Detailed view for Tb927.11.6230

Basic information

TDR Targets ID: 18752
Trypanosoma brucei, protein transport protein SEC61 subunit alpha, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.4341 | Length (AA): 481 | MW (Da): 53648 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 9

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

PF00344   SecY translocase
PF10559   Plug domain of Sec61p

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  
GO:0016020   membrane  
GO:0015450   P-P-bond-hydrolysis-driven protein transmembrane transporter activity  
GO:0015031   protein transport  
GO:0009306   protein secretion  

Metabolic Pathways

Protein export (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
6 478 1rhz (A) 2 432 33.00 0 1 1.25277 0.54
31 163 5ax0 (A) 91 223 11.00 0.18 0.02 0.315907 -0.04
207 321 4ady (A) 95 217 28.00 0.78 0.64 0.383185 0.23

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 Procyclic, Bloodstream Form. 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_127102)

Species Accession Gene Product
Arabidopsis thaliana AT2G34250   SecY protein transport family protein
Arabidopsis thaliana AT1G78720   SecY protein transport family protein
Arabidopsis thaliana AT1G29310   SecY protein transport family protein
Babesia bovis BBOV_I000080   protein transport protein sec61, putative
Brugia malayi Bm1_38585   probable transport protein Sec61 alpha subunit, putative
Candida albicans CaO19.6176   similar to S. cerevisiae SEC61 (YLR378C) membrane component of ER protein translocation apparatus
Caenorhabditis elegans CELE_Y57G11C.15   Protein Y57G11C.15, isoform B
Caenorhabditis elegans CELE_Y57G11C.17   Protein HHAT-2, isoform A
Cryptosporidium hominis Chro.70118   Pfsec61
Cryptosporidium parvum cgd7_950   putative Sec61; signal peptide plus 9 transmembrane domain-containing protein
Dictyostelium discoideum DDB_G0278885   SecY family protein
Drosophila melanogaster Dmel_CG9539   Sec61 alpha subunit
Echinococcus granulosus EgrG_000793000   transport protein Sec61 alpha subunit
Entamoeba histolytica EHI_164500   Sec61 alpha subunit, putative
Echinococcus multilocularis EmuJ_000793000   transport protein Sec61 alpha subunit
Giardia lamblia GL50803_5744   Sec61-alpha
Homo sapiens ENSG00000065665   Sec61 alpha 2 subunit (S. cerevisiae)
Homo sapiens ENSG00000058262   Sec61 alpha 1 subunit (S. cerevisiae)
Leishmania braziliensis LbrM.11.0850   pretranslocation protein, alpha subunit, putative,SEC61-like (pretranslocation process) protein, putative
Leishmania donovani LdBPK_111050.1   protein transport protein SEC61 subunit alpha, putative
Leishmania infantum LinJ.11.1050   pretranslocation protein, alpha subunit, putative,SEC61-like (pretranslocation process) protein, putative
Leishmania major LmjF.11.1050   pretranslocation protein, alpha subunit, putative,SEC61-like (pretranslocation process) protein, putative
Leishmania mexicana LmxM.11.1050   pretranslocation protein, alpha subunit, putative,SEC61-like (pretranslocation process) protein, putative
Loa Loa (eye worm) LOAG_02516   hypothetical protein
Mus musculus ENSMUSG00000030082   Sec61 alpha 1 subunit (S. cerevisiae)
Mus musculus ENSMUSG00000025816   Sec61, alpha subunit 2 (S. cerevisiae)
Neospora caninum NCLIV_036610   hypothetical protein
Oryza sativa 4332042   Os03g0213100
Oryza sativa 4346811   Os09g0347700
Oryza sativa 4346809   Os09g0347500
Plasmodium berghei PBANKA_1359000   protein transport protein SEC61 subunit alpha, putative
Plasmodium falciparum PF3D7_1346100   protein transport protein SEC61 subunit alpha
Plasmodium knowlesi PKNH_1255200   protein transport protein SEC61 subunit alpha, putative
Plasmodium yoelii PY02510   PfSec61
Saccharomyces cerevisiae YLR378C   translocon subunit SEC61
Schistosoma japonicum Sjp_0203400   ko:K03076 preprotein translocase SecY subunit, putative
Schistosoma mansoni Smp_053820   preprotein translocase secy subunit (sec61)
Schmidtea mediterranea mk4.001792.07  
Schmidtea mediterranea mk4.002073.01  
Schmidtea mediterranea mk4.000035.06   Putative preprotein translocase secy subunit
Schmidtea mediterranea mk4.007422.01  
Schmidtea mediterranea mk4.008235.01  
Schmidtea mediterranea mk4.003366.03  
Schmidtea mediterranea mk4.004073.00  
Trypanosoma brucei gambiense Tbg972.11.7030   pretranslocation protein, alpha subunit, putative,SEC61-like (pretranslocation process) protein, putative
Trypanosoma brucei Tb927.11.6230   protein transport protein SEC61 subunit alpha, putative
Trypanosoma congolense TcIL3000.11.6760   protein transport protein SEC61 subunit alpha, putative
Trypanosoma cruzi TcCLB.510101.70   pretranslocation protein, alpha subunit, putative
Trypanosoma cruzi TcCLB.506297.240   protein transport protein SEC61 subunit alpha, putative
Toxoplasma gondii TGME49_269980   preprotein translocase Sec61, putative
Theileria parva TP03_0852   protein transport protein Sec61, putative
Trichomonas vaginalis TVAG_391850   preprotein translocase secy subunit, putative
Trichomonas vaginalis TVAG_193510   preprotein translocase secy subunit, putative
Trichomonas vaginalis TVAG_486840   preprotein translocase secy subunit, putative
Trichomonas vaginalis TVAG_092170   preprotein translocase secy subunit, putative
Trichomonas vaginalis TVAG_416880   preprotein translocase secy subunit, putative

Essentiality

Tb927.11.6230 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.4100 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.02.4100 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.4100 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.4100 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y57G11C.15 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y57G11C.15 Caenorhabditis elegans sterile wormbase
CELE_Y57G11C.17 Caenorhabditis elegans larval arrest wormbase
YLR378C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1359000 Plasmodium berghei Essential plasmo
TGME49_269980 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
growth (GO:0040007) lethal (sensu genetics) (PATO:0000718) single cell organism (CARO:0000064) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
cell morphogenesis (GO:0000902) normal (PATO:0000461) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
regulation of cell motility (GO:0051270) normal (PATO:0000461) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
cell cycle (GO:0007049) normal (PATO:0000461) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
mitochondrion organization and biogenesis (GO:0007005) normal (PATO:0000461) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
regulation of cell motility (GO:0051270) normal (PATO:0000461) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
endocytosis (GO:0006897) abnormal (PATO:0000460) bloodstream stage (PLO:0040) inferred from RNAi experiment (ECO:0000019) Trypanosoma brucei brucei No drug identifiers listed for this gene.
Annotator: ts4@sanger.ac.uk. Comment: . References: 16963636
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss 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 Tb927.11.6230 (Trypanosoma brucei), protein transport protein SEC61 subunit alpha, putative
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