Detailed view for PF3D7_0517700

Basic information

TDR Targets ID: 4208
Plasmodium falciparum, eukaryotic translation initiation factor 3 subunit B, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.2052 | Length (AA): 716 | MW (Da): 84057 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF08662   Eukaryotic translation initiation factor eIF2A

Gene Ontology

Mouse over links to read term descriptions.
GO:0031369   translation initiation factor binding  
GO:0005852   eukaryotic translation initiation factor 3 complex  
GO:0005515   protein binding  
GO:0003743   translation initiation factor activity  
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  
GO:0006413   translational initiation  

Metabolic Pathways

RNA transport (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
70 146 2d9p (A) 292 375 21.00 0.0000087 0.48 0.26 -0.27
179 586 1l0q (A) 5 389 10.00 0 1 0.32 0.2
43 134 2fy1 (A) 2 78 35.00 0.97 0.97 0.347092 0.28
166 615 4u1f (A) 150 625 30.00 0 1 0.780092 0.38
176 615 4nox (A) 168 636 30.00 0 1 0.863125 -0.19
657 714 1lq7 (A) 3 64 28.00 0.75 0.35 0.444406 -1.32

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, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Female Gametocyte, Male Gametocyte. Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Sporozoite. Zanghi G
Show/Hide expression data references
  • 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.
  • 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

Orthologs

Ortholog group members (OG5_128215)

Species Accession Gene Product
Arabidopsis thaliana AT5G27640   translation initiation factor 3 subunit B
Arabidopsis thaliana AT5G25780   eukaryotic translation initiation factor 3B-2
Babesia bovis BBOV_II003250   eukaryotic translation initiation factor 3 subunit, putative
Brugia malayi Bm1_55275   Eif3s9 protein
Candida albicans CaO19.13937   translation initiation factor eIF3 subunit
Candida albicans CaO19_6584   hypothetical protein
Candida albicans CaO19.6584   translation initiation factor eIF3 subunit
Caenorhabditis elegans CELE_Y54E2A.11   Protein EIF-3.B, isoform B
Cryptosporidium hominis Chro.20043   hypothetical protein
Cryptosporidium parvum cgd2_360   prtip-like IF39 eukaryotic translation initiation factor 3
Dictyostelium discoideum DDB_G0283597   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG4878   CG4878 gene product from transcript CG4878-RB
Echinococcus granulosus EgrG_000445000   eukaryotic translation initiation factor 3
Entamoeba histolytica EHI_189410   hypothetical protein, conserved
Entamoeba histolytica EHI_051580   hypothetical protein
Echinococcus multilocularis EmuJ_000445000   eukaryotic translation initiation factor 3
Homo sapiens ENSG00000106263   eukaryotic translation initiation factor 3, subunit B
Leishmania braziliensis LbrM.17.1450   translation initiation factor, putative
Leishmania donovani LdBPK_171390.1   eukaryotic translation initiation factor 3 subunit b
Leishmania infantum LinJ.17.1390   translation initiation factor, putative
Leishmania major LmjF.17.1290   translation initiation factor, putative
Leishmania mexicana LmxM.17.1290   translation initiation factor, putative
Loa Loa (eye worm) LOAG_06233   Eif3s9 protein
Mus musculus ENSMUSG00000056076   eukaryotic translation initiation factor 3, subunit B
Neospora caninum NCLIV_005900   TRANSLATION INITIATION FACTOR 3 SUBUNIT 9-like protein, related
Oryza sativa 4349446   Os10g0569200
Plasmodium berghei PBANKA_1232500   eukaryotic translation initiation factor 3 subunit B, putative
Plasmodium falciparum PF3D7_0517700   eukaryotic translation initiation factor 3 subunit B, putative
Plasmodium knowlesi PKNH_1015600   eukaryotic translation initiation factor 3 subunit B, putative
Plasmodium vivax PVX_080365   Eukaryotic translation initiation factor 3 subunit 9, putative
Plasmodium yoelii PY01620   hypothetical protein
Saccharomyces cerevisiae YOR361C   Prt1p
Schistosoma japonicum Sjp_0217830   ko:K03253 translation initiation factor eIF-3 subunit 9, putative
Schistosoma japonicum Sjp_0128900   IPR011400,Translation initiation factor eIF-3b,domain-containing
Schistosoma mansoni Smp_058460   eukaryotic translation initiation factor 3 (eif3)-related
Schmidtea mediterranea mk4.000551.02   Eukaryotic translation initiation factor 3 subunit B
Trypanosoma brucei gambiense Tbg972.5.3620   translation initiation factor, putative
Trypanosoma brucei Tb927.5.2570   eukaryotic translation initiation factor 3 subunit b
Trypanosoma congolense TcIL3000_5_2520   eukaryotic translation initiation factor 3 subunit b
Trypanosoma cruzi TcCLB.511303.60   eukaryotic translation initiation factor 3 subunit b
Toxoplasma gondii TGME49_222860   eukaryotic translation initiation factor, putative
Theileria parva TP04_0268   hypothetical protein
Trichomonas vaginalis TVAG_333940   eukaryotic translation initiation factor 3 subunit, putative

Essentiality

PF3D7_0517700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.2570 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.5.2570 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.5.2570 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.5.2570 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y54E2A.11 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y54E2A.11 Caenorhabditis elegans larval arrest wormbase
CELE_Y54E2A.11 Caenorhabditis elegans larval lethal wormbase
CELE_Y54E2A.11 Caenorhabditis elegans slow growth wormbase
CELE_Y54E2A.11 Caenorhabditis elegans sterile wormbase
YOR361C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1232500 Plasmodium berghei Essential plasmo
TGME49_222860 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.

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_0517700 (Plasmodium falciparum), eukaryotic translation initiation factor 3 subunit B, putative
Title for this comment
Comment