Detailed view for LbrM.18.1190

Basic information

TDR Targets ID: 428246
Leishmania braziliensis, cAMP phosphodiesterase A, putative;with=GeneDB:LinJ18_V3.1100
Source Database / ID: 

pI: 5.5969 | Length (AA): 631 | MW (Da): 71178 | Paralog Number: 0

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

Druggability Group : DG

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

PF00233   3'5'-cyclic nucleotide phosphodiesterase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004114   3',5'-cyclic-nucleotide phosphodiesterase activity  
GO:0008081   phosphoric diester hydrolase activity  
GO:0007165   signal transduction  

Metabolic Pathways

Purine metabolism (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
6 627 3ibj (A) 314 897 19.00 0 0.83 1.02044 0.93
173 628 4wzi (B) 167 655 29.00 0 1 1.00236 -0.25
304 625 1taz (A) 152 496 37.00 0 1 0.908101 -0.95
308 625 1zkl (A) 146 451 34.00 0 1 0.978762 -1.28

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_128202)

Species Accession Gene Product
Brugia malayi Bm1_50175   Probable 3',5'-cyclic phosphodiesterase T04D3.3, putative
Caenorhabditis elegans CELE_T04D3.3   Protein PDE-1, isoform B
Cryptosporidium hominis Chro.30269   cGMP phosphodiesterase A4
Cryptosporidium parvum cgd3_2320   cGMP phosphodiesterase A4
Drosophila melanogaster Dmel_CG44007   CG44007 gene product from transcript CG44007-RG
Echinococcus granulosus EgrG_000363800   calcium:calmodulin dependent 3'5' cyclic
Echinococcus granulosus EgrG_000955900   calcium:calmodulin dependent 3'5' cyclic
Echinococcus multilocularis EmuJ_000363800   calcium:calmodulin dependent 3',5' cyclic
Echinococcus multilocularis EmuJ_000955900   calcium:calmodulin dependent 3',5' cyclic
Homo sapiens ENSG00000154678   phosphodiesterase 1C, calmodulin-dependent 70kDa
Homo sapiens ENSG00000115252   phosphodiesterase 1A, calmodulin-dependent
Homo sapiens ENSG00000123360   phosphodiesterase 1B, calmodulin-dependent
Leishmania braziliensis LbrM.18.1190   cAMP phosphodiesterase A, putative;with=GeneDB:LinJ18_V3.1100
Leishmania donovani LdBPK_181100.1   phosphodiesterase, putative
Leishmania infantum LinJ.18.1100   cAMP phosphodiesterase A
Leishmania major LmjF.18.1090   cAMP phosphodiesterase A, putative;with=GeneDB:LinJ18_V3.1100
Leishmania mexicana LmxM.18.1090   phosphodiesterase, putative
Loa Loa (eye worm) LOAG_08194   PDE1B protein
Mus musculus ENSMUSG00000022489   phosphodiesterase 1B, Ca2+-calmodulin dependent
Mus musculus ENSMUSG00000059173   phosphodiesterase 1A, calmodulin-dependent
Mus musculus ENSMUSG00000004347   phosphodiesterase 1C
Neospora caninum NCLIV_034660   hypothetical protein
Neospora caninum NCLIV_000970   hypothetical protein
Neospora caninum NCLIV_019740   3,5-cyclic phosphodiesterase, putative
Plasmodium vivax PVX_122885   3',5'-cyclic nucleotide phosphodiesterase, putative
Schistosoma japonicum Sjp_0109700   hypothetical protein
Schistosoma mansoni Smp_134500   calcium/calmodulin-dependent 35-cyclic nucleotide phosphodiesterase
Schmidtea mediterranea mk4.012198.00  
Schmidtea mediterranea mk4.009433.01   Probable 3',5'-cyclic phosphodiesterase pde-1
Schmidtea mediterranea mk4.002472.05  
Schmidtea mediterranea mk4.020233.00   Probable 3',5'-cyclic phosphodiesterase pde-1
Schmidtea mediterranea mk4.005486.00  
Schmidtea mediterranea mk4.004300.00   Probable 3',5'-cyclic phosphodiesterase pde-1
Schmidtea mediterranea mk4.001910.00   Probable 3',5'-cyclic phosphodiesterase pde-1
Schmidtea mediterranea mk4.004540.01   Probable 3',5'-cyclic phosphodiesterase pde-1
Schmidtea mediterranea mk4.009433.00   Probable 3',5'-cyclic phosphodiesterase pde-1
Schmidtea mediterranea mk4.005486.01  
Schmidtea mediterranea mk4.009094.00   Probable 3',5'-cyclic phosphodiesterase pde-1
Trypanosoma brucei gambiense Tbg972.10.15680   3, 5-cyclic nucleotide phosphodiesterase, putative
Trypanosoma brucei Tb927.10.13000   cAMP phosphodiesterase A, putative
Trypanosoma congolense TcIL3000_10_11100   3', 5'-cyclic nucleotide phosphodiesterase, putative
Trypanosoma cruzi TcCLB.511269.40   cAMP phosphodiesterase A, putative
Trypanosoma cruzi TcCLB.509805.20   cAMP phosphodiesterase A, putative
Toxoplasma gondii TGME49_280410   3'5'-cyclic nucleotide phosphodiesterase domain-containing protein
Toxoplasma gondii TGME49_272650   3'5'-cyclic nucleotide phosphodiesterase domain-containing protein

Essentiality

LbrM.18.1190 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.13000 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.13000 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.13000 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.13000 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_272650 Toxoplasma gondii Essentiality uncertain sidik
TGME49_280410 Toxoplasma gondii Essentiality uncertain sidik
TGME49_272650 Toxoplasma gondii Probably non-essential sidik
TGME49_280410 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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
Species Known druggable target Linked compounds Reference
Bos taurus Phosphodiesterase 1A Compounds References
Homo sapiens phosphodiesterase 1C, calmodulin-dependent 70kDa Compounds References
Leishmania major cAMP phosphodiesterase A, putative;with=GeneDB:LinJ18_V3.1100 Compounds References
Homo sapiens phosphodiesterase 1B, calmodulin-dependent Compounds References
Rattus norvegicus Phosphodiesterase 1 Compounds References
Homo sapiens phosphodiesterase 1A, calmodulin-dependent Compounds References
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.

User comments

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Gene identifier LbrM.18.1190 (Leishmania braziliensis), cAMP phosphodiesterase A, putative;with=GeneDB:LinJ18_V3.1100
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