Detailed view for PF3D7_0208200

Basic information

TDR Targets ID: 3349
Plasmodium falciparum, KRR1 small subunit processome component, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.4197 | Length (AA): 300 | MW (Da): 36075 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
51 223 1tua (A) 7 184 15.00 0 1 0.87 -0.98
46 219 4qmf (D) 38 211 61.00 0 1 1.3723 -0.92

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 intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, merozoite, sporozoite, early ring, early trophozoite, late ring, late trophozoite, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, gametocyte, early schizont, Female Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 48 hs, late schizont, Sporozoite, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • 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.

Orthologs

Ortholog group members (OG5_127855)

Species Accession Gene Product
Arabidopsis thaliana AT5G08420   RNA-binding KH domain-containing protein
Babesia bovis BBOV_II006650   Ribosomal RNA assembly protein mis3, putative
Brugia malayi Bm1_51375   Hypothetical 37.2 kDa protein in CHA1-PRD1 intergenic region
Candida albicans CaO19.8277   similar to S. cerevisiae KRR1 (YCL059C) part of nucleolar complex required for 40S ribosome biogenesis
Candida albicans CaO19.661   similar to S. cerevisiae KRR1 (YCL059C) part of nucleolar complex required for 40S ribosome biogenesis
Caenorhabditis elegans CELE_C05C8.2   Protein C05C8.2
Cryptosporidium hominis Chro.30334   hypothetical protein
Cryptosporidium parvum cgd3_2950   ribosomal RNA assembly protein mis3/dribble/Krr1p. KH domain
Dictyostelium discoideum DDB_G0280805   hypothetical protein
Drosophila melanogaster Dmel_CG4258   dribble
Echinococcus granulosus EgrG_000930900   krr1 small subunit processome component
Entamoeba histolytica EHI_142020   RNA-binding protein, putative
Echinococcus multilocularis EmuJ_000930900   krr1 small subunit processome component
Giardia lamblia GL50803_12598   KRR1
Homo sapiens 11103   KRR1, small subunit (SSU) processome component, homolog (yeast)
Leishmania braziliensis LbrM.30.3000   hypothetical protein, conserved
Leishmania donovani LdBPK_303050.1   hypothetical protein, conserved
Leishmania infantum LinJ.30.3050   hypothetical protein, conserved
Leishmania major LmjF.30.3020   hypothetical protein, conserved
Leishmania mexicana LmxM.29.3020   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_07118   dribble-PA
Mus musculus ENSMUSG00000063334   KRR1, small subunit (SSU) processome component, homolog (yeast)
Neospora caninum NCLIV_025560   ribosomal RNA assembly protein, putative
Oryza sativa 9270811   Os01g0713700
Oryza sativa 4348775   Os10g0452800
Onchocerca volvulus OVOC6918   KRR1 small subunit processome component homolog
Plasmodium berghei PBANKA_0305300   KRR1 small subunit processome component, putative
Plasmodium falciparum PF3D7_0208200   KRR1 small subunit processome component, putative
Plasmodium knowlesi PKNH_0412900   KRR1 small subunit processome component, putative
Plasmodium vivax PVX_003860   KRR1 small subunit processome component, putative
Plasmodium yoelii PY03494   RNA-binding protein
Saccharomyces cerevisiae YCL059C   Krr1p
Schistosoma japonicum Sjp_0083680   ko:K06961 KRR1, small subunit (SSU) processome component, homolog (yeast), putative
Schistosoma mansoni Smp_115060   hypothetical protein
Schistosoma mansoni Smp_009340   hypothetical protein
Schmidtea mediterranea mk4.000000.36   KRR1 small subunit processome component homolog
Schmidtea mediterranea mk4.000158.06   KRR1 small subunit processome component homolog
Trypanosoma brucei gambiense Tbg972.6.4160   ribosomal RNA assembly protein, putative
Trypanosoma brucei Tb927.6.4350   ribosomal RNA assembly protein, putative
Trypanosoma congolense TcIL3000_6_3770   ribosomal RNA assembly protein, putative
Trypanosoma cruzi TcCLB.509065.130   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506943.120   hypothetical protein, conserved
Toxoplasma gondii TGME49_262070   ribosomal rna assembly protein mis3, putative
Theileria parva TP02_0631   hypothetical protein, conserved
Trichomonas vaginalis TVAG_171780   HIV-1 rev binding protein, putative

Essentiality

PF3D7_0208200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.4350 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.6.4350 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.6.4350 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.4350 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C05C8.2 Caenorhabditis elegans larval arrest wormbase
CELE_C05C8.2 Caenorhabditis elegans slow growth wormbase
YCL059C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0305300 Plasmodium berghei Essential plasmo
TGME49_262070 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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.

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

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PF3D7_0208200 (Plasmodium falciparum), KRR1 small subunit processome component, putative
Title for this comment
Comment