Detailed view for PF3D7_1427500

Basic information

TDR Targets ID: 2585
Plasmodium falciparum, DNA mismatch repair protein MSH2, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.2799 | Length (AA): 811 | MW (Da): 94739 | Paralog Number: 1

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

PF00488   MutS domain V
PF05192   MutS domain III

Gene Ontology

Mouse over links to read term descriptions.
GO:0032300   mismatch repair complex  
GO:0030983   mismatched DNA binding  
GO:0005524   ATP binding  
GO:0003677   DNA binding  
GO:0006298   mismatch repair  

Metabolic Pathways

Mismatch repair (KEGG)

Structural information

Modbase 3D models:

There are 6 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
1 746 1wb9 (A) 120 798 23.00 0 1 1.06 -0.78
23 746 1wb9 (A) 138 798 26.00 0 1 1.19 -0.73
163 737 1ewq (A) 249 755 31.00 0 1 1.06 -0.86
7 809 3thy (A) 139 918 32.00 0 1 1.32164 -0.04
163 737 1ewq (A) 249 755 31.00 0 1 0.959101 0.13
744 808 4hse (A) 400 472 23.00 0.91 0.05 0.356648 -0.64

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 early schizont, late trophozoite. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early trophozoite, late ring, late schizont. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Oocyst. Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, gametocyte, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Sporozoite, Female Gametocyte, Male Gametocyte. Zanghi G Lasonder E
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_127538)

Species Accession Gene Product
Arabidopsis thaliana AT3G18524   DNA mismatch repair protein Msh2
Babesia bovis BBOV_I003810   DNA mismatch repair enzyme, putative
Brugia malayi Bm1_40840   MutS domain III family protein
Candida albicans CaO19.3093   mismatch repair
Candida albicans CaO19.10605   mismatch repair
Caenorhabditis elegans CELE_H26D21.2   Protein MSH-2
Cryptosporidium hominis Chro.80453   MutS 2-related
Cryptosporidium parvum cgd8_3950   MutS like ABC ATpase involved in DNA repair
Dictyostelium discoideum DDB_G0275809   DNA mismatch repair protein
Drosophila melanogaster Dmel_CG4215   spellchecker1
Entamoeba histolytica EHI_172750   DNA mismatch repair protein Msh2, putative
Entamoeba histolytica EHI_123830   DNA mismatch repair protein Msh2, putative
Echinococcus multilocularis EmuJ_000653700   DNA mismatch repair protein MSH2
Echinococcus multilocularis EmuJ_000653500   DNA mismatch repair protein MSH2
Giardia lamblia GL50803_113252   Msh2-like protein
Homo sapiens ENSG00000095002   mutS homolog 2
Leishmania braziliensis LbrM.33.0400   DNA mismatch repair protein, putative,MSH2
Leishmania donovani LdBPK_330420.1   DNA mismatch repair protein MSH2, putative
Leishmania infantum LinJ.33.0420   DNA mismatch repair protein, putative,MSH2
Leishmania major LmjF.33.0410   DNA mismatch repair protein, putative,MSH2
Leishmania mexicana LmxM.32.0410   DNA mismatch repair protein, putative,MSH2
Loa Loa (eye worm) LOAG_03335   MutS domain III family protein
Mus musculus ENSMUSG00000024151   mutS homolog 2 (E. coli)
Neospora caninum NCLIV_026280   DNA mismatch repair protein mutS, related
Oryza sativa 4338271   Os05g0274200
Plasmodium berghei PBANKA_1017100   DNA mismatch repair protein MSH2, putative
Plasmodium berghei PBANKA_0804300   DNA mismatch repair protein MSH2
Plasmodium falciparum PF3D7_1427500   DNA mismatch repair protein MSH2, putative
Plasmodium falciparum PF3D7_0706700   DNA mismatch repair protein MSH2, putative
Plasmodium knowlesi PKNH_1331200   DNA mismatch repair protein MSH2, putative
Plasmodium knowlesi PKNH_0105200   DNA mismatch repair protein MSH2, putative
Plasmodium vivax PVX_085160   DNA mismatch repair enzyme, putative
Plasmodium vivax PVX_087875   DNA mismatch repair enzyme, putative
Plasmodium yoelii PY01096   MutS homolog 2-related
Plasmodium yoelii PY07191   DNA mismatch repair protein msh2
Saccharomyces cerevisiae YOL090W   mismatch repair ATPase MSH2
Schistosoma japonicum Sjp_0071170   DNA mismatch repair protein Msh2, putative
Schistosoma japonicum Sjp_0304130   ko:K08735 DNA mismatch repair protein MSH2, putative
Schistosoma japonicum Sjp_0082100   DNA mismatch repair protein Msh2, putative
Schistosoma japonicum Sjp_0082110   ko:K08735 DNA mismatch repair protein MSH2, putative
Schistosoma mansoni Smp_169120   hypothetical protein
Schmidtea mediterranea mk4.003196.03   DNA mismatch repair protein Msh2
Schmidtea mediterranea mk4.003196.04  
Trypanosoma brucei gambiense Tbg972.10.13330   DNA mismatch repair protein, putative,MSH2
Trypanosoma brucei Tb927.10.11020   DNA mismatch repair protein MSH2, putative
Trypanosoma brucei Tb11.v5.0547   DNA mismatch repair protein, putative
Trypanosoma congolense TcIL3000_10_9220   DNA mismatch repair protein MSH2, putative
Trypanosoma cruzi TcCLB.509643.80   DNA mismatch repair protein MSH2, putative
Trypanosoma cruzi TcCLB.507711.320   DNA mismatch repair protein MSH2, putative
Toxoplasma gondii TGME49_261000   MutS domain V domain-containing protein
Theileria parva TP01_0456   DNA mismatch repair protein MSH2, putative
Trichomonas vaginalis TVAG_300740   mismatch repair protein Msh2 (mutS homolog)

Essentiality

PF3D7_1427500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.11020 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.11020 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.11020 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.11020 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0804300 Plasmodium berghei Dispensable plasmo
PBANKA_1017100 Plasmodium berghei Slow plasmo
TGME49_261000 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.
  • 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.
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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)

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 PF3D7_1427500 (Plasmodium falciparum), DNA mismatch repair protein MSH2, putative
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