Detailed view for LmjF.03.0190

Basic information

TDR Targets ID: 27200
Leishmania major, U2 splicing auxiliary factor, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.6905 | Length (AA): 210 | MW (Da): 25207 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF00642   Zinc finger C-x8-C-x5-C-x3-H type (and similar)

Gene Ontology

Mouse over links to read term descriptions.
GO:0089701   GO:U2AF  

GO:0000398   nuclear mRNA splicing, via spliceosome  
GO:0005634   nucleus  
GO:0046872   metal ion binding  
GO:0008270   zinc ion binding  
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 4 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
33 136 1jmt (A) 43 146 31.00 0 0.99 0.91 -1.25
59 140 1nu4 (A) 11 92 17.00 0.00000000055 0.53 0.7 -1.47
8 191 4yh8 (A) 18 194 40.00 0 1 1.40119 -0.88
33 136 1jmt (A) 43 146 32.00 0 1 0.903238 -0.93

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_127450)

Species Accession Gene Product
Arabidopsis thaliana AT1G27650   splicing factor U2af small subunit A
Arabidopsis thaliana AT5G42820   Splicing factor U2af small subunit B
Babesia bovis BBOV_IV007810   U2 splicing factor subunit, putative
Brugia malayi Bm1_55710   U2 small nuclear RNA auxiliary factor small subunit, putative
Brugia malayi Bm1_56100   splicing factor U2AF35
Brugia malayi Bm1_19485   U2 small nuclear RNA auxiliary factor small subunit, putative
Candida albicans CaO19.53   one of two potential U2 snRNP auxilliary factor small subunits
Candida albicans CaO19.11544   one of two potential U2 snRNP auxilliary factor small subunits
Candida albicans CaO19.4062   one of two potential U2 snRNP auxilliary factor small subunits
Candida albicans CaO19.7714   one of two potential U2 snRNP auxilliary factor small subunits
Caenorhabditis elegans CELE_Y116A8C.35   Protein UAF-2
Cryptosporidium hominis Chro.80598   U2 snRNP auxiliary factor, small subunit
Cryptosporidium parvum cgd8_5240   U2AG splicing factor U2AF U2snRNP auxilliary factor small subunit CCCh+RRM+CCCh-like
Dictyostelium discoideum DDB_G0285077   CCHC-type zinc finger-containing protein
Drosophila melanogaster Dmel_CG3582   U2 small nuclear riboprotein auxiliary factor 38
Echinococcus granulosus EgrG_000666850   splicing factor u2af 35 kda subunit
Entamoeba histolytica EHI_016140   U2 snRNP auxiliary factor small subunit, putative
Entamoeba histolytica EHI_156380   U2 snRNP auxiliary factor small subunit, putative
Echinococcus multilocularis EmuJ_000666850   splicing factor u2af 35 kda subunit
Giardia lamblia GL50803_16554   Splicing factor U2AF subunit, putative
Homo sapiens ENSG00000275895   splicing factor U2AF 35 kDa subunit-like
Homo sapiens ENSG00000161265   U2 small nuclear RNA auxiliary factor 1-like 4
Homo sapiens ENSG00000160201   U2 small nuclear RNA auxiliary factor 1
Leishmania braziliensis LbrM.03.0200   U2 splicing auxiliary factor, putative
Leishmania donovani LdBPK_030180.1   U2 splicing auxiliary factor, putative
Leishmania infantum LinJ.03.0180   U2 splicing auxiliary factor, putative
Leishmania major LmjF.03.0190   U2 splicing auxiliary factor, putative
Leishmania mexicana LmxM.03.0190   U2 splicing auxiliary factor, putative
Loa Loa (eye worm) LOAG_00486   hypothetical protein
Loa Loa (eye worm) LOAG_10291   hypothetical protein
Loa Loa (eye worm) LOAG_02893   hypothetical protein
Mus musculus ENSMUSG00000078765   U2 small nuclear RNA auxiliary factor 1-like 4
Mus musculus ENSMUSG00000061613   U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 1
Neospora caninum NCLIV_050810   hypothetical protein
Oryza sativa 9268567   Os09g0491756
Oryza sativa 4326323   Os01g0667800
Oryza sativa 4339621   Os05g0564200
Onchocerca volvulus OVOC1100   Splicing factor U2af 38 kDa subunit homolog
Onchocerca volvulus OVOC11823   Splicing factor U2af 38 kDa subunit homolog
Plasmodium berghei PBANKA_0928800   splicing factor U2AF small subunit, putative
Plasmodium falciparum PF3D7_1119300   splicing factor U2AF small subunit, putative
Plasmodium knowlesi PKNH_0917000   splicing factor U2AF small subunit, putative
Plasmodium vivax PVX_091600   splicing factor U2AF small subunit, putative
Plasmodium yoelii PY04677   similar to RIKEN cDNA 2010107D16 gene
Schistosoma japonicum Sjp_0208200   similar to Splicing factor U2AF 35 kDa subunit, putative
Schistosoma japonicum Sjp_0208210   similar to Splicing factor U2AF 35 kDa subunit, putative
Schistosoma mansoni Smp_093100   U2 snRNP auxiliary factor small subunit
Schmidtea mediterranea mk4.003864.00   Splicing factor U2AF 35 kDa subunit
Schmidtea mediterranea mk4.000274.08   Splicing factor U2AF 35 kDa subunit
Trypanosoma brucei gambiense Tbg972.10.4040   U2 splicing auxiliary factor, putative,U2AF35
Trypanosoma brucei Tb927.10.3200   U2 splicing auxiliary factor, putative
Trypanosoma congolense TcIL3000_10_2650   U2 splicing auxiliary factor, putative
Trypanosoma cruzi TcCLB.503577.20   U2 splicing auxiliary factor, putative
Trypanosoma cruzi TcCLB.510943.60   U2 splicing auxiliary factor, putative
Toxoplasma gondii TGME49_236910   U2 snRNP auxiliary factor, putative
Theileria parva TP03_0294   U2 small nuclear ribonucleoprotein, auxiliary factor, small subunit, putative
Trichomonas vaginalis TVAG_045370   U2 snrnp auxiliary factor, small subunit, putative
Trichomonas vaginalis TVAG_302130   U2 snrnp auxiliary factor, small subunit, putative
Trichomonas vaginalis TVAG_216790   U2 snrnp auxiliary factor, small subunit, putative
Trichomonas vaginalis TVAG_171620   U2 snrnp auxiliary factor, small subunit, putative
Trichomonas vaginalis TVAG_404120   U2 snrnp auxiliary factor, small subunit, putative

Essentiality

LmjF.03.0190 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.3200 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.3200 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.3200 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.3200 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y116A8C.35 Caenorhabditis elegans embryonic arrest wormbase
CELE_Y116A8C.35 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y116A8C.35 Caenorhabditis elegans larval arrest wormbase
CELE_Y116A8C.35 Caenorhabditis elegans slow growth wormbase
CELE_Y116A8C.35 Caenorhabditis elegans sterile wormbase
PBANKA_0928800 Plasmodium berghei Essential plasmo
TGME49_236910 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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

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

  • Lmaj00076AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj00076; Recombinant protein: full-length; Source: L major; U2 splicing auxiliary factor, putative ;

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.03.0190 (Leishmania major), U2 splicing auxiliary factor, putative
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