Detailed view for Smp_165540

Basic information

TDR Targets ID: 294629
Schistosoma mansoni, peptidyl-prolyl cis-trans isomerase
Source Database / ID:  GeneDB

pI: 6.1674 | Length (AA): 730 | MW (Da): 83753 | Paralog Number: 0

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

Druggability Group : DG2

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)
PF00160   Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD
PF04564   U-box domain
PF12895   Anaphase-promoting complex, cyclosome, subunit 3

Gene Ontology

Mouse over links to read term descriptions.
GO:0000413   protein peptidyl-prolyl isomerization  
GO:0000151   ubiquitin ligase complex  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0004842   ubiquitin-protein ligase activity  
GO:0003755   peptidyl-prolyl cis-trans isomerase activity  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  
GO:0016567   protein ubiquitination  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 10 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
3 170 1zkc (A) 282 442 42.00 0 1 0.723837 -1.05
3 165 2poe (A) 19 177 34.00 0 1 0.691488 -1.07
3 251 5ex1 (A) 38 277 22.00 0 1 0.262796 0.73
236 317 5tbx (B) 4 85 30.00 0 0.99 0.589029 -1.53
241 308 2rs2 (A) 22 82 38.00 0.036 0.58 0.382351 0.3
401 529 2dba (A) 2 133 26.00 0 1 0.476012 0.27
426 728 2c2l (A) 26 302 50.00 0 1 0.884368 0.27
428 524 2fbn (A) 39 151 32.00 0 0.99 0.433577 -1.17
543 728 2f42 (A) 127 282 59.00 0 1 0.590995 0.05
660 707 1rmd (A) 26 73 29.00 0.075 0.28 0.478053 -1.08

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_129019)

Species Accession Gene Product
Arabidopsis thaliana AT1G53720   cyclophilin 59
Babesia bovis BBOV_III003390   RNA recognition motif domain containing protein
Brugia malayi Bm1_01380   hypothetical protein
Caenorhabditis elegans CELE_F39H2.2   Protein SIG-7, isoform B
Cryptosporidium hominis Chro.80276   cyclophilin-RNA interacting protein
Cryptosporidium parvum cgd8_2350   cyclophilin-RNA interacting protein, putative
Dictyostelium discoideum DDB_G0292710   hypothetical protein
Drosophila melanogaster Dmel_CG5808   CG5808 gene product from transcript CG5808-RA
Echinococcus granulosus EgrG_000604500   STIP1 y and U box containing protein 1
Entamoeba histolytica EHI_054760   peptidyl prolyl cis-trans isomerase, putative
Echinococcus multilocularis EmuJ_000679400   peptidyl prolyl cis trans isomerase 4
Echinococcus multilocularis EmuJ_000680200   peptidyl prolyl cis trans isomerase 4
Echinococcus multilocularis EmuJ_000604500   STIP1 y and U box containing protein 1
Homo sapiens ENSG00000131013   peptidylprolyl isomerase (cyclophilin)-like 4
Loa Loa (eye worm) LOAG_08216   SIG-7 protein
Mus musculus ENSMUSG00000015757   peptidylprolyl isomerase (cyclophilin)-like 4
Neospora caninum NCLIV_045550   RNA recognition motif-containing protein, putative
Oryza sativa 4341804   Os06g0670500
Plasmodium berghei PBANKA_1425000   RNA-binding protein, putative
Plasmodium falciparum PF3D7_0812500   RNA-binding protein, putative
Plasmodium knowlesi PKNH_1428100   RNA-binding protein, putative
Plasmodium vivax PVX_123145   hypothetical protein, conserved
Plasmodium yoelii PY01794   putative peptidyl prolyl cis-trans isomerase with RNA binding region
Schistosoma japonicum Sjp_0216410   ko:K09561 STIP1 homology and U-box containing protein 1, putative
Schistosoma japonicum Sjp_0120600   STIP1 homology and U box-containing protein 1, putative
Schistosoma japonicum Sjp_0091550   ko:K01802 peptidylprolyl isomerase [EC5.2.1.8], putative
Schistosoma japonicum Sjp_0090860   STIP1 homology and U box-containing protein 1, putative
Schistosoma mansoni Smp_165540   peptidyl-prolyl cis-trans isomerase
Schmidtea mediterranea mk4.003843.00  
Schmidtea mediterranea mk4.001968.01  
Schmidtea mediterranea mk4.014953.00  
Toxoplasma gondii TGME49_227850   peptidyl-prolyl cis-trans isomerase, cyclophilin-type domain-containing protein
Theileria parva TP03_0334   hypothetical protein, conserved
Trichomonas vaginalis TVAG_106810   peptidyl-prolyl cis-trans isomerase, putative

Essentiality

Smp_165540 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F39H2.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_F39H2.2 Caenorhabditis elegans larval arrest wormbase
CELE_F39H2.2 Caenorhabditis elegans sterile wormbase
TGME49_227850 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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
  • 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
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Cyclophilin A 164 aa 32.9% 152 aa Compounds References
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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Smp_165540 (Schistosoma mansoni), peptidyl-prolyl cis-trans isomerase
Title for this comment
Comment