Detailed view for PBANKA_0901600

Basic information

TDR Targets ID: 825156
Plasmodium berghei, protein farnesyltransferase subunit beta, putative
Source Database / ID: 

pI: 7.8988 | Length (AA): 1014 | MW (Da): 118846 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG

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

PF00432   Prenyltransferase and squalene oxidase repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0018343   protein farnesylation  
GO:0005965   protein farnesyltransferase complex  
GO:0003824   catalytic activity  

Structural information

Modbase 3D models:

There are 7 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
1 373 2vk9 (A) 122 510 25.00 0.91 0.77 0.27445 0.89
9 328 2yk0 (A) 377 694 28.00 0.77 0.24 0.106182 2.02
421 989 4l9p (B) 68 515 26.00 0 1 0.310044 0.93
453 987 3ksl (B) 43 416 36.00 0 1 0.159913 0.99
481 809 1n4q (B) 18 361 24.00 0 1 0.587358 -0.31
482 794 3dss (B) 17 315 21.00 0 1 0.579579 -0.39
483 727 3q7a (B) 61 331 34.00 0 1 0.510217 0.1

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 Erthyrocytic stages. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile 16 hs Trophozoite, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Gametocyte, Ookinete, 4 hs Ring, 22 hs Schizont, Female gametocyte. Otto TD Yeoh LM
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_128081)

Species Accession Gene Product
Arabidopsis thaliana AT5G40280   farnesyltransferase subunit beta
Babesia bovis BBOV_III004550   prenyltransferase and squalene oxidase repeat family protein
Brugia malayi Bm1_50565   Prenyltransferase and squalene oxidase repeat family protein
Candida albicans CaO19.12513   similar to S. cerevisiae RAM1 (YDL090C) beta subunit of farnesyl transferase (Ram1p+Ram2p), involved in prenylation of RAS prote
Candida albicans CaO19.5046   similar to S. cerevisiae RAM1 (YDL090C) beta subunit of farnesyl transferase (Ram1p+Ram2p), involved in prenylation of RAS prote
Caenorhabditis elegans CELE_F23B12.6   Protein FNTB-1
Cryptosporidium hominis Chro.10227   chain B, structure of fpt bound to ggpp
Cryptosporidium parvum cgd1_1980   protein geranyl-geranyltransferase beta subunit
Dictyostelium discoideum DDB_G0270948   protein farnesyltransferase beta subunit
Drosophila melanogaster Dmel_CG17565   CG17565 gene product from transcript CG17565-RA
Echinococcus granulosus EgrG_000512700   protein farnesyltransferase subunit beta
Entamoeba histolytica EHI_006190   protein farnesyltransferase beta subunit, putative
Echinococcus multilocularis EmuJ_000512700   protein farnesyltransferase subunit beta
Giardia lamblia GL50803_9382   Prenyltransferase
Homo sapiens 100529261   CHURC1-FNTB readthrough
Homo sapiens ENSG00000257365   farnesyltransferase, CAAX box, beta
Leishmania braziliensis LbrM.26.1490   farnesyltransferase beta subunit
Leishmania donovani LdBPK_261450.1   farnesyltransferase beta subunit
Leishmania infantum LinJ.26.1450   farnesyltransferase beta subunit
Leishmania major LmjF.26.1470   farnesyltransferase beta subunit
Leishmania mexicana LmxM.26.1470   farnesyltransferase beta subunit
Loa Loa (eye worm) LOAG_01284   prenyltransferase and squalene oxidase repeat family protein
Mus musculus 102643287   protein farnesyltransferase subunit beta-like
Mus musculus ENSMUSG00000033373   farnesyltransferase, CAAX box, beta
Neospora caninum NCLIV_038220   protein farnesyltranstransferase beta subunit, putative
Oryza sativa 4327880   Os01g0737800
Plasmodium berghei PBANKA_0901600   protein farnesyltransferase subunit beta, putative
Plasmodium falciparum PF3D7_1147500   protein farnesyltransferase subunit beta
Plasmodium knowlesi PKNH_0945400   protein farnesyltransferase subunit beta, putative
Plasmodium knowlesi PKNH_0945300   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_092962   farnesyltransferase beta subunit, putative
Plasmodium vivax PVX_092958   conserved Plasmodium protein, unknown function
Plasmodium yoelii PY02409   Prenyltransferase and squalene oxidase repeat, putative
Saccharomyces cerevisiae YDL090C   protein farnesyltransferase
Schistosoma japonicum Sjp_0215430   ko:K05954 farnesyltransferase, CAAX box, beta [EC:2.5.1.58], putative
Schistosoma mansoni Smp_065780   protein farnesyltransferase subunit beta
Schmidtea mediterranea mk4.001561.00  
Trypanosoma brucei gambiense Tbg972.7.310   protein farnesyltransferase beta subunit, putative
Trypanosoma brucei Tb927.7.460   protein farnesyltransferase beta subunit
Trypanosoma cruzi TcCLB.507747.220   protein farnesyltransferase, putative
Trypanosoma cruzi TcCLB.503723.70   protein farnesyltransferase, putative
Toxoplasma gondii TGME49_200370   prenyltransferase and squalene oxidase repeat-containing protein
Theileria parva TP02_0810   farnesyltransferase beta subunit, putative
Trichomonas vaginalis TVAG_366000   geranylgeranyl transferase type II beta subunit, putative
Trichomonas vaginalis TVAG_464130   geranylgeranyl transferase type II beta subunit, putative
Trichomonas vaginalis TVAG_462400   geranylgeranyl transferase type II beta subunit, putative
Trichomonas vaginalis TVAG_151840   type I geranylgeranyltransferase beta subunit, putative
Trichomonas vaginalis TVAG_338240   geranylgeranyl transferase type beta subunit, putative
Trichomonas vaginalis TVAG_021630   geranylgeranyl transferase type I beta subunit, putative

Essentiality

PBANKA_0901600 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.460 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.460 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.460 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.7.460 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F23B12.6 Caenorhabditis elegans embryonic lethal wormbase
PBANKA_0901600 this record Plasmodium berghei Essential plasmo
TGME49_200370 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.

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
Species Known druggable target Linked compounds Reference
Trypanosoma cruzi protein farnesyltransferase, putative Compounds References
Trypanosoma cruzi protein farnesyltransferase, putative Compounds References
Saccharomyces cerevisiae protein farnesyltransferase Compounds References
Homo sapiens farnesyltransferase, CAAX box, beta Compounds References
Rattus norvegicus Protein farnesyltransferase Compounds References
Mus musculus farnesyltransferase, CAAX box, beta Compounds References
Bos taurus Protein farnesyltransferase Compounds References
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 PBANKA_0901600 (Plasmodium berghei), protein farnesyltransferase subunit beta, putative
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