Detailed view for Tb927.10.12450

Basic information

TDR Targets ID: 16358
Trypanosoma brucei, SNARE domain-containing protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.2989 | Length (AA): 205 | MW (Da): 22907 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 1

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

PF13774   Regulated-SNARE-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  
GO:0016192   vesicle-mediated transport  
GO:0006810   transport  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
1 141 2nut (C) 1 151 37.00 0 1 1.1343 -0.79
2 136 2dmw (A) 10 130 26.00 0 1 0.934137 -0.63
41 99 2ohh (A) 135 198 39.00 0.18 0.58 0.462305 1.11

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 60-80% percentile Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Procyclic. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_128390)

Species Accession Gene Product
Arabidopsis thaliana AT5G52270   SNARE-like superfamily protein
Arabidopsis thaliana AT1G11890   vesicle transport protein SEC22
Babesia bovis BBOV_II004640   vesicle transport protein, putative
Brugia malayi Bm1_04820   vesicle trafficking protein SEC22b
Caenorhabditis elegans CELE_F55A4.1   Protein SEC-22
Cryptosporidium hominis Chro.10214   vesicle transport protein
Cryptosporidium parvum cgd1_1890   vesicle transport protein, putative
Dictyostelium discoideum DDB_G0269942   hypothetical protein
Drosophila melanogaster Dmel_CG7359   Sec22 ortholog (S. cerevisiae)
Echinococcus granulosus EgrG_000253300   vesicle trafficking protein SEC22b
Echinococcus multilocularis EmuJ_000253300   vesicle trafficking protein SEC22b
Giardia lamblia GL50803_9489   V-SNARE
Loa Loa (eye worm) LOAG_01117   vesicle trafficking protein SEC22b
Mus musculus 20333   SEC22 vesicle trafficking protein homolog B (S. cerevisiae)
Neospora caninum NCLIV_036540   vesicle trafficking protein, putative
Oryza sativa 4334384   Os03g0791500
Oryza sativa 9271327   Os06g0198800
Plasmodium berghei PBANKA_1218400   protein transport protein SEC22, putative
Plasmodium falciparum PF3D7_0320100   protein transport protein SEC22
Plasmodium knowlesi PKNH_0821100   protein transport protein SEC22, putative
Plasmodium vivax PVX_095230   vesicle transport protein Sec22, putative
Plasmodium yoelii PY01819   hypothetical protein
Plasmodium yoelii PY01820   hypothetical protein
Saccharomyces cerevisiae YLR268W   Sec22p
Schistosoma japonicum Sjp_0213430   ko:K08517 vesicle transport protein SEC22, putative
Schistosoma mansoni Smp_035300.2   snare protein sec22
Schistosoma mansoni Smp_035300.1   snare protein sec22
Schmidtea mediterranea mk4.002757.02   Putative snare protein sec22
Schmidtea mediterranea mk4.001859.03  
Trypanosoma brucei gambiense Tbg972.10.15000   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.12450   SNARE domain-containing protein, putative
Trypanosoma cruzi TcCLB.507625.183   SNARE domain-containing protein, putative
Trypanosoma cruzi TcCLB.509741.40   hypothetical protein, conserved
Toxoplasma gondii TGME49_270070   synaptobrevin family protein
Theileria parva TP02_0290   vesicle transport protein, putative
Trichomonas vaginalis TVAG_381070   snare proteins, putative

Essentiality

Tb927.10.12450 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.12450 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.12450 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.12450 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.12450 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1218400 Plasmodium berghei Essential plasmo
TGME49_270070 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) increased (PATO:0000470) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in bloodstream forms (stage 3 days). References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in procyclic forms . References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

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Gene identifier Tb927.10.12450 (Trypanosoma brucei), SNARE domain-containing protein, putative
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