Detailed view for TcCLB.507993.330

Basic information

TDR Targets ID: 42178
Trypanosoma cruzi, mevalonate-diphosphate decarboxylase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.9872 | Length (AA): 380 | MW (Da): 42119 | Paralog Number: 1

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

Druggability Group : DG3

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

PF00288   GHMP kinases N terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0019287   isopentenyl diphosphate biosynthetic process, mevalonate pathway  
GO:0005829   cytosol  
GO:0016831   carboxy-lyase activity  
GO:0016301   kinase activity  
GO:0005524   ATP binding  
GO:0004163   diphosphomevalonate decarboxylase activity  
GO:0016310   phosphorylation  
GO:0008299   isoprenoid biosynthetic process  

Structural information

Modbase 3D models:

There are 2 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
3 374 1fi4 (A) 3 385 38.00 0 1 1.49 -1.3
6 379 2hke (A) 6 379 75.00 0 1 1.98771 -1.77

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 80-100% percentile epimastigote. Smircich P
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_128252)

Species Accession Gene Product
Arabidopsis thaliana AT2G38700   mevalonate diphosphate decarboxylase 1
Arabidopsis thaliana AT3G54250   diphosphomevalonate decarboxylase
Brugia malayi Bm1_42945   diphosphomevalonate decarboxylase family protein
Candida albicans CaO19.13524   diphosphomevalonate decarboxylase
Candida albicans CaO19.6105   diphosphomevalonate decarboxylase
Caenorhabditis elegans CELE_Y48B6A.13   Protein Y48B6A.13, isoform A
Dictyostelium discoideum DDB_G0278607   diphosphomevalonate decarboxylase
Drosophila melanogaster Dmel_CG8239   CG8239 gene product from transcript CG8239-RB
Echinococcus granulosus EgrG_000593000   diphosphomevalonate decarboxylase
Echinococcus multilocularis EmuJ_000593000   diphosphomevalonate decarboxylase
Giardia lamblia GL50803_23420   Diphosphomevalonate decarboxylase
Homo sapiens ENSG00000167508   mevalonate (diphospho) decarboxylase
Leishmania braziliensis LbrM.18.0030   mevalonate-diphosphate decarboxylase, putative
Leishmania donovani LdBPK_180020.1   diphosphomevalonate decarboxylase, putative
Leishmania infantum LinJ.18.0020   mevalonate-diphosphate decarboxylase, putative
Leishmania major LmjF.18.0020   mevalonate-diphosphate decarboxylase, putative
Leishmania mexicana LmxM.18.0020   diphosphomevalonate decarboxylase, putative
Loa Loa (eye worm) LOAG_10223   diphosphomevalonate decarboxylase
Loa Loa (eye worm) LOAG_07872   hypothetical protein
Mus musculus ENSMUSG00000006517   mevalonate (diphospho) decarboxylase
Mycobacterium ulcerans MUL_3524   diphosphomevalonate decarboxylase
Oryza sativa 4328034   Os02g0109100
Onchocerca volvulus OVOC9968  
Saccharomyces cerevisiae YNR043W   diphosphomevalonate decarboxylase MVD1
Schistosoma japonicum Sjp_0211750   ko:K01597 diphosphomevalonate decarboxylase [EC4.1.1.33], putative
Schistosoma mansoni Smp_172660   diphosphomevalonate decarboxylase
Schmidtea mediterranea mk4.002256.03   Diphosphomevalonate decarboxylase
Schmidtea mediterranea mk4.072524.00  
Schmidtea mediterranea mk4.063202.00   CG5919 protein
Trypanosoma brucei gambiense Tbg972.10.16420   diphosphomevalonate decarboxylase, putative
Trypanosoma brucei gambiense Tbg972.10.17290   diphosphomevalonate decarboxylase, putative
Trypanosoma brucei Tb927.10.13560   mevalonate-diphosphate decarboxylase
Trypanosoma brucei Tb927.10.14070   mevalonate diphosphate decarboxylase
Trypanosoma cruzi TcCLB.511281.40   mevalonate-diphosphate decarboxylase, putative
Trypanosoma cruzi TcCLB.507993.330   mevalonate-diphosphate decarboxylase, putative
Trichomonas vaginalis TVAG_302660   diphosphomevalonate decarboxylase, putative

Essentiality

TcCLB.507993.330 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.13560 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.13560 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.13560 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.13560 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y48B6A.13 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y48B6A.13 Caenorhabditis elegans larval arrest wormbase
CELE_Y48B6A.13 Caenorhabditis elegans larval lethal wormbase
CELE_Y48B6A.13 Caenorhabditis elegans sterile wormbase
YNR043W Saccharomyces cerevisiae inviable yeastgenome
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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.

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

Druggability index (range: 0 to 1): 0.6

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Homo sapiens mevalonate (diphospho) decarboxylase Compounds References
Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466) Diphosphomevalonate decarboxylase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0718 0.8586 1
0.0714 0.7569 1
0.0654 0.6663 0.8265
0.0665 1 1
0.0194 1 1
0.0806 0.858 1
0.0749 0.9538 1
0.0665 1 1
0.06 0.7348 0.8597
0.0182 0.299 0.299
0.0654 0.6663 0.8265
0.0769 1 1
0.0603 1 1
0.0388 1 1
0.0591 1 1
0.077 1 1
0.0547 0.9788 1
0.0714 0.7569 1
0.0057 0.422 0.5
0.0719 1 1
0.0057 1 1

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

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

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Gene identifier TcCLB.507993.330 (Trypanosoma cruzi), mevalonate-diphosphate decarboxylase, putative
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