Detailed view for Tb927.9.5730

Basic information

TDR Targets ID: 10590
Trypanosoma brucei, nucleosome assembly protein-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.3108 | Length (AA): 422 | MW (Da): 47585 | Paralog Number: 1

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

PF00956   Nucleosome assembly protein (NAP)

Gene Ontology

Mouse over links to read term descriptions.
GO:0042393   histone binding  
GO:0005634   nucleus  
GO:0006334   nucleosome assembly  

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
36 370 2ayu (A) 88 370 32.00 0 1 0.844819 0.68
156 362 3gyw (A) 88 279 36.00 0 1 0.272157 -0.02
164 295 3hfd (A) 99 231 41.00 0.00000000014 0.95 0.616086 -0.18
300 339 2jss (B) 3 35 21.00 0 0.01 0.221538 -1.48

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_127308)

Species Accession Gene Product
Arabidopsis thaliana AT2G19480   2
Arabidopsis thaliana AT5G56950   3
Arabidopsis thaliana AT4G26110   1
Babesia bovis BBOV_IV002050   nucleosome assembly protein 1
Brugia malayi Bm1_27810   nucleosome assembly protein 1
Candida albicans CaO19.7501   similar to nucleosome assembly protein I
Caenorhabditis elegans CELE_D2096.8   Protein NAP-1
Cryptosporidium hominis Chro.40090   nucleosome assembly protein
Cryptosporidium parvum cgd4_720   putative nucleosome assembly protein 19075338; besthit Py 23481872
Dictyostelium discoideum DDB_G0269290   hypothetical protein
Drosophila melanogaster Dmel_CG5017   milkah
Drosophila melanogaster Dmel_CG5330   Nucleosome assembly protein 1
Echinococcus granulosus EgrG_000394500   nucleosome assembly protein 1 4
Echinococcus granulosus EgrG_001042500   nucleosome assembly protein
Entamoeba histolytica EHI_139460   nucleosome assembly protein, putative
Echinococcus multilocularis EmuJ_000394500   nucleosome assembly protein 1 4
Echinococcus multilocularis EmuJ_001042500   nucleosome assembly protein
Homo sapiens ENSG00000205531   nucleosome assembly protein 1-like 4
Homo sapiens ENSG00000187109   nucleosome assembly protein 1-like 1
Leishmania braziliensis LbrM.19.0760   nucleosome assembly protein, putative
Leishmania braziliensis LbrM.31.1980   nucleosome assembly protein-like protein
Leishmania donovani LdBPK_311770.1   nucleosome assembly protein-like protein
Leishmania donovani LdBPK_190440.1   nucleosome assembly protein, putative
Leishmania infantum LinJ.19.0440   nucleosome assembly protein, putative
Leishmania infantum LinJ.31.1770   nucleosome assembly protein-like protein
Leishmania major LmjF.19.0440   nucleosome assembly protein, putative
Leishmania major LmjF.31.1750   nucleosome assembly protein-like protein
Leishmania mexicana LmxM.19.0440   nucleosome assembly protein, putative
Leishmania mexicana LmxM.30.1750   nucleosome assembly protein-like protein
Loa Loa (eye worm) LOAG_04108   nucleosome assembly protein 1
Mus musculus ENSMUSG00000059119   nucleosome assembly protein 1-like 4
Mus musculus ENSMUSG00000058799   nucleosome assembly protein 1-like 1
Neospora caninum NCLIV_018710   hypothetical protein
Oryza sativa 9269473   Os01g0711800
Oryza sativa 4339460   Os05g0539700
Oryza sativa 4340137   Os06g0149400
Plasmodium berghei PBANKA_0602700   nucleosome assembly protein, putative
Plasmodium falciparum PF3D7_1203700   nucleosome assembly protein
Plasmodium knowlesi PKNH_1303500   nucleosome assembly protein, putative
Plasmodium vivax PVX_084230   nucleosome assembly protein, putative
Plasmodium yoelii PY05915   nucleosome assembly protein
Saccharomyces cerevisiae YKR048C   histone chaperone NAP1
Schistosoma japonicum Sjp_0007550   Nucleosome assembly protein 1-like 4, putative
Schistosoma mansoni Smp_023530   nucleosome assembly protein
Schmidtea mediterranea mk4.000759.03   Putative nucleosome assembly protein
Schmidtea mediterranea mk4.004920.03  
Trypanosoma brucei gambiense Tbg972.9.3040   nucleosome assembly protein-like protein, putative
Trypanosoma brucei gambiense Tbg972.10.18470   nucleosome assembly protein, putative
Trypanosoma brucei Tb927.9.5730   nucleosome assembly protein-like protein
Trypanosoma brucei Tb927.10.15180   nucleosome assembly protein, putative
Trypanosoma congolense TcIL3000_0_09860   nucleosome assembly protein, putative
Trypanosoma congolense TcIL3000_9_1940   nucleosome assembly protein-like protein, putative
Trypanosoma congolense TcIL3000_10_12960   nucleosome assembly protein, putative
Trypanosoma cruzi TcCLB.505983.20   nucleosome assembly protein-like protein, putative
Trypanosoma cruzi TcCLB.507963.79   nucleosome assembly protein, putative
Trypanosoma cruzi TcCLB.504839.50   nucleosome assembly protein-like protein, putative
Trypanosoma cruzi TcCLB.507031.29   nucleosome assembly protein, putative
Toxoplasma gondii TGME49_244110   nucleosome assembly protein (nap) protein
Theileria parva TP03_0447   nucleosome assembly protein 1, putative

Essentiality

Tb927.9.5730 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.4240 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.160.4240 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.160.4240 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.160.4240 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.15180 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.15180 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.15180 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.15180 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_D2096.8 Caenorhabditis elegans embryonic lethal wormbase
CELE_D2096.8 Caenorhabditis elegans larval arrest wormbase
CELE_D2096.8 Caenorhabditis elegans larval lethal wormbase
CELE_D2096.8 Caenorhabditis elegans slow growth wormbase
PBANKA_0602700 Plasmodium berghei Essential plasmo
TGME49_244110 Toxoplasma gondii Essentiality uncertain 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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 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 procyclic forms . 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

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 Tb927.9.5730 (Trypanosoma brucei), nucleosome assembly protein-like protein
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