Detailed view for PF3D7_1402700

Basic information

TDR Targets ID: 829580
Plasmodium falciparum, U2 snRNP-associated SURP motif-containing protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.5438 | Length (AA): 653 | MW (Da): 77776 | 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)
PF01805   Surp module

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0006396   RNA processing  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
166 246 1h6k (X) 38 115 42.00 0.33 1 0.478043 -0.21
169 248 4fxv (A) 21 97 27.00 0.97 1 0.602511 -1.47
170 307 4wii (A) 299 428 25.00 0.45 1 0.425332 0.19
290 346 2dt6 (A) 48 104 33.00 0.046 0.93 0.621289 -1.18
133 213 1h6k (X) 38 115 42.00 0.16 1 0.481945 -0.21
136 215 4ed5 (A) 21 97 27.00 0.97 1 0.610332 -1.51
137 274 4wii (A) 299 428 25.00 0.22 1 0.433881 0.19
257 313 2dt6 (A) 48 104 33.00 0.02 0.93 0.623235 -1.18

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 - 24 hs, Oocyst, Ring. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 32 hs, Female Gametocyte, Male Gametocyte. Otto TD Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Sporozoite. Otto TD Zanghi G
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • 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_129457)

Species Accession Gene Product
Arabidopsis thaliana AT5G10800   RNA recognition motif (RRM)-containing protein
Arabidopsis thaliana AT5G25060   RNA recognition motif-containing protein RRC1
Babesia bovis BBOV_III008490   surp module family protein
Brugia malayi Bm1_33370   Surp module family protein
Caenorhabditis elegans CELE_C07H6.4   Protein C07H6.4
Dictyostelium discoideum DDB_G0281687   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG9346   CG9346 gene product from transcript CG9346-RA
Echinococcus granulosus EgrG_001098000   U2 snRNP associated SURP motif containing
Echinococcus multilocularis EmuJ_001098000   U2 snRNP associated SURP motif containing
Homo sapiens ENSG00000163714   U2 snRNP-associated SURP domain containing
Loa Loa (eye worm) LOAG_01982   hypothetical protein
Mus musculus ENSMUSG00000032407   U2 snRNP-associated SURP domain containing
Neospora caninum NCLIV_016900   hypothetical protein
Oryza sativa 4328504   Os02g0179900
Onchocerca volvulus OVOC2891  
Plasmodium berghei PBANKA_1039300   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium falciparum PF3D7_1402700   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium knowlesi PKNH_1355400   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium vivax PVX_086295   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium yoelii PY00123   Drosophila melanogaster LD23810p
Schistosoma japonicum Sjp_0023880   U2-associated protein SR140, putative
Schistosoma mansoni Smp_161730   hypothetical protein
Schmidtea mediterranea mk4.000959.07  
Toxoplasma gondii TGME49_240710   RNA recognition motif-containing protein
Theileria parva TP04_0751   hypothetical protein, conserved

Essentiality

PF3D7_1402700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C07H6.4 Caenorhabditis elegans embryonic lethal wormbase
PBANKA_1039300 Plasmodium berghei Slow plasmo
TGME49_240710 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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_1402700 (Plasmodium falciparum), U2 snRNP-associated SURP motif-containing protein, putative
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