Detailed view for TGME49_286920

Basic information

TDR Targets ID: 264819
Toxoplasma gondii, SWIRM domain-containing protein
Source Database / ID:  ToxoDB 

pI: 4.9582 | Length (AA): 780 | MW (Da): 83974 | Paralog Number: 0

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

Druggability Group : DG5

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

PF00249   Myb-like DNA-binding domain
PF04433   SWIRM domain
PF16495   SWIRM-associated region 1

Gene Ontology

Mouse over links to read term descriptions.
GO:0003677   DNA binding  
GO:0005515   protein binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 7 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
272 358 2fq3 (A) 311 395 38.00 0 0.98 0.76 -2.05
489 537 1gvd (A) 90 138 31.00 0.000000000052 1 0.62 -1.98
491 537 1x41 (A) 8 54 23.00 0.0000058 0.62 0.51 -2.09
274 357 2fq3 (A) 313 394 40.00 0.00000000039 0.87 0.647792 -0.82
486 554 2din (A) 1 63 37.00 0.068 1 0.458562 -1.09
486 553 2yus (A) 1 79 43.00 0.0000011 1 0.484279 -0.66
595 671 5d2s (A) 101 179 19.00 0 0.1 0.535618 -3.29

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 Bradyzoite. Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite, ME49 Oocyst. Gregory Hehl AB Fritz HM
Show/Hide expression data references
  • 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
  • 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_127525)

Species Accession Gene Product
Arabidopsis thaliana AT4G34430   SWI/SNF complex subunit SWI3D
Arabidopsis thaliana AT1G21700   SWI/SNF complex subunit SWI3C
Arabidopsis thaliana AT2G33610   switch subunit 3
Arabidopsis thaliana AT2G47620   SWI/SNF complex subunit SWI3A
Brugia malayi Bm1_20550   SWIRM domain containing protein
Candida albicans CaO19.4488   General RNA polymerase II transcription factor
Candida albicans CaO19.11964   General RNA polymerase II transcription factor
Candida albicans CaO19.7234   similar to eighth largest subunit (RSC8) of S. cerevisiae nucleosome remodeling complex
Caenorhabditis elegans CELE_Y113G7B.23   Protein SWSN-1, isoform B
Cryptosporidium hominis Chro.20189   erythrocyte membrane protein PFEMP3
Cryptosporidium parvum cgd2_1740   RSC8 ortholog with a swirm domain, ZZ finger and Myb
Dictyostelium discoideum DDB_G0277033   SWIRM domain-containing protein
Drosophila melanogaster Dmel_CG18740   moira
Echinococcus granulosus EgrG_001118700   SWI:SNF complex subunit SMARCC2
Echinococcus multilocularis EmuJ_001118700   SWI:SNF complex subunit SMARCC2
Homo sapiens ENSG00000139613   SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2
Homo sapiens ENSG00000173473   SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1
Loa Loa (eye worm) LOAG_04430   hypothetical protein
Mus musculus ENSMUSG00000032481   SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1
Mus musculus ENSMUSG00000025369   SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2
Neospora caninum NCLIV_013840   hypothetical protein
Oryza sativa 4336176   Os04g0480300
Oryza sativa 4349954   Os11g0183700
Oryza sativa 4328597   Os02g0194000
Oryza sativa 9266524   Os12g0176600
Oryza sativa 4334928   Os04g0110300
Saccharomyces cerevisiae YFR037C   Rsc8p
Saccharomyces cerevisiae YJL176C   Swi3p
Schistosoma japonicum Sjp_0076870   SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 2, putative
Schistosoma mansoni Smp_152650   SWI/SNF complex-related
Schmidtea mediterranea mk4.002006.06   Brahma associated protein 155 kDa
Schmidtea mediterranea mk4.035810.01   Brahma associated protein 155 kDa
Schmidtea mediterranea mk4.034641.00   Brahma associated protein 155 kDa
Schmidtea mediterranea mk4.035810.02   Brahma associated protein 155 kDa
Schmidtea mediterranea mk4.034641.01   Brahma associated protein 155 kDa
Schmidtea mediterranea mk4.002752.01   SWI/SNF complex subunit SMARCC-1
Toxoplasma gondii TGME49_286920   SWIRM domain-containing protein
Theileria parva TP03_0714   hypothetical protein
Trichomonas vaginalis TVAG_288520   conserved hypothetical protein
Trichomonas vaginalis TVAG_002270   conserved hypothetical protein
Trichomonas vaginalis TVAG_153470   conserved hypothetical protein

Essentiality

TGME49_286920 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
CELE_Y113G7B.23 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y113G7B.23 Caenorhabditis elegans larval arrest wormbase
CELE_Y113G7B.23 Caenorhabditis elegans larval lethal wormbase
CELE_Y113G7B.23 Caenorhabditis elegans slow growth wormbase
CELE_Y113G7B.23 Caenorhabditis elegans sterile wormbase
YFR037C Saccharomyces cerevisiae inviable yeastgenome
TGME49_286920 this record 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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_286920 (Toxoplasma gondii), SWIRM domain-containing protein
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