Detailed view for PF3D7_1033400

Basic information

TDR Targets ID: 1399
Plasmodium falciparum, haloacid dehalogenase-like hydrolase
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.8037 | Length (AA): 288 | MW (Da): 32842 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF08282   haloacid dehalogenase-like hydrolase

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0016787   hydrolase activity  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 4 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
11 288 2b30 (A) 17 299 30.00 0 1 1.46 -1.14
22 285 1ymq (A) 3 258 23.00 0 1 1.24 -1.33
1 288 4zev (A) 1 288 99.99 0 1 2.2858 -1.96
1 288 4zev (A) 1 288 99.00 0 1 2.2763 -1.97

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

PDB tag
  • 4QJB:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4ZEV:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4ZEW:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4ZEX:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early ring, early trophozoite, late ring, late trophozoite, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile sporozoite, early schizont, late schizont, Male Gametocyte. PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Sporozoite, Female Gametocyte. Zanghi G Lasonder E
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_127435)

Species Accession Gene Product
Arabidopsis thaliana AT2G25870   haloacid dehalogenase-like hydrolase family protein
Babesia bovis BBOV_IV003220   HAD superfamily hydrolase, putative
Cryptosporidium hominis Chro.10376   ht-1080 protein
Cryptosporidium parvum cgd1_3340   conserved hypothetical protein
Dictyostelium discoideum DDB_G0277745   HAD superfamily hydrolase-like, type 3
Escherichia coli b3826   pyridoxal phosphate phosphatase
Escherichia coli b3697   sugar phosphate phosphatase
Entamoeba histolytica EHI_003000   hypothetical protein, conserved
Leishmania braziliensis LbrM.28.1520   haloacid dehalogenase-like hydrolase, putative
Leishmania braziliensis LbrM.28.1490   haloacid dehalogenase-like hydrolase-like protein
Leishmania braziliensis LbrM.28.1510   haloacid dehalogenase-like hydrolase-like protein
Leishmania donovani LdBPK_281470.1   haloacid dehalogenase-like hydrolase-like protein
Leishmania donovani LdBPK_281460.1   haloacid dehalogenase-like hydrolase-like protein
Leishmania donovani LdBPK_281480.1   haloacid dehalogenase-like hydrolase, putative
Leishmania infantum LinJ.28.1460   haloacid dehalogenase-like hydrolase-like protein
Leishmania infantum LinJ.28.1480   haloacid dehalogenase-like hydrolase, putative
Leishmania infantum LinJ.28.1470   haloacid dehalogenase-like hydrolase-like protein
Leishmania major LmjF.28.1370   haloacid dehalogenase-like hydrolase, putative
Leishmania major LmjF.28.1350   haloacid dehalogenase-like hydrolase-like protein
Leishmania major LmjF.28.1360   haloacid dehalogenase-like hydrolase-like protein
Leishmania mexicana LmxM.28.1350   haloacid dehalogenase-like hydrolase-like protein
Leishmania mexicana LmxM.28.1370   haloacid dehalogenase-like hydrolase, putative
Leishmania mexicana LmxM.28.1360   haloacid dehalogenase-like hydrolase-like protein
Mycobacterium leprae ML0089   Conserved hypothetical protein
Mycobacterium tuberculosis Rv3813c   Conserved protein
Mycobacterium ulcerans MUL_4996   hypothetical protein
Neospora caninum NCLIV_030250   hypothetical protein
Neospora caninum NCLIV_018510   Hydrolase Cof, related
Oryza sativa 4327201   Os01g0739400
Oryza sativa 4346956   Os09g0388400
Plasmodium berghei PBANKA_0517200   haloacid dehalogenase-like hydrolase, putative
Plasmodium falciparum PF3D7_1033400   haloacid dehalogenase-like hydrolase
Plasmodium knowlesi PKNH_0618200   haloacid dehalogenase-like hydrolase, putative
Plasmodium vivax PVX_111055   haloacid dehalogenase-like hydrolase, putative
Plasmodium yoelii PY03150   Cof-like hydrolase, HAD-superfamily, subfamily IIB
Schmidtea mediterranea mk4.058761.00  
Trypanosoma brucei gambiense Tbg972.11.9610   haloacid dehalogenase-like hydrolase, putative
Trypanosoma brucei Tb927.11.8440   haloacid dehalogenase-like hydrolase, putative
Trypanosoma congolense TcIL3000.11.8960   haloacid dehalogenase-like hydrolase, putative
Trypanosoma cruzi TcCLB.506931.10   haloacid dehalogenase-like hydrolase, putative
Trypanosoma cruzi TcCLB.510131.40   haloacid dehalogenase-like hydrolase, putative
Toxoplasma gondii TGME49_229320   Cof family hydrolase subfamily protein
Toxoplasma gondii TGME49_243910   Cof family hydrolase subfamily protein
Toxoplasma gondii TGME49_229330   Cof family hydrolase subfamily protein
Treponema pallidum TP0290   hypothetical protein
Theileria parva TP01_1083   hypothetical protein, conserved

Essentiality

PF3D7_1033400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0120 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.0120 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.0120 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.0120 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b3697 Escherichia coli non-essential goodall
b3826 Escherichia coli non-essential goodall
PBANKA_0517200 Plasmodium berghei Dispensable plasmo
TGME49_229330 Toxoplasma gondii Probably non-essential sidik
TGME49_229320 Toxoplasma gondii Probably non-essential sidik
TGME49_243910 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

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Gene identifier PF3D7_1033400 (Plasmodium falciparum), haloacid dehalogenase-like hydrolase
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