Detailed view for PF3D7_0716600

Basic information

TDR Targets ID: 868
Plasmodium falciparum, cysteine desulfurase

Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.8448 | Length (AA): 546 | MW (Da): 64561 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: N | Predicted trans-membrane segments: 1

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

PF00266   Aminotransferase class-V

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0004123   cystathionine gamma-lyase activity  
GO:0003824   catalytic activity  
GO:0030170   pyridoxal phosphate binding  
GO:0008152   metabolic process  
GO:0006534   cysteine metabolic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
24 539 2gsa (A) 9 433 12.00 0 1 0.61 0.21
67 540 1t3i (A) 13 414 29.00 0 1 1.12 -0.73
125 410 1m32 (A) 39 312 14.00 0.00000000037 0.88 0.68 -0.78
66 543 4q75 (A) 22 429 28.00 0 1 0.999058 0.48
67 543 4q75 (A) 23 429 34.00 0 1 1.07753 0.09
67 535 1t3i (A) 13 409 32.00 0 1 1.04287 0.29
81 359 1eg5 (A) 3 252 29.00 0 1 0.820889 -0.37
108 314 3ftb (A) 46 241 33.00 0.013 0.99 0.570021 0.61

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:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, gametocyte, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Ring. Zanghi G
Show/Hide expression data references
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • 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_128800)

Species Accession Gene Product
Arabidopsis thaliana AT1G08490   cysteine desulfurase 2
Babesia bovis BBOV_IV003350   cysteine desulfurase
Chlamydia trachomatis CT_687   cysteine desulfurase-like protein
Escherichia coli b2810   cysteine sulfinate desulfinase
Escherichia coli b1680   cysteine desulfurase, stimulated by SufE
Mycobacterium leprae ML0842   Probable cysteine desulfurase 1 Csd1
Mycobacterium leprae ML0596   Probable cysteine desulfurase Csd
Mycobacterium tuberculosis Rv1464   Probable cysteine desulfurase Csd
Mycobacterium ulcerans MUL_1865   cysteine desulfurase
Neospora caninum NCLIV_059990   selenocysteine lyase, putative
Oryza sativa 4351999   Os12g0287300
Plasmodium berghei PBANKA_0614300   cysteine desulfurase
Plasmodium falciparum PF3D7_0716600   cysteine desulfurase
Plasmodium knowlesi PKNH_0311200   cysteine desulfurase, putative
Plasmodium vivax PVX_000600   cysteine desulfurase, putative
Plasmodium yoelii PY06105   Arabidopsis thaliana T27G7.17, putative
Toxoplasma gondii TGME49_216170   SufS subfamily cysteine desulfurase
Treponema pallidum TP0614   nitrogen fixation protein (nifS-1)
Theileria parva TP01_1094   cysteine desulfurase, putative

Essentiality

PF3D7_0716600 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu1487 Mycobacterium tuberculosis essential nmpdr
b1680 Escherichia coli non-essential goodall
b2810 Escherichia coli non-essential goodall
PBANKA_0614300 Plasmodium berghei Slow plasmo
TGME49_216170 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier PF3D7_0716600 (Plasmodium falciparum), cysteine desulfurase
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