Detailed view for LmjF.34.2580

Basic information

TDR Targets ID: 20764
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.1128 | Length (AA): 205 | MW (Da): 22590 | 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

PF01918   Alba

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0003723   RNA binding  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
28 129 2bky (X) 6 87 29.00 0 0.85 0.57 -0.71
24 135 2h9u (A) 4 98 38.00 0.0067 1 0.905441 -0.58
28 130 2z7c (A) 5 92 26.00 0 0.99 0.783339 -1.01
37 83 1nh9 (A) 8 51 43.00 0.043 0.98 0.808368 -1.2
134 193 2pne (A) 20 76 32.00 0 0.4 0.615883 -0.52
162 193 2pne (A) 30 66 63.00 0.02 0.47 0.754198 -1.5

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 80-100% 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_129273)

Species Accession Gene Product
Arabidopsis thaliana AT1G20220   Alba DNA/RNA-binding protein
Arabidopsis thaliana AT3G07030   Alba DNA/RNA-binding protein
Arabidopsis thaliana AT1G76010   Alba DNA/RNA-binding protein
Babesia bovis BBOV_III001820   hypothetical protein
Dictyostelium discoideum DDB_G0281409   RNase MRP protein subunit
Drosophila melanogaster Dmel_CG9422   CG9422 gene product from transcript CG9422-RC
Echinococcus granulosus EgrG_000065400   expressed conserved protein
Homo sapiens ENSG00000164967   ribonuclease P/MRP 25kDa subunit-like
Leishmania braziliensis LbrM.20.2140   hypothetical protein, conserved
Leishmania donovani LdBPK_342410.1   ALBA-domain protein 3
Leishmania infantum LinJ.34.2410   hypothetical protein, conserved
Leishmania major LmjF.34.2580   hypothetical protein, conserved
Leishmania mexicana LmxM.33.2580   hypothetical protein, conserved
Mus musculus ENSMUSG00000036114   ribonuclease P/MRP 25 subunit-like
Neospora caninum NCLIV_004920   hypothetical protein
Oryza sativa 9269193   Os04g0428950
Oryza sativa 4331735   Os03g0166000
Oryza sativa 4347736   Os09g0542000
Oryza sativa 4334023   Os03g0735300
Oryza sativa 4349880   Os11g0168300
Plasmodium berghei PBANKA_1423300   DNA/RNA-binding protein Alba 1, putative
Plasmodium falciparum PF3D7_0814200   DNA/RNA-binding protein Alba 1
Plasmodium knowlesi PKNH_1426100   DNA/RNA-binding protein Alba 1, putative
Plasmodium vivax PVX_123060   DNA/RNA-binding protein Alba 1, putative
Plasmodium yoelii PY07825   Arabidopsis thaliana At1g20220/T20H2_3-related
Trypanosoma brucei gambiense Tbg972.4.1950   hypothetical protein, conserved
Trypanosoma brucei gambiense Tbg972.4.1960   hypothetical protein, conserved
Trypanosoma brucei Tb927.4.2030   DNA/RNA-binding protein Alba 4
Trypanosoma brucei Tb927.4.2040   DNA/RNA-binding protein Alba 3
Trypanosoma congolense TcIL3000_4_1790   hypothetical protein, conserved
Trypanosoma congolense TcIL3000_4_1780   ALBA-Domain Protein
Trypanosoma cruzi TcCLB.510877.30   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510877.40   hypothetical protein, conserved
Toxoplasma gondii TGME49_221380   alba 1
Theileria parva TP03_0655   hypothetical protein

Essentiality

LmjF.34.2580 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2030 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.2030 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.2030 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.4.2030 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.4.2040 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.2040 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.2040 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.4.2040 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_221380 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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

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

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

Enter your comment

User ()
Gene identifier LmjF.34.2580 (Leishmania major), hypothetical protein, conserved
Title for this comment
Comment