Detailed view for TGME49_205180

Basic information

TDR Targets ID: 258656
Toxoplasma gondii, RNA recognition motif-containing protein
Source Database / ID:  ToxoDB 

pI: 11.4594 | Length (AA): 274 | MW (Da): 32011 | 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)
PF12220   U1 small nuclear ribonucleoprotein of 70kDa MW N terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0030619   U1 snRNA binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 9 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
10 179 1cvj (A) 27 179 20.00 0 1 0.76 0.41
63 209 1n52 (B) 6 146 26.00 0 1 0.8 0.28
91 211 2f9d (A) 12 125 18.00 0 0.81 0.55 -0.04
99 171 1h2v (Z) 41 114 32.00 0.0000077 1 0.84 -1.83
30 177 3pgw (S) 34 183 53.00 0 1 1.10755 0.32
99 274 4wik (A) 372 528 19.00 0 1 0.838836 -0.56
100 154 1wel (A) 432 487 29.00 0.1 1 0.71413 -1.44
140 195 4pkd (B) 211 266 75.00 0 1 1.03188 -0.07
227 272 5hmo (A) 812 860 35.00 0.23 0.02 0.876283 -4.27

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 VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite, ME49 Bradyzoite. Gregory Hehl AB Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile ME49 Oocyst. Fritz HM
Show/Hide expression data references
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • 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.
  • Gregory ToxoDB

Orthologs

Ortholog group members (OG5_128070)

Species Accession Gene Product
Arabidopsis thaliana AT3G50670   U1 small nuclear ribonucleoprotein-70K
Babesia bovis BBOV_II005790   u1 snRNP, putative
Brugia malayi Bm1_26575   RNA binding protein
Candida albicans CaO19.6866   similar to U1snRNP 70kd
Candida albicans CaO19.14156   similar to U1snRNP 70kd
Caenorhabditis elegans CELE_K04G7.10   Protein RNP-7
Cryptosporidium hominis Chro.60129   U1 small nuclear ribonucleoprotein
Cryptosporidium parvum cgd6_990   U1 snrp Snp1p. RRM domain containing protein
Dictyostelium discoideum DDB_G0268004   U1 small nuclear ribonucleoprotein 70 kDa protein
Drosophila melanogaster Dmel_CG8749   small ribonucleoprotein particle U1 subunit 70K
Echinococcus granulosus EgrG_001019100   RNA recognition motif RNP 1
Entamoeba histolytica EHI_153670   U1 small nuclear ribonucleoprotein subunit, putative
Echinococcus multilocularis EmuJ_001019100   RNA recognition motif, RNP 1
Homo sapiens ENSG00000104852   small nuclear ribonucleoprotein 70kDa (U1)
Leishmania braziliensis LbrM.16.1650   U1 small nuclear ribonucleoprotein, putative
Leishmania donovani LdBPK_161690.1   u1 small nuclear ribonucleoprotein 70 kDa
Leishmania infantum LinJ.16.1690   U1 small nuclear ribonucleoprotein, putative
Leishmania major LmjF.16.1590   U1 small nuclear ribonucleoprotein, putative
Leishmania mexicana LmxM.16.1590   U1 small nuclear ribonucleoprotein, putative
Loa Loa (eye worm) LOAG_10208   hypothetical protein
Mus musculus ENSMUSG00000063511   small nuclear ribonucleoprotein 70 (U1)
Neospora caninum NCLIV_020480   hypothetical protein
Oryza sativa 4347985   Os10g0115600
Plasmodium berghei PBANKA_1143000   U1 small nuclear ribonucleoprotein, putative
Plasmodium falciparum PF3D7_1367100   U1 small nuclear ribonucleoprotein, putative
Plasmodium knowlesi PKNH_1104100   U1 small nuclear ribonucleoprotein, putative
Plasmodium vivax PVX_115315   U1 small nuclear ribonucleoprotein 70 kDa, putative
Plasmodium yoelii PY00080   u1 small nuclear ribonucleoprotein 70 kDa
Saccharomyces cerevisiae YIL061C   Snp1p
Schistosoma japonicum Sjp_0212780   similar to U1 small nuclear ribonucleoprotein 70 kDa, putative
Schistosoma japonicum Sjp_0128520   similar to U1 small nuclear ribonucleoprotein 70 kDa, putative
Schistosoma japonicum Sjp_0069350   similar to U1 small nuclear ribonucleoprotein 70 kDa, putative
Schistosoma mansoni Smp_013360   U1 small nuclear ribonucleoprotein 70 kD
Schmidtea mediterranea mk4.002786.01   U1 small nuclear ribonucleoprotein 70 kDa
Trypanosoma brucei gambiense Tbg972.8.4640   U1 small nuclear ribonucleoprotein, putative
Trypanosoma brucei Tb927.8.4830   u1 small nuclear ribonucleoprotein 70 kDa
Trypanosoma congolense TcIL3000_8_4530   u1 small nuclear ribonucleoprotein 70 kDa
Trypanosoma cruzi TcCLB.508837.140   u1 small nuclear ribonucleoprotein 70 kDa
Trypanosoma cruzi TcCLB.511383.30   u1 small nuclear ribonucleoprotein 70 kDa
Toxoplasma gondii TGME49_205180   RNA recognition motif-containing protein
Theileria parva TP02_0544   U1 small nuclear ribonucleoprotein, putative
Trichomonas vaginalis TVAG_371310   U1 small nuclear ribonucleoprotein 70 kD, putative

Essentiality

TGME49_205180 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.4830 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.4830 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.4830 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.4830 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_K04G7.10 Caenorhabditis elegans embryonic arrest wormbase
CELE_K04G7.10 Caenorhabditis elegans embryonic lethal wormbase
CELE_K04G7.10 Caenorhabditis elegans larval arrest wormbase
CELE_K04G7.10 Caenorhabditis elegans slow growth wormbase
CELE_K04G7.10 Caenorhabditis elegans sterile wormbase
YIL061C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1143000 Plasmodium berghei Essential plasmo
TGME49_205180 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.

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 TGME49_205180 (Toxoplasma gondii), RNA recognition motif-containing protein
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