Detailed view for LmjF.04.0460

Basic information

TDR Targets ID: 26810
Leishmania major, adenylosuccinate lyase, putative

Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4516 | Length (AA): 479 | MW (Da): 53711 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | 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: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 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
16 473 1vdk (A) 4 462 18.00 0 1 1.08 -0.54
16 470 1fur (A) 5 459 18.00 0 0.97 1.19 -0.61
40 478 1c3c (A) 4 423 21.00 0 1 1.12 -0.8
24 479 4mx2 (B) 24 479 96.00 0 1 2.09308 -1.24

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 amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

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

LmjF.04.0460 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.5560 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.160.5560 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.160.5560 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.160.5560 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.

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

  • Assay for Adenylosuccinate Lyase (4.3.2.2 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.
  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Leishmania donovani ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    LmjF.04.0460 purified protein BRENDA A protein with this EC number or name or sequence has been purified from Leishmania donovani ( 1 )

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 LmjF.04.0460 (Leishmania major), adenylosuccinate lyase, putative
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