Detailed view for LmjF.02.0130

Basic information

TDR Targets ID: 27157
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6894 | Length (AA): 239 | MW (Da): 26930 | 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

PF16835   Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion 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 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
41 129 3opc (A) 9 91 39.00 0.081 0.22 0.472985 1.06
54 128 2vqe (T) 14 88 20.00 0.57 0.03 0.523508 -0.13

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. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 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_128022)

Species Accession Gene Product
Arabidopsis thaliana AT2G32600   hydroxyproline-rich glycoprotein family protein
Babesia bovis BBOV_II006710   splicing factor 3a, subunit 2, putative
Brugia malayi Bm1_33015   sf3a2-prov protein
Candida albicans CaO19.12187   similar to mammalian U2 snRNA-associated pre-mRNA splicing factor SF3A component Sap62
Candida albicans CaO19.4724   similar to mammalian U2 snRNA-associated pre-mRNA splicing factor SF3A component Sap62
Caenorhabditis elegans CELE_F11A10.2   Protein REPO-1
Cryptosporidium hominis Chro.60328   f11a10.2 protein
Cryptosporidium parvum cgd6_2830   splicing factor 3a 66kD; N-terminus C2H2 domain
Dictyostelium discoideum DDB_G0293876   U1-type zinc finger-containing protein
Drosophila melanogaster Dmel_CG10754   CG10754 gene product from transcript CG10754-RA
Echinococcus granulosus EgrG_000414400   splicing factor 3a subunit 2
Entamoeba histolytica EHI_117940   splicing factor 3a subunit 2, putative
Echinococcus multilocularis EmuJ_000414400   splicing factor 3a subunit 2
Giardia lamblia GL50803_10755   Splicing factor 3A subunit 2
Homo sapiens ENSG00000104897   splicing factor 3a, subunit 2, 66kDa
Leishmania braziliensis LbrM.02.0140   hypothetical protein, conserved
Leishmania donovani LdBPK_020110.1   hypothetical protein, conserved
Leishmania infantum LinJ.02.0110   hypothetical protein, conserved
Leishmania major LmjF.02.0130   hypothetical protein, conserved
Leishmania mexicana LmxM.02.0130   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_08382   hypothetical protein
Mus musculus ENSMUSG00000020211   splicing factor 3a, subunit 2
Neospora caninum NCLIV_045400   hypothetical protein
Oryza sativa 4332334   Os03g0263500
Plasmodium berghei PBANKA_1119100   splicing factor 3A subunit 2, putative
Plasmodium falciparum PF3D7_0619900   splicing factor 3A subunit 2, putative
Plasmodium knowlesi PKNH_1130400   splicing factor 3A subunit 2, putative
Plasmodium vivax PVX_114120   splicing factor 3a subunit, putative
Plasmodium yoelii PY03246   hypothetical protein
Saccharomyces cerevisiae YDL043C   Prp11p
Schistosoma japonicum Sjp_0019990   Splicing factor 3A subunit 2, putative
Schistosoma mansoni Smp_076880   hypothetical protein
Schmidtea mediterranea mk4.000949.01   Splicing factor 3A subunit 2
Trypanosoma brucei gambiense Tbg.972.2.850   hypothetical protein, conserved
Trypanosoma brucei Tb927.2.2270   hypothetical protein, conserved
Trypanosoma congolense TcIL3000_2_160   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509395.10   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506533.70   hypothetical protein, conserved
Toxoplasma gondii TGME49_228000   splicing factor 3A subunit 2, putative
Theileria parva TP02_0636   splicing factor 3A subunit 2, putative
Trichomonas vaginalis TVAG_476600   conserved hypothetical protein

Essentiality

LmjF.02.0130 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.2270 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.2.2270 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.2.2270 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.2.2270 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F11A10.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_F11A10.2 Caenorhabditis elegans larval arrest wormbase
CELE_F11A10.2 Caenorhabditis elegans sterile wormbase
YDL043C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1119100 Plasmodium berghei Essential plasmo
TGME49_228000 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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Gene identifier LmjF.02.0130 (Leishmania major), hypothetical protein, conserved
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