Detailed view for Tb927.10.3170

Basic information

TDR Targets ID: 18178
Trypanosoma brucei, ABC transporter, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.7142 | Length (AA): 723 | MW (Da): 82426 | Paralog Number: 1

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

Druggability Group : DG2

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

PF00005   ABC transporter
PF12848   ABC transporter

Gene Ontology

Mouse over links to read term descriptions.
GO:0017111   nucleoside-triphosphatase activity  
GO:0016887   ATPase activity  
GO:0005524   ATP binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
165 705 2iw3 (A) 396 971 28.00 0 1 0.604471 0.79
213 722 4fin (B) 18 538 31.00 0 1 1.03459 0.16
511 698 5x40 (A) 5 212 28.00 0 1 0.567828 -0.73
618 697 5da9 (B) 1195 1293 40.00 0.16 0.84 0.21225 1.4
620 694 1e69 (A) 1066 1145 24.00 0.61 0.52 0.269934 0.21

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
Mid 40-60% percentile Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile 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_126934)

Species Accession Gene Product
Arabidopsis thaliana AT1G64550   ABC transporter F family member 3
Arabidopsis thaliana AT5G64840   general control non-repressible 5
Arabidopsis thaliana AT5G09930   ABC transporter F family member 2
Babesia bovis BBOV_IV008140   ABC transporter ATP-binding protein
Brugia malayi Bm1_54900   ABC transporter family protein
Candida albicans CaO19.13481   ATP-binding cassette protein similar to S. cerevisiae GCN20 (YFR009W) involved in the regulation of translational elongation
Candida albicans CaO19.6060   ATP-binding cassette protein similar to S. cerevisiae GCN20 (YFR009W) involved in the regulation of translational elongation
Caenorhabditis elegans CELE_F42A10.1   Protein ABCF-3
Cryptosporidium hominis Chro.60605   ABC transporter-like protein
Cryptosporidium parvum cgd6_5260   ABC transporter ATpase with 2 AAA domains
Chlamydia trachomatis CT_348   ABC transporter ATPase
Dictyostelium discoideum DDB_G0285997   ABC transporter-related protein
Drosophila melanogaster Dmel_CG9330   CG9330 gene product from transcript CG9330-RA
Escherichia coli b0820   putative transporter subunit of ABC superfamily: ATP-binding component
Escherichia coli b3352   putative transporter subunit of ABC superfamily: ATP-binding component
Echinococcus granulosus EgrG_001101800   ATP binding cassette sub family F
Entamoeba histolytica EHI_175440   non-transporter ABC protein, putative
Echinococcus multilocularis EmuJ_001101800   ATP binding cassette sub family F
Giardia lamblia GL50803_9741   ABC transporter, ATP-binding protein
Homo sapiens ENSG00000161204   ATP-binding cassette, sub-family F (GCN20), member 3
Leishmania braziliensis LbrM.03.0170   ABC transporter protein, putative
Leishmania donovani LdBPK_030150.1   ATP-binding cassette protein subfamily F, member 1, putative
Leishmania infantum LinJ.03.0150   ATP-binding cassette protein subfamily F, member 1, putative
Leishmania major LmjF.03.0160   ATP-binding cassette protein subfamily F, member 1, putative
Leishmania mexicana LmxM.03.0160   ABC transporter protein, putative
Loa Loa (eye worm) LOAG_01507   ABC transporter
Mycobacterium leprae ML1816c   PROBABLE MACROLIDE-TRANSPORT ATP-BINDING PROTEIN ABC TRANSPORTER
Mus musculus ENSMUSG00000003234   ATP-binding cassette, sub-family F (GCN20), member 3
Mycobacterium tuberculosis Rv1473   Probable macrolide-transport ATP-binding protein ABC transporter
Mycobacterium ulcerans MUL_1481   ABC transporter ATP-binding protein
Neospora caninum NCLIV_010850   MGC81714 protein, related
Oryza sativa 4350873   Os11g0603200
Oryza sativa 9266599   Os02g0826500
Plasmodium berghei PBANKA_0926600   protein GCN20, putative
Plasmodium falciparum PF3D7_1121700   protein GCN20
Plasmodium knowlesi PKNH_0919400   protein GCN20, putative
Plasmodium vivax PVX_091705   ABC transporter F family member 2, putative
Plasmodium yoelii PY06050   elongation factor 3 related protein PFEF3-rl
Saccharomyces cerevisiae YFR009W   putative AAA family ATPase GCN20
Schistosoma japonicum Sjp_0010440   ko:K06158 ATP-binding cassette, sub-family F, member 3, putative
Schistosoma mansoni Smp_049500   ATP-dependent transporter
Schmidtea mediterranea mk4.003474.00   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.003391.02   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.000071.18   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.005589.08   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.008768.00   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.030638.00  
Schmidtea mediterranea mk4.001621.00   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.000071.20   ATP-binding cassette sub-family F member 3
Schmidtea mediterranea mk4.002998.02  
Schmidtea mediterranea mk4.000574.00   ATP-binding cassette sub-family F member 3
Trypanosoma brucei gambiense Tbg972.10.4010   ABC transporter, putative
Trypanosoma brucei Tb927.10.3170   ABC transporter, putative
Trypanosoma brucei Tb11.v5.0791   ABC transporter, putative
Trypanosoma congolense TcIL3000_10_2630   ABC transporter, putative
Trypanosoma cruzi TcCLB.510943.80   ABC transporter, putative
Trypanosoma cruzi TcCLB.504867.20   ABC transporter, putative
Toxoplasma gondii TGME49_318710   ATP-binding cassette sub-family F member 1
Toxoplasma gondii TGME49_325700   ATP-binding protein
Toxoplasma gondii TGME49_325600   hypothetical protein
Treponema pallidum TP0838   ABC transporter, ATP-binding protein
Trichomonas vaginalis TVAG_427530   ATP-dependent transporter, putative
Trichomonas vaginalis TVAG_385840   ATP-dependent transporter, putative
Trichomonas vaginalis TVAG_326670   ATP-dependent transporter, putative

Essentiality

Tb927.10.3170 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.3170 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.3170 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.3170 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.3170 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0820 Escherichia coli non-essential goodall
b3352 Escherichia coli non-essential goodall
PBANKA_0926600 Plasmodium berghei Dispensable plasmo
TGME49_318710 Toxoplasma gondii Probably essential sidik
TGME49_325700 Toxoplasma gondii Probably essential sidik
TGME49_325600 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 3 days). References: 21363968
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) 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 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

Druggability index (range: 0 to 1): 0.5

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 Tb927.10.3170 (Trypanosoma brucei), ABC transporter, putative
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