Detailed view for LmjF.06.1270

Basic information

TDR Targets ID: 26720
Leishmania major, coproporphyrinogen III oxidase
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.1334 | Length (AA): 301 | MW (Da): 34370 | 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

PF01218   Coproporphyrinogen III oxidase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004109   coproporphyrinogen oxidase activity  
GO:0055114   oxidation reduction  
GO:0006779   porphyrin 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
1 301 1vju (A) 9 309 99.99 0 1 2.14 -1.71
1 301 3dwr (B) 1 301 99.99 0 1 2.1583 -1.53

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
  • 1VJU:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 2QT8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3DWR:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3DWS:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3E8J:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3EJO:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_128228)

Species Accession Gene Product
Arabidopsis thaliana AT1G03475   coproporphyrinogen III oxidase
Candida albicans CaO19.10321   Coproporphyrinogen III oxidase.
Candida albicans CaO19.2803   Coproporphyrinogen III oxidase.
Dictyostelium discoideum DDB_G0288893   coproporphyrinogen III oxidase
Drosophila melanogaster Dmel_CG3433   Coproporphyrinogen oxidase
Escherichia coli b2436   coproporphyrinogen III oxidase
Echinococcus granulosus EgrG_000930300   coproporphyrinogen III oxidase
Echinococcus multilocularis EmuJ_000930300   coproporphyrinogen III oxidase
Homo sapiens ENSG00000080819   coproporphyrinogen oxidase
Leishmania braziliensis LbrM.06.1260   coproporphyrinogen III oxidase
Leishmania donovani LdBPK_061330.1   coproporphyrinogen III oxidase
Leishmania infantum LinJ.06.1330   coproporphyrinogen III oxidase
Leishmania major LmjF.06.1270   coproporphyrinogen III oxidase
Leishmania mexicana LmxM.06.1270   coproporphyrinogen III oxidase, putative
Mus musculus ENSMUSG00000022742   coproporphyrinogen oxidase
Neospora caninum NCLIV_006040   coproporphyrinogen oxidase, putative
Oryza sativa 4336951   Os04g0610800
Plasmodium berghei PBANKA_0906600   coproporphyrinogen-III oxidase, putative
Plasmodium falciparum PF3D7_1142400   coproporphyrinogen-III oxidase
Plasmodium knowlesi PKNH_0940200   coproporphyrinogen-III oxidase, putative
Plasmodium yoelii PY05501   coproporphyrinogen III oxidase, aerobic
Saccharomyces cerevisiae YDR044W   coproporphyrinogen oxidase
Schistosoma japonicum Sjp_0207930   ko:K00228 coproporphyrinogen III oxidase [EC1.3.3.3], putative
Schistosoma mansoni Smp_162280   coproporphyrinogen oxidase
Schmidtea mediterranea mk4.000028.04   Oxygen-dependent coproporphyrinogen-III oxidase
Toxoplasma gondii TGME49_223020   coproporphyrinogen III oxidase
Wolbachia endosymbiont of Brugia malayi Wbm0709   coproporphyrinogen III oxidase

Essentiality

LmjF.06.1270 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b2436 Escherichia coli non-essential goodall
YDR044W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0906600 Plasmodium berghei Slow plasmo
TGME49_223020 Toxoplasma gondii Probably essential sidik
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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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): 0.2

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
Hordeum vulgare Coproporphyrinogen-III oxidase, chloroplastic Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

No enough druggable targets predicted through repurposing network model to make a plot

Putative Drugs List

Compound Raw Global Species
0.0105 0.5 0.5

Assayability

Assay information

No assay information for this target.

Reagent availability

  • Lnai006828AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lnai006828; Recombinant protein: full-length; Source: L naiffi; Coproporphyrinogen oxidase ;

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier LmjF.06.1270 (Leishmania major), coproporphyrinogen III oxidase
Title for this comment
Comment