Detailed view for PF3D7_1318400

Basic information

TDR Targets ID: 377
Plasmodium falciparum, structural maintenance of chromosomes protein 2, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.9699 | Length (AA): 1218 | MW (Da): 143059 | 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

PF02463   RecF/RecN/SMC N terminal domain
PF06470   SMC proteins Flexible Hinge Domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0000070   mitotic sister chromatid segregation  
GO:0005694   chromosome  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0051276   chromosome organization and biogenesis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 9 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
1 160 1e69 (A) 1 1025 31.00 0.000000000022 0.93 0.33 -0.42
2 170 1xew (X) 3 167 41.00 0 1 0.48 -0.41
518 685 1gxj (A) 508 658 23.00 0.0000055 1 0.4 -0.95
1051 1199 1xew (Y) 1017 1171 28.00 0.0000032 1 0.59 -1.35
1 52 1e69 (A) 1 61 47.00 0.0027 0.6 0.476093 0.51
183 365 4uos (A) 5 184 33.00 0.0037 1 0.643546 -1.57
225 951 5czz (A) 272 963 24.00 0.013 1 0.49718 1.66
713 871 4ilo (A) 44 198 22.00 0.22 0.97 0.424842 -0.81
225 951 5czz (A) 272 963 24.00 0.0038 1 0.50748 1.56

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 gametocyte, sporozoite, early schizont, early trophozoite, late schizont, late trophozoite, Oocyst, Female Gametocyte, Male Gametocyte. PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile merozoite, late ring, Sporozoite. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile early ring, Ring. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_127360)

Species Accession Gene Product
Arabidopsis thaliana AT5G62410   structural maintenance of chromosome 2
Arabidopsis thaliana AT3G47460   structural maintenance of chromosomes protein 2-2
Babesia bovis BBOV_II001730   smc family/structural maintenance of chromosome
Brugia malayi Bm1_43270   SMC proteins Flexible Hinge Domain containing protein
Candida albicans CaO19.3623   potential SMC chromosomal ATPase similar to S. cerevisiae SMC2 (YFR031C) nuclear condensin complex ATPase
Candida albicans CaO19.11106   potential SMC chromosomal ATPase similar to S. cerevisiae SMC2 (YFR031C) nuclear condensin complex ATPase
Caenorhabditis elegans CELE_M106.1   Protein MIX-1
Cryptosporidium hominis Chro.40250   SMC2 protein
Cryptosporidium parvum cgd4_2200   SMC2 protein
Dictyostelium discoideum DDB_G0284499   structural maintenance of chromosome protein
Drosophila melanogaster Dmel_CG10212   CG10212 gene product from transcript CG10212-RA
Echinococcus granulosus EgrG_000602100   structural maintenance of chromosomes protein 2
Entamoeba histolytica EHI_049770   mitotic chromosome and X-chromosome-associated protein, putative
Echinococcus multilocularis EmuJ_000602100   structural maintenance of chromosomes protein 2
Giardia lamblia GL50803_23185   Hypothetical protein, similar to SMC2
Homo sapiens ENSG00000136824   structural maintenance of chromosomes 2
Leishmania braziliensis LbrM.05.0410   structural maintenance of chromosome (SMC), putative
Leishmania donovani LdBPK_050400.1   structural maintenance of chromosome (SMC), putative
Leishmania infantum LinJ.05.0400   structural maintenance of chromosome (SMC), putative
Leishmania major LmjF.05.0400   structural maintenance of chromosome (SMC), putative
Leishmania mexicana LmxM.05.0400   structural maintenance of chromosome (SMC), putative
Loa Loa (eye worm) LOAG_05577   hypothetical protein
Loa Loa (eye worm) LOAG_12292   hypothetical protein
Loa Loa (eye worm) LOAG_08510   hypothetical protein
Mus musculus ENSMUSG00000028312   structural maintenance of chromosomes 2
Mycobacterium tuberculosis Rv2922c   Probable chromosome partition protein Smc
Mycobacterium ulcerans MUL_2033   chromosome partition protein Smc
Neospora caninum NCLIV_006710   SMC2 protein, related
Oryza sativa 4325020   Os01g0904400
Plasmodium berghei PBANKA_1416900   structural maintenance of chromosomes protein 2, putative
Plasmodium falciparum PF3D7_1318400   structural maintenance of chromosomes protein 2, putative
Plasmodium knowlesi PKNH_1419200   structural maintenance of chromosomes protein 2, putative
Plasmodium vivax PVX_122740   structural maintenance of chromosome 2, putative
Plasmodium yoelii PY01780   protein mix-1, putative
Saccharomyces cerevisiae YFR031C   condensin subunit SMC2
Schistosoma japonicum Sjp_0216510   ko:K06674 structural maintenance of chromosome 2, putative
Schistosoma japonicum Sjp_0093150   ko:K06674 structural maintenance of chromosome 2, putative
Schistosoma mansoni Smp_171710   structural maintenance of chromosomes smc2
Schmidtea mediterranea mk4.003369.02   Structural maintenance of chromosomes protein 2
Schmidtea mediterranea mk4.013535.00   Mitotic chromosome and X-chromosome-associated protein mix-1
Trypanosoma brucei gambiense Tbg972.10.12590   structural maintenance of chromosome 2, putative
Trypanosoma brucei Tb11.v5.0811   structural maintenance of chromosome 2, putative
Trypanosoma brucei Tb927.10.10340   structural maintenance of chromosome 2, putative
Trypanosoma congolense TcIL3000_10_8800   structural maintenance of chromosome 2, putative
Trypanosoma cruzi TcCLB.511633.60   structural maintenance of chromosome (SMC), putative
Toxoplasma gondii TGME49_297800   RecF/RecN/SMC N terminal domain-containing protein
Theileria parva TP04_0409   condensin subunit, putative
Trichomonas vaginalis TVAG_313860   condensin subunit Smc2

Essentiality

PF3D7_1318400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.10340 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.10340 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.10340 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.10340 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_M106.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_M106.1 Caenorhabditis elegans larval lethal wormbase
YFR031C Saccharomyces cerevisiae inviable yeastgenome
TGME49_297800 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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

Druggability index (range: 0 to 1): 0.2

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier PF3D7_1318400 (Plasmodium falciparum), structural maintenance of chromosomes protein 2, putative
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