Detailed view for Smp_180910.1

Basic information

TDR Targets ID: 283375
Schistosoma mansoni, pumilio
Source Database / ID:  GeneDB

pI: 7.1384 | Length (AA): 1537 | MW (Da): 168440 | Paralog Number: 3

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

PF00806   Pumilio-family RNA binding repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005488   binding  
GO:0003723   RNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
947 1437 4wzr (A) 154 642 15.00 0 1 0.385353 -0.12
948 1285 5kla (A) 1092 1426 68.00 0 1 1.17011 -1.79
948 1288 3gvo (A) 707 1049 68.00 0 1 1.17906 -1.86

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_126869)

Species Accession Gene Product
Arabidopsis thaliana AT3G10360   protein pumilio 4
Arabidopsis thaliana AT2G29200   pumilio 1
Arabidopsis thaliana AT2G29190   pumilio 2
Arabidopsis thaliana AT3G20250   pumilio 5
Arabidopsis thaliana AT2G29140   pumilio 3
Arabidopsis thaliana AT4G25880   pumilio 6
Brugia malayi Bm1_56635   RE63138p
Candida albicans CaO19.9361   similar to Drosophila pumilio protein
Candida albicans CaO19.1795   similar to Drosophila pumilio protein
Caenorhabditis elegans CELE_W06B11.2   Protein PUF-9
Caenorhabditis elegans CELE_C30G12.7   Protein PUF-8
Dictyostelium discoideum DDB_G0279735   RNA binding protein
Drosophila melanogaster Dmel_CG9755   pumilio
Echinococcus granulosus EgrG_000878100   pumilio 2
Echinococcus granulosus EgrG_000450400   pumilio 2
Entamoeba histolytica EHI_026330   pumilio family RNA-binding protein
Entamoeba histolytica EHI_000450   pumilio family RNA-binding protein
Entamoeba histolytica EHI_147880   pumilio family RNA-binding protein
Entamoeba histolytica EHI_031510   pumilio family RNA-binding protein
Echinococcus multilocularis EmuJ_000450400   pumilio 2
Echinococcus multilocularis EmuJ_000878100   pumilio 2
Homo sapiens ENSG00000134644   pumilio RNA-binding family member 1
Homo sapiens ENSG00000055917   pumilio RNA-binding family member 2
Leishmania braziliensis LbrM.18.1450   pumilio protein 2, putative,pumilio protein, putative
Leishmania braziliensis LbrM.33.1360   pumilio protein 6, putative
Leishmania donovani LdBPK_331210.1   pumilio protein, putative
Leishmania donovani LdBPK_181400.1   pumilio protein, putative
Leishmania infantum LinJ.18.1400   pumilio protein 2, putative,pumilio protein, putative
Leishmania infantum LinJ.33.1210   pumilio protein 6, putative
Leishmania major LmjF.33.1150   pumilio protein 6, putative
Leishmania major LmjF.18.1420   pumilio protein 2, putative
Leishmania mexicana LmxM.32.1150   pumilio protein, putative
Leishmania mexicana LmxM.18.1420   pumilio protein, putative
Loa Loa (eye worm) LOAG_05033   hypothetical protein
Mus musculus ENSMUSG00000028580   pumilio RNA-binding family member 1
Mus musculus ENSMUSG00000020594   pumilio RNA-binding family member 2
Neospora caninum NCLIV_011170   hypothetical protein
Oryza sativa 4331160   Os02g0819300
Oryza sativa 4352601   Os12g0574400
Oryza sativa 4346059   Os08g0519800
Oryza sativa 4327511   Os01g0844800
Oryza sativa 4347460   Os09g0497100
Oryza sativa 4337585   Os05g0109600
Oryza sativa 4326392   Os01g0971900
Plasmodium berghei PBANKA_0719200   mRNA-binding protein PUF2
Plasmodium falciparum PF3D7_0417100   mRNA-binding protein PUF2
Plasmodium knowlesi PKNH_0509500   mRNA-binding protein PUF2, putative
Plasmodium vivax PVX_089945   mRNA-binding protein PUF2, putative
Plasmodium yoelii PY04369   RNA binding protein PufA
Saccharomyces cerevisiae YLL013C   Puf3p
Schistosoma japonicum Sjp_0104470   Pumilio homolog 1, putative
Schistosoma japonicum Sjp_0002210   Maternal protein pumilio, putative
Schistosoma japonicum Sjp_0073160   Pumilio homolog 1, putative
Schistosoma japonicum Sjp_0077840   expressed protein
Schistosoma japonicum Sjp_0077830   expressed protein
Schistosoma japonicum Sjp_0002200   Pumilio homolog 2, putative
Schistosoma japonicum Sjp_0047740   expressed protein
Schistosoma japonicum Sjp_0077860   expressed protein
Schistosoma japonicum Sjp_0132190   expressed protein
Schistosoma mansoni Smp_155000.2   pumilio
Schistosoma mansoni Smp_180910.2   pumilio
Schistosoma mansoni Smp_155000.1   pumilio
Schistosoma mansoni Smp_180910.1   pumilio
Schmidtea mediterranea mk4.009951.00   Maternal protein pumilio
Trypanosoma brucei gambiense Tbg972.10.15260   pumillio RNA binding protein, putative,RNA- binding regulatory protein (pumilio family), putative
Trypanosoma brucei gambiense Tbg972.10.14180   pumillio RNA binding protein, putative,RNA- binding protein, putative
Trypanosoma brucei Tb927.10.11760   pumilio/PUF RNA binding protein 6
Trypanosoma brucei Tb927.10.12660   pumilio/PUF RNA binding protein 2
Trypanosoma congolense TcIL3000_10_9960   pumillio RNA binding protein, putative
Trypanosoma cruzi TcCLB.510125.10   pumilio/PUF RNA binding protein 6, putative
Trypanosoma cruzi TcCLB.511261.120   pumilio/PUF RNA binding protein 2, putative
Trypanosoma cruzi TcCLB.507831.110   pumilio/PUF RNA binding protein 2, putative
Toxoplasma gondii TGME49_318350   Pumilio-family RNA binding repeat-containing protein
Trichomonas vaginalis TVAG_069540   fem-3 mRNA binding factor, putative
Trichomonas vaginalis TVAG_222840   pumilio, putative
Trichomonas vaginalis TVAG_362530   pumilio, putative
Trichomonas vaginalis TVAG_168950   pumilio, putative
Trichomonas vaginalis TVAG_016170   pumilio, putative

Essentiality

Smp_180910.1 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.12660 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.12660 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.12660 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.12660 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.11760 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.11760 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.11760 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.11760 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_W06B11.2 Caenorhabditis elegans slow growth wormbase
TGME49_318350 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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

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Gene identifier Smp_180910.1 (Schistosoma mansoni), pumilio
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