Detailed view for Tb927.10.7050

Basic information

TDR Targets ID: 11830
Trypanosoma brucei, chromatin assembly factor 1 subunit B, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.1995 | Length (AA): 550 | MW (Da): 60345 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF00400   WD domain, G-beta repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0006351   transcription, DNA-dependent  
GO:0006325   establishment and/or maintenance of chromatin architecture  
GO:0005634   nucleus  
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
24 296 4aez (A) 125 398 24.00 0.000051 1 0.606864 0.68
95 222 1nr0 (A) 7 135 16.00 0 0.4 0.396927 0.04
101 207 4ery (A) 50 146 31.00 0.0001 0.98 0.532045 -0.41
137 179 4a11 (B) 36 77 43.00 0.31 0.45 0.466682 0.05

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 Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_128392)

Species Accession Gene Product
Arabidopsis thaliana AT5G64630   chromatin assembly factor 1 subunit FAS2
Babesia bovis BBOV_IV007050   chromatin assembly factor 1 subunit B, putative
Brugia malayi Bm1_36390   Chromatin assembly factor 1 subunit B
Candida albicans CaO19.6670   subunit of chromatin assembly factor 1
Caenorhabditis elegans CELE_Y71G12B.1   Protein CHAF-2, isoform A
Cryptosporidium hominis Chro.70070   hypothetical protein
Cryptosporidium parvum cgd7_560   hypothetical protein
Dictyostelium discoideum DDB_G0277941   WD40 repeat-containing protein
Dictyostelium discoideum DDB_G0269800   hypothetical protein
Drosophila melanogaster Dmel_CG12892   CG12892 gene product from transcript CG12892-RA
Echinococcus granulosus EgrG_000461100   chromatin assembly factor 1 subunit b
Echinococcus multilocularis EmuJ_000461100   chromatin assembly factor 1 subunit b
Homo sapiens 8208   chromatin assembly factor 1, subunit B (p60)
Leishmania braziliensis LbrM.35.2710   chromatin assembly factor 1 subunit b-like protein
Leishmania donovani LdBPK_362630.1   chromatin assembly factor 1 subunit b-like protein
Leishmania infantum LinJ.36.2630   chromatin assembly factor 1 subunit b-like protein
Leishmania major LmjF.36.2500   chromatin assembly factor 1 subunit b-like protein
Leishmania mexicana LmxM.36.2500   chromatin assembly factor 1 subunit b-like protein
Loa Loa (eye worm) LOAG_04232   chromatin assembly factor 1 subunit B
Mus musculus ENSMUSG00000022945   chromatin assembly factor 1, subunit B (p60)
Neospora caninum NCLIV_031600   hypothetical protein
Oryza sativa 4344464   Os08g0108200
Plasmodium berghei PBANKA_1101600   chromosome assembly factor 1, putative
Plasmodium falciparum PF3D7_0501800   chromosome assembly factor 1
Plasmodium knowlesi PKNH_1032100   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_097595   hypothetical protein, conserved
Plasmodium yoelii PY03920   Arabidopsis thaliana At5g64630/MUB3_15
Saccharomyces cerevisiae YML102W   Cac2p
Schistosoma japonicum Sjp_0120800   Chromatin assembly factor 1 subunit B, putative
Schistosoma japonicum Sjp_0103730   ko:K10751 chromatin assembly factor 1 subunit B, putative
Schistosoma mansoni Smp_153610   chromatin assembly factor I P60 subunit
Schmidtea mediterranea mk4.000650.07   Chromatin assembly factor 1 subunit B
Trypanosoma brucei gambiense Tbg972.10.8600   chromatin assembly factor 1 subunit B, putative
Trypanosoma brucei Tb927.10.7050   chromatin assembly factor 1 subunit B, putative
Trypanosoma congolense TcIL3000_10_6050   chromatin assembly factor 1 subunit B, putative
Trypanosoma cruzi TcCLB.510181.60   chromatin assembly factor 1 subunit B, putative
Trypanosoma cruzi TcCLB.503431.100   chromatin assembly factor 1 subunit B, putative
Toxoplasma gondii TGME49_231280   WD domain, G-beta repeat-containing protein
Theileria parva TP03_0203   hypothetical protein

Essentiality

Tb927.10.7050 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.7050 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.7050 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.7050 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.7050 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y71G12B.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y71G12B.1 Caenorhabditis elegans sterile wormbase
TGME49_231280 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 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) 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 Tb927.10.7050 (Trypanosoma brucei), chromatin assembly factor 1 subunit B, putative
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