Detailed view for PF3D7_1472000

Basic information

TDR Targets ID: 3018
Plasmodium falciparum, pre-mRNA-splicing factor ISY1, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.1121 | Length (AA): 201 | MW (Da): 24000 | 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

PF06246   Isy1-like splicing family

Gene Ontology

Mouse over links to read term descriptions.
GO:0008150   biological_process  
GO:0005575   cellular_component  
GO:0003674   molecular_function  
GO:0000350   generation of catalytic spliceosome for second transesterification step  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 5 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
23 106 1x4t (A) 6 89 44.00 0 1 0.93 -0.89
1 200 4tql (A) 12 212 24.00 0.68 1 1.11842 0.29
1 200 4uos (A) 9 182 29.00 0.24 0.85 1.00242 0.3
19 200 4uos (A) 3 182 17.00 0.0016 0.04 1.14097 -1.04
20 104 1x4t (A) 8 87 48.00 0.0000000018 1 0.993286 -0.58

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 early ring, Oocyst, Ring, Female Gametocyte, Male Gametocyte. PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile merozoite, early trophozoite, late ring, late trophozoite. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, gametocyte, early schizont, late schizont. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 32 hs, Sporozoite. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
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_128335)

Species Accession Gene Product
Arabidopsis thaliana AT3G18790   pre-mRNA-splicing factor ISY1 domain-containing protein
Babesia bovis BBOV_III011510   isy1-like splicing family protein
Brugia malayi Bm1_57635   Isy1-like splicing family protein
Candida albicans CaO19.6685   similar to component of PRP19 complex, pre-mRNA splicing
Candida albicans CaO19.13977   similar to component of PRP19 complex, pre-mRNA splicing
Candida albicans CaO19_6685   hypothetical protein
Caenorhabditis elegans CELE_F53B7.3   Protein F53B7.3
Cryptosporidium hominis Chro.50203   hypothetical protein
Cryptosporidium parvum cgd5_1790   conserved eukaryotic protein
Dictyostelium discoideum DDB_G0285521   ISY1-like protein
Drosophila melanogaster Dmel_CG9667   CG9667 gene product from transcript CG9667-RA
Echinococcus granulosus EgrG_000551900   pre mRNA splicing factor ISY1
Entamoeba histolytica EHI_187260   cell cycle control protein cwf12, putative
Echinococcus multilocularis EmuJ_000551900   pre mRNA splicing factor ISY1
Homo sapiens ENSG00000261796   ISY1-RAB43 readthrough
Homo sapiens ENSG00000240682   ISY1 splicing factor homolog (S. cerevisiae)
Leishmania braziliensis LbrM.07.0020   hypothetical protein, conserved
Leishmania donovani LdBPK_070020.1   Isy1-like splicing family, putative
Leishmania infantum LinJ.07.0020   hypothetical protein, conserved
Leishmania major LmjF.07.0020   hypothetical protein, conserved
Leishmania mexicana LmxM.07.0020   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03439   hypothetical protein
Mus musculus ENSMUSG00000030056   ISY1 splicing factor homolog (S. cerevisiae)
Neospora caninum NCLIV_021210   isy1-like splicing family domain-containing protein, putative
Oryza sativa 4329902   Os02g0602500
Onchocerca volvulus OVOC6223   Rab43 protein homolog
Plasmodium berghei PBANKA_1335200   pre-mRNA-splicing factor ISY1, putative
Plasmodium falciparum PF3D7_1472000   pre-mRNA-splicing factor ISY1, putative
Plasmodium knowlesi PKNH_1209000   pre-mRNA-splicing factor ISY1, putative
Plasmodium vivax PVX_116880   pre-mRNA-splicing factor ISY1, putative
Plasmodium yoelii PY05359   hypothetical protein
Saccharomyces cerevisiae YJR050W   Isy1p
Schistosoma japonicum Sjp_0058660   Pre-mRNA-splicing factor ISY1 homolog, putative
Schistosoma japonicum Sjp_0058600   IPR011008,Dimeric alpha-beta barrel,domain-containing
Schistosoma mansoni Smp_126720   hypothetical protein
Schmidtea mediterranea mk4.000028.07  
Trypanosoma brucei gambiense Tbg972.8.1570   hypothetical protein, conserved
Trypanosoma brucei Tb927.8.1930   Isy1-like splicing family, putative
Trypanosoma congolense TcIL3000_8_1880   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.511391.100   Isy1-like splicing family, putative
Toxoplasma gondii TGME49_203870   RAB43, member RAS oncogene family protein
Theileria parva TP02_0783   hypothetical protein
Trichomonas vaginalis TVAG_178720   cell cycle control protein cwf12, putative

Essentiality

PF3D7_1472000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.1930 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.1930 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1930 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.8.1930 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F53B7.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F53B7.3 Caenorhabditis elegans larval lethal wormbase
CELE_F53B7.3 Caenorhabditis elegans sterile wormbase
TGME49_203870 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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 PF3D7_1472000 (Plasmodium falciparum), pre-mRNA-splicing factor ISY1, putative
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