Detailed view for LmjF.35.4910

Basic information

TDR Targets ID: 28671
Leishmania major, DNA replication factor, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.419 | Length (AA): 908 | MW (Da): 97076 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | 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: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 11 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
52 243 1ltl (A) 35 221 19.00 0.00000000016 0.84 0.35 0.7
203 323 1qkk (A) 10 134 11.00 0.000098 0 0.2 -0.04
315 704 1hqc (A) 5 307 22.00 0 1 0.17 0.55
321 630 1g8p (A) 23 347 17.00 0 1 0.41 -0.55
5 242 4pof (A) 4 228 17.00 0 0.64 0.352115 0.61
30 110 2gqb (A) 13 107 30.00 0.85 0.08 0.00480705 2.14
57 620 4fdg (B) 46 596 27.00 0 1 0.753445 1.23
128 625 4r7y (A) 118 1961 34.00 0 1 0.795058 0.55
315 618 3f8t (A) 207 484 35.00 0 1 0.592402 0.04
353 619 3f8t (A) 237 485 30.00 0 1 0.475353 0.34
824 882 2ly1 (A) 298 355 33.00 0.13 0.02 0.384578 -0.06

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 amastigotes. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

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

LmjF.35.4910 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.1190 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.1190 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.1190 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.1190 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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

No literature references available for this target.

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Gene identifier LmjF.35.4910 (Leishmania major), DNA replication factor, putative
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