Detailed view for PVX_086075

Basic information

TDR Targets ID: 269776
Plasmodium vivax, fibrillarin, putative
Source Database / ID:  PlasmoDB 

pI: 10.8105 | Length (AA): 341 | MW (Da): 36117 | 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

PF01269   Fibrillarin

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0008168   methyltransferase activity  
GO:0003723   RNA binding  
GO:0006364   rRNA processing  

Metabolic Pathways

Ribosome biogenesis in eukaryotes (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
80 329 1o54 (A) 1 232 19.00 0.00000000063 1 0.79 0.45
116 339 1g8a (A) 7 225 46.00 0 1 1.3 -1.16
117 341 1fbn (A) 7 228 40.00 0 1 1.26 -1.44
46 82 3bog (C) 3 79 76.00 0.000000000072 0.09 0.883304 -0.1
114 341 2ipx (A) 88 315 70.00 0 1 1.56042 -1.36
185 246 2yxl (A) 258 321 32.00 0.12 0.74 0.664618 -1.23

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 intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 48 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intraerythrocytic - 24 hs, intraerythrocytic - 36 hs, intraerythrocytic - 40 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intraerythrocytic - 30 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_127191)

Species Accession Gene Product
Arabidopsis thaliana AT4G25630   mediator of RNA polymerase II transcription subunit 36a
Babesia bovis BBOV_III008920   fibrillarin, putative
Brugia malayi Bm1_55190   Fibrillarin
Candida albicans CaO19.3138   similar to human fibrillarin
Candida albicans CaO19.10650   similar to human fibrillarin
Caenorhabditis elegans CELE_T01C3.7   Protein FIB-1
Cryptosporidium hominis Chro.80497   fibrillarin
Cryptosporidium parvum cgd8_4330   fibrillarin. RNA methylase
Dictyostelium discoideum DDB_G0269878   rRNA 2'-O-methyltransferase
Drosophila melanogaster Dmel_CG9888   Fibrillarin
Echinococcus granulosus EgrG_000801600   rRNA 2' O methyltransferase fibrillarin
Entamoeba histolytica EHI_118840   fibrillarin, putative
Echinococcus multilocularis EmuJ_000801600   rRNA 2' O methyltransferase fibrillarin
Giardia lamblia GL50803_97219   Fibrillarin-like pre-rRNA processing protein Narcisi et al
Homo sapiens ENSG00000105202   fibrillarin
Leishmania braziliensis LbrM.35.3290   fibrillarin
Leishmania braziliensis LbrM.19.0410   fibrillarin, putative
Leishmania donovani LdBPK_363220.1   fibrillarin
Leishmania donovani LdBPK_190090.1   fibrillarin, putative
Leishmania infantum LinJ.36.3220   fibrillarin
Leishmania infantum LinJ.19.0090   fibrillarin, putative
Leishmania major LmjF.36.3070   fibrillarin
Leishmania major LmjF.19.0100   fibrillarin, putative
Leishmania mexicana LmxM.36.3070   fibrillarin
Leishmania mexicana LmxM.19.0100   fibrillarin, putative
Loa Loa (eye worm) LOAG_04840   fibrillarin
Mus musculus ENSMUSG00000046865   fibrillarin
Mus musculus 102643269   rRNA 2'-O-methyltransferase fibrillarin-like
Neospora caninum NCLIV_055330   Fibrillarin superfamily, related
Plasmodium berghei PBANKA_1035100   rRNA 2'-O-methyltransferase fibrillarin, putative
Plasmodium falciparum PF3D7_1407100   rRNA 2'-O-methyltransferase fibrillarin, putative
Plasmodium knowlesi PKNH_1351000   rRNA 2'-O-methyltransferase fibrillarin, putative
Plasmodium vivax PVX_086075   fibrillarin, putative
Saccharomyces cerevisiae YDL014W   rRNA methyltransferase NOP1
Schistosoma japonicum Sjp_0009930   rRNA 2'-O-methyltransferase fibrillarin 1, putative
Schistosoma mansoni Smp_044280.2   fibrillarin
Schistosoma mansoni Smp_044280.1   fibrillarin
Schmidtea mediterranea mk4.014323.00   rRNA 2'-O-methyltransferase fibrillarin
Schmidtea mediterranea mk4.004042.00   rRNA 2'-O-methyltransferase fibrillarin
Schmidtea mediterranea mk4.009129.00   rRNA 2'-O-methyltransferase fibrillarin
Schmidtea mediterranea mk4.000957.12   rRNA 2'-O-methyltransferase fibrillarin
Trypanosoma brucei gambiense Tbg972.10.17780   fibrillarin, putative
Trypanosoma brucei gambiense Tbg972.10.9180   fibrillarin, putative
Trypanosoma brucei gambiense Tbg972.10.17910   fibrillarin, putative
Trypanosoma brucei Tb927.10.14750   fibrillarin, putative
Trypanosoma brucei Tb927.10.7500   fibrillarin
Trypanosoma brucei Tb927.10.14630   fibrillarin, putative
Trypanosoma congolense TcIL3000_10_6460   fibrillarin, putative
Trypanosoma cruzi TcCLB.510105.50   fibrillarin, putative
Trypanosoma cruzi TcCLB.506211.250   fibrillarin, putative
Trypanosoma cruzi TcCLB.509715.40   fibrillarin, putative
Trypanosoma cruzi TcCLB.511287.150   fibrillarin, putative
Toxoplasma gondii TGME49_311430   fibrillarin
Theileria parva TP04_0795   fibrillarin, putative
Trichomonas vaginalis TVAG_380100   fibrillarin, putative
Trichomonas vaginalis TVAG_282140   fibrillarin, putative

Essentiality

PVX_086075 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.7500 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.7500 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.7500 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.7500 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.14750 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.14750 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.14750 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.14750 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T01C3.7 Caenorhabditis elegans embryonic lethal wormbase
CELE_T01C3.7 Caenorhabditis elegans larval arrest wormbase
CELE_T01C3.7 Caenorhabditis elegans larval lethal wormbase
CELE_T01C3.7 Caenorhabditis elegans slow growth wormbase
CELE_T01C3.7 Caenorhabditis elegans sterile wormbase
YDL014W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1035100 Plasmodium berghei Essential plasmo
TGME49_311430 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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.

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Gene identifier PVX_086075 (Plasmodium vivax), fibrillarin, putative
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