
| Q92769 | Histone deacetylase 2 | Homo sapiens | HOGENOM, OrthoDB | benzamide-type inhibitor, 3benzamide-type inhibitor, 4benzamide-type inhibitor, 9benzamide-type inhibitor, 10... |
| Q13547 | Histone deacetylase 1 | Homo sapiens | HOGENOM, OrthoDB | Trichostatin A (TSA)NCH-31thiolate analogue, 13athiolate analogue, 15a... |
| O15379 | Histone deacetylase 3 | Homo sapiens | OMA, OrthoDB | CI-994benzamide-type inhibitor, 22DacinostatVorinostat... |
| Q9BY41 | Histone deacetylase 8 | Homo sapiens | OrthoDB | DacinostatVorinostatTubacinNK308... |
| Q8VH37 | Histone deacetylase 8 | Mus musculus | OrthoDB | CHEMBL1790586Trichostatin A (TSA)CHEMBL1790596CHEMBL1790599 |
| Q9ZTP8 | Histone deacetylase | Zea mays | OrthoDB | VorinostatCHEMBL217546CHEMBL217545Vorinostat... |
| A0A7G2HKG3 | Histone deacetylase | Cryptosporidium parvum | OrthoMCL BLAST | CHEMBL1793980CHEMBL1793967CHEMBL1793982CHEMBL1793981... |
Ortholog Group (OrthoMCL): OG6_100248
Most Similar Human Ortholog: H3BM24
TM-align score: 0.99 | RMSD: 0.55
Seq Identity: 0.63 | Length: 161 / 449
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000116478 | histone deacetylase 1 |
| ENSG00000171720 | histone deacetylase 3 |
| ENSG00000196591 | histone deacetylase 2 |
Protein Length: 449 | Molecular Weight (kDa): 51.376
PDB ID(s): None
Isoelectric Point: 6.31
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR000286 | Histone deacetylase family |
| InterPro | IPR003084 | Histone deacetylase |
| InterPro | IPR023696 | Ureohydrolase domain superfamily |
| InterPro | IPR023801 | Histone deacetylase domain |
| PFam | PF00850 | Histone deacetylase domain |
| Superfamily | SSF52768 | Ureohydrolase domain superfamily |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
No passing variants found
PlasmoDB Total SNPs: 228
Non-coding: 220 | Synonymous: 7 | Nonsynonymous: 1 | Stop Codon: 0
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 10215020 | Molecular cloning and nuclear localization of a histone deacetylase homologue inPlasmodium falciparum. | Joshi MB, Lin DT, ..., Syin C | https://pubmed.ncbi.nlm.nih.gov/10215020/ |
| 12368867 | Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13. | Hall N, Pain A, ..., Barrell BG | 10.1038/nature01095 |
| 19317450 | Identification and characterization of small molecule inhibitors of a class Ihistone deacetylase from Plasmodium falciparum. | Patel V, Mazitschek R, ..., Clardy J | 10.1021/jm801654y |
| 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 |
| 30682336 | Proteomic analysis of Plasmodium falciparum histone deacetylase 1 complexproteins. | Engel JA, Norris EL, ..., Andrews KT | 10.1016/j.exppara.2019.01.008 |