Detailed view for Tb927.9.7550

Basic information

TDR Targets ID: 12397
Trypanosoma brucei, adenylosuccinate lyase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.1436 | Length (AA): 471 | MW (Da): 53120 | Paralog Number: 0

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

Druggability Group : DG1

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

PF00206   Lyase
PF08328   Adenylosuccinate lyase C-terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0006144   purine base metabolic process  
GO:0005575   cellular_component  
GO:0004018   adenylosuccinate lyase activity  
GO:0003824   catalytic activity  
GO:0009152   purine ribonucleotide biosynthetic process  
GO:0006188   IMP biosynthetic process  

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
12 468 4efc (A) 12 468 99.99 0 1 2.18498 -1.31

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
  • 4EFC:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_130883)

Species Accession Gene Product
Arabidopsis thaliana AT1G36280   L-aspartase-like family protein
Arabidopsis thaliana AT4G18440   L-aspartase-like family protein
Babesia bovis BBOV_III000760   adenylosuccinate lyase, putative
Dictyostelium discoideum DDB_G0288333   adenylosuccinate lyase
Escherichia coli b1131   adenylosuccinate lyase
Leishmania braziliensis LbrM.04.0500   adenylosuccinate lyase, putative
Leishmania donovani LdBPK_040440.1   adenylosuccinate lyase, putative
Leishmania infantum LinJ.04.0440   adenylosuccinate lyase, putative
Leishmania major LmjF.04.0460   adenylosuccinate lyase, putative
Leishmania mexicana LmxM.04.0460   adenylosuccinate lyase, putative
Neospora caninum NCLIV_024730   Adenylosuccinate lyase (EC 4.3.2.2), related
Oryza sativa 4332642   Os03g0313600
Plasmodium berghei PBANKA_0304300   adenylosuccinate lyase, putative
Plasmodium falciparum PF3D7_0206700   adenylosuccinate lyase
Plasmodium knowlesi PKNH_0414300   adenylosuccinate lyase
Plasmodium vivax PVX_003765   adenylosuccinate lyase
Plasmodium yoelii PY07545   adenylosuccinate lyase-related
Plasmodium yoelii PY05969   adenylosuccinate lyase
Schmidtea mediterranea mk4.037680.01  
Trypanosoma brucei gambiense Tbg972.9.4120   adenylosuccinate lyase, putative
Trypanosoma brucei Tb927.9.7550   adenylosuccinate lyase, putative
Trypanosoma congolense TcIL3000_0_18960   adenylosuccinate lyase, putative
Trypanosoma cruzi TcCLB.510337.30   adenylosuccinate lyase, putative
Trypanosoma cruzi TcCLB.503855.30   adenylosuccinate lyase, putative
Toxoplasma gondii TGME49_263190   adenylosuccinate lyase, putative
Theileria parva TP03_0773   adenylosuccinate lyase, putative

Essentiality

Tb927.9.7550 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.5560 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.160.5560 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.160.5560 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.160.5560 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b1131 Escherichia coli essential goodall
PBANKA_0304300 Plasmodium berghei Essential plasmo
TGME49_263190 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) decreased (PATO:0000468) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

  • Assay for Adenylosuccinate Lyase (4.3.2.2 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

2 literature references were 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 Tb927.9.7550 (Trypanosoma brucei), adenylosuccinate lyase, putative
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