Detailed view for Tb927.9.9600

Basic information

TDR Targets ID: 13410
Trypanosoma brucei, DNA replication licensing factor MCM9, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.7498 | Length (AA): 773 | MW (Da): 84572 | 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

PF00493   MCM2/3/5 family
PF17207   MCM OB domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0005524   ATP binding  
GO:0003677   DNA binding  
GO:0006270   DNA replication initiation  
GO:0006260   DNA replication  

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
5 228 4pof (A) 0 225 18.00 0 1 0.49938 0.39
36 597 4fdg (B) 35 587 28.00 0 1 0.868338 1.36
185 611 4r7y (A) 190 1961 38.00 0 1 0.847893 0.36
619 765 5cwp (A) 70 214 17.00 0.64 0.05 0.446768 -1.13
675 745 5j2l (B) 1 71 13.00 0.91 0 0.31745 -1.17

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. Siegel TN
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_130040)

Species Accession Gene Product
Arabidopsis thaliana AT2G14050   minichromosome maintenance 9
Dictyostelium discoideum DDB_G0286035   MCM family protein
Entamoeba histolytica EHI_076880   DNA replication licensing factor, putative
Echinococcus multilocularis EmuJ_000016000   minichromosome maintenance deficient domain
Echinococcus multilocularis EmuJ_000016100   dna replication licensing factor mcm9
Echinococcus multilocularis EmuJ_001037800   dna replication licensing factor mcm9
Echinococcus multilocularis EmuJ_001037200   dna replication licensing factor mcm9
Echinococcus multilocularis EmuJ_001037500   dna replication licensing factor mcm9
Homo sapiens ENSG00000111877   minichromosome maintenance complex component 9
Leishmania braziliensis LbrM.34.4870   DNA replication factor, putative
Leishmania donovani LdBPK_354970.1   DNA replication factor, putative
Leishmania infantum LinJ.35.4970   DNA replication factor, putative
Leishmania major LmjF.35.4910   DNA replication factor, putative
Leishmania mexicana LmxM.34.4910   DNA replication factor, putative
Mus musculus ENSMUSG00000058298   minichromosome maintenance complex component 9
Oryza sativa 4340503   Os06g0218500
Schistosoma japonicum Sjp_0019020   ko:K10738 minichromosome maintenance protein 9, putative
Schistosoma mansoni Smp_151560   DNA replication licensing factor MCM1
Schmidtea mediterranea mk4.002585.00   DNA helicase MCM9
Trypanosoma brucei gambiense Tbg972.9.5470   minichromosome maintenance (MCM) complex subunit, putative
Trypanosoma brucei Tb927.9.9600   DNA replication licensing factor MCM9, putative
Trypanosoma congolense TcIL3000_9_3440   minichromosome maintenance (MCM) complex subunit, putative
Trypanosoma cruzi TcCLB.506885.290   DNA replication licensing factor MCM9, putative
Trypanosoma cruzi TcCLB.510729.130   DNA replication licensing factor MCM9, putative
Theileria parva TP04_0509   hypothetical protein
Theileria parva TP04_0510   DNA replication licensing factor MCM4, putative

Essentiality

Tb927.9.9600 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.1190 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.1190 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.1190 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.1190 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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) 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 Tb927.9.9600 (Trypanosoma brucei), DNA replication licensing factor MCM9, putative
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