Detailed view for LmjF.36.3980

Basic information

TDR Targets ID: 27253
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.2731 | Length (AA): 363 | MW (Da): 41132 | 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

PF05179   RNA pol II accessory factor, Cdc73 family, C-terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0016593   Cdc73/Paf1 complex  
GO:0016570   histone modification  
GO:0006368   RNA elongation from RNA polymerase II promoter  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

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
171 349 3v46 (A) 234 391 33.00 0 1 0.796313 -0.54

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
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_128820)

Species Accession Gene Product
Arabidopsis thaliana AT3G22590   protein PLANT HOMOLOGOUS TO PARAFIBROMIN
Brugia malayi Bm1_22620   RNA pol II accessory factor, Cdc73 family protein
Candida albicans CaO19.10500   similar to S. cerevisiae CDC73 (YLR418C) elongation accessory factor associated with RNA polymerase II
Candida albicans CaO19.2983   similar to S. cerevisiae CDC73 (YLR418C) elongation accessory factor associated with RNA polymerase II
Caenorhabditis elegans CELE_F35F11.1   Protein F35F11.1
Cryptosporidium hominis Chro.40226   similar to ; protein id: At3g22590.1, supported by cDNA: gi_17529301
Cryptosporidium parvum cgd4_2010   conserved hypothetical protein
Dictyostelium discoideum DDB_G0274885   RNA polymerase II complex component
Drosophila melanogaster Dmel_CG11990   hyrax
Drosophila melanogaster Dmel_CG6220   CG6220 gene product from transcript CG6220-RA
Echinococcus granulosus EgrG_001032400   parafibromin
Echinococcus multilocularis EmuJ_001032400   parafibromin
Homo sapiens ENSG00000134371   cell division cycle 73
Leishmania braziliensis LbrM.35.4220   hypothetical protein, conserved
Leishmania donovani LdBPK_364170.1   RNA polymerase-associated protein CDC73, putative
Leishmania infantum LinJ.36.4170   hypothetical protein, conserved
Leishmania major LmjF.36.3980   hypothetical protein, conserved
Leishmania mexicana LmxM.36.3980   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_10743   RNA pol II accessory factor
Mus musculus 214498   cell division cycle 73, Paf1/RNA polymerase II complex component
Oryza sativa 4333654   Os03g0664700
Onchocerca volvulus OVOC6350  
Saccharomyces cerevisiae YLR418C   Cdc73p
Schistosoma japonicum Sjp_0037790   Parafibromin, putative
Schistosoma mansoni Smp_144090.1   hyperparathyroidism homolog
Schistosoma mansoni Smp_144090.2   hyperparathyroidism homolog
Trypanosoma brucei gambiense Tbg972.11.11480   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.10230   RNA polymerase-associated protein CDC73, putative
Trypanosoma congolense TcIL3000.11.10750   RNA polymerase-associated protein CDC73, putative
Trypanosoma cruzi TcCLB.506275.9   RNA polymerase-associated protein CDC73, putative
Trypanosoma cruzi TcCLB.510719.250   RNA polymerase-associated protein CDC73, putative
Trichomonas vaginalis TVAG_123470   CDC73 domain protein, putative

Essentiality

LmjF.36.3980 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.1990 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.1990 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.1990 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.1990 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F35F11.1 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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

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 LmjF.36.3980 (Leishmania major), hypothetical protein, conserved
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