Detailed view for LmjF.15.0270

Basic information

TDR Targets ID: 24346
Leishmania major, replication Factor A 28 kDa subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.7357 | Length (AA): 257 | MW (Da): 27525 | Paralog Number: 0

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

Druggability Group : DG2

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

PF01336   OB-fold nucleic acid binding domain
PF08784   Replication protein A C terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  
GO:0006281   DNA repair  
GO:0006260   DNA replication  
GO:0006310   DNA recombination  

Structural information

Modbase 3D models:

There are 5 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
32 163 1quq (A) 46 171 33.00 0.00000022 0.99 0.88 -0.76
192 256 1dpu (A) 202 265 19.00 0.0000000096 0.57 0.59 -1.69
28 168 2pi2 (A) 42 176 30.00 0 1 0.836538 -0.28
30 163 4gnx (B) 46 175 34.00 0 1 0.807401 0.01
198 256 4ou0 (A) 209 265 21.00 0.0000016 1 0.586472 -1.47

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile amastigotes. 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_128774)

Species Accession Gene Product
Arabidopsis thaliana AT2G24490   replicon protein A2
Arabidopsis thaliana AT3G02920   replication protein RPA32B
Brugia malayi Bm1_13550   hypothetical protein
Candida albicans CaO19.9807   subunit 2 of replication factor RF-A
Candida albicans CaO19.2267   subunit 2 of replication factor RF-A
Caenorhabditis elegans CELE_M04F3.1   Protein RPA-2
Drosophila melanogaster Dmel_CG9273   Replication protein A2
Echinococcus granulosus EgrG_000604700   replication protein A 32 kDa subunit
Echinococcus multilocularis EmuJ_000604700   replication protein A 32 kDa subunit
Homo sapiens ENSG00000117748   replication protein A2, 32kDa
Leishmania braziliensis LbrM.15.0300   replication Factor A 28 kDa subunit, putative
Leishmania donovani LdBPK_150310.1   replication Factor A 28 kDa subunit, putative
Leishmania infantum LinJ.15.0310   replication Factor A 28 kDa subunit, putative
Leishmania major LmjF.15.0270   replication Factor A 28 kDa subunit, putative
Leishmania mexicana LmxM.15.0270   replication Factor A 28 kDa subunit, putative
Loa Loa (eye worm) LOAG_08766   hypothetical protein
Mus musculus ENSMUSG00000028884   replication protein A2
Oryza sativa 4331236   Os02g0829100
Oryza sativa 4330068   Os02g0633400
Onchocerca volvulus OVOC9765  
Saccharomyces cerevisiae YNL312W   Rfa2p
Schistosoma japonicum Sjp_0216400   ko:K10739 replication factor A2, putative
Schistosoma mansoni Smp_080530   replication protein A
Schmidtea mediterranea mk4.001983.01  
Trypanosoma brucei gambiense Tbg972.5.2360   replication Factor A 28 kDa subunit, putative
Trypanosoma brucei Tb927.5.1700   replication Factor A 28 kDa subunit, putative
Trypanosoma congolense TcIL3000_0_38740   replication Factor A 28 kDa subunit, putative
Trypanosoma congolense TcIL3000_5_1640   replication Factor A 28 kDa subunit, putative
Trypanosoma cruzi TcCLB.510821.50   replication Factor A 28 kDa subunit, putative
Trichomonas vaginalis TVAG_005990   Replication protein A 30 kDa subunit, putative

Essentiality

LmjF.15.0270 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.1700 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.5.1700 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.1700 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.5.1700 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_M04F3.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_M04F3.1 Caenorhabditis elegans slow growth wormbase
CELE_M04F3.1 Caenorhabditis elegans sterile wormbase
YNL312W Saccharomyces cerevisiae inviable yeastgenome
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.
  • 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
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

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.

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Gene identifier LmjF.15.0270 (Leishmania major), replication Factor A 28 kDa subunit, putative
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