Detailed view for TGME49_205010

Basic information

TDR Targets ID: 258724
Toxoplasma gondii, U2 small nuclear ribonucleoprotein family protein, putative
Source Database / ID:  ToxoDB 

pI: 5.8071 | Length (AA): 1386 | MW (Da): 150782 | 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

PF08920   Splicing factor 3B subunit 1

Gene Ontology

Mouse over links to read term descriptions.
GO:0003729   mRNA binding  
GO:0005488   binding  
GO:0000245   spliceosome assembly  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 8 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
538 1385 1u6g (C) 14 1030 11.00 0 1 0.4 -0.79
809 1278 1jdh (A) 153 663 13.00 0 0.99 0.62 -1.62
291 432 4ph8 (A) 11 147 18.00 0 0.02 0.222453 -0.09
319 513 4wj3 (A) 109 307 29.00 0.28 0.79 0.300093 0.97
432 477 2fho (A) 379 423 58.00 0.0000044 0.13 0.497589 0.96
547 1386 5ife (C) 466 1304 71.00 0 1 1.46706 -1.03
563 1261 1u6g (C) 35 816 13.00 0 1 0.622329 0.22
931 1125 4db6 (A) 13 207 16.00 0 1 0.508693 -1.53

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 ME49 merozoite, ME49 Bradyzoite. Hehl AB Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 Oocyst. Gregory Fritz HM
Show/Hide expression data references
  • Gregory ToxoDB
  • Hehl AB Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within feline enterocytes.
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Sibley/Greg ToxoDB

Orthologs

Ortholog group members (OG5_127822)

Species Accession Gene Product
Arabidopsis thaliana AT5G64270   putative splicing factor
Babesia bovis BBOV_IV006950   splicing factor, putative
Brugia malayi Bm1_54945   Splicing factor 3B subunit 1
Candida albicans CaO19.10190   similar to hSF3B1/SAP155 spliceosomal U2 snRNP protein
Candida albicans CaO19.2675   similar to hSF3B1/SAP155 spliceosomal U2 snRNP protein
Caenorhabditis elegans CELE_T08A11.2   Protein T08A11.2
Cryptosporidium hominis Chro.60546   splicing factor
Cryptosporidium parvum cgd6_4750   splicing factor 3B subunit1-like HEAT repeat containing protein
Dictyostelium discoideum DDB_G0275957   HEAT repeat-containing protein
Drosophila melanogaster Dmel_CG2807   CG2807 gene product from transcript CG2807-RB
Echinococcus granulosus EgrG_000968600   splicing factor 3b subunit 1
Entamoeba histolytica EHI_085470   splicing factor3B subunit 1, putative
Entamoeba histolytica EHI_049170   splicing factor 3B subunit 1, putative
Echinococcus multilocularis EmuJ_000968600   splicing factor 3b subunit 1
Homo sapiens ENSG00000115524   splicing factor 3b, subunit 1, 155kDa
Leishmania braziliensis LbrM.28.2790   splicing factor 3B subunit 1, putative
Leishmania donovani LdBPK_282780.1   splicing factor 3B subunit 1, putative
Leishmania infantum LinJ.28.2780   splicing factor 3B subunit 1, putative
Leishmania major LmjF.28.2570   splicing factor 3B subunit 1, putative
Leishmania mexicana LmxM.28.2570   splicing factor 3B subunit 1, putative
Loa Loa (eye worm) LOAG_04581   hypothetical protein
Mus musculus ENSMUSG00000025982   splicing factor 3b, subunit 1
Neospora caninum NCLIV_020650   splicing factor 3B subunit 1, putative
Oryza sativa 4328284   Os02g0146400
Oryza sativa 4328291   Os02g0147300
Oryza sativa 9272713   Os02g0478900
Oryza sativa 4328270   Os02g0142300
Onchocerca volvulus OVOC9429   Splicing factor 3B subunit 1 homolog
Plasmodium berghei PBANKA_0407100   splicing factor 3B subunit 1, putative
Plasmodium falciparum PF3D7_0308900   splicing factor 3B subunit 1, putative
Plasmodium knowlesi PKNH_0833800   splicing factor 3B subunit 1, putative
Plasmodium vivax PVX_119560   splicing factor 3B subunit 1, putative
Plasmodium yoelii PY02341   hypothetical protein
Saccharomyces cerevisiae YMR288W   Hsh155p
Schistosoma japonicum Sjp_0006680   Splicing factor 3B subunit 1, putative
Schistosoma mansoni Smp_141630.2   splicing factor 3b subunit 1-related
Schistosoma mansoni Smp_141630.1   splicing factor 3b subunit 1-related
Schistosoma mansoni Smp_141630.4   splicing factor 3b subunit 1-related
Schmidtea mediterranea mk4.000576.02  
Schmidtea mediterranea mk4.001289.05   Splicing factor 3b subunit 1
Trypanosoma brucei gambiense Tbg972.11.13310   splicing factor 3B subunit 1, putative
Trypanosoma brucei Tb927.11.11850   splicing factor 3B subunit 1, putative
Trypanosoma congolense TcIL3000.11.12520   splicing factor 3B subunit 1, putative
Trypanosoma cruzi TcCLB.508827.100   splicing factor 3B subunit 1, putative
Toxoplasma gondii TGME49_205010   U2 small nuclear ribonucleoprotein family protein, putative
Theileria parva TP03_0212   splicing factor 3B subunit 1, putative
Trichomonas vaginalis TVAG_332520   U2 snRNP component prp10, putative

Essentiality

TGME49_205010 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.3690 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.3690 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.3690 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.3690 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T08A11.2 Caenorhabditis elegans adult lethal wormbase
CELE_T08A11.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_T08A11.2 Caenorhabditis elegans larval arrest wormbase
CELE_T08A11.2 Caenorhabditis elegans larval lethal wormbase
CELE_T08A11.2 Caenorhabditis elegans slow growth wormbase
CELE_T08A11.2 Caenorhabditis elegans sterile wormbase
YMR288W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0407100 Plasmodium berghei Essential plasmo
TGME49_205010 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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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User comments

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Gene identifier TGME49_205010 (Toxoplasma gondii), U2 small nuclear ribonucleoprotein family protein, putative
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