Detailed view for Smp_175760

Basic information

TDR Targets ID: 288393
Schistosoma mansoni, endosomal trafficking protein
Source Database / ID:  GeneDB

pI: 6.9727 | Length (AA): 2437 | MW (Da): 277918 | 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

PF00226   DnaJ domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0031072   heat shock protein binding  
GO:0005488   binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 12 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
657 1543 3gjx (A) 58 917 12.00 0 0.91 0.440772 0.32
971 1208 4hxt (A) 1 241 13.00 0 0.07 0.244461 -0.46
1395 1465 2lo1 (A) 5 70 32.00 0.000000011 1 0.480834 -1.13
1396 2229 3ibv (A) 27 921 12.00 0 0.97 0.366024 0.5
1410 1456 2dn9 (A) 18 65 49.00 0.000081 1 0.660186 -1.71
1410 1456 4j7z (A) 16 62 43.00 0.0086 1 0.652186 -1.93
1908 2348 3ifq (B) 146 603 11.00 0 0.98 0.35876 -0.58
2114 2361 5aei (A) 13 253 7.00 0 0.17 0.269464 -1.12
2140 2361 4v3r (A) 12 253 14.00 0.0000000000069 0.8 0.290796 -0.91
2201 2379 4rzp (A) 46 219 13.00 0 0.71 0.383151 -1.4
2210 2382 5mfi (A) 62 234 12.00 0 0.99 0.397689 -1.39
2239 2393 4u2x (D) 335 500 12.00 0.001 0.81 0.272303 -0.99

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_129678)

Species Accession Gene Product
Arabidopsis thaliana AT2G26890   gravitropism defective 2
Brugia malayi Bm1_08070   DnaJ domain containing protein
Caenorhabditis elegans CELE_F18C12.2   Protein RME-8, isoform A
Dictyostelium discoideum DDB_G0286293   hypothetical protein
Drosophila melanogaster Dmel_CG8014   Receptor mediated endocytosis 8
Echinococcus granulosus EgrG_000345600   dnaJ subfamily C 3
Entamoeba histolytica EHI_041980   hypothetical protein, conserved
Entamoeba histolytica EHI_188910   hypothetical protein, conserved
Entamoeba histolytica EHI_200560   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_000345600   dnaJ subfamily C 3
Homo sapiens ENSG00000138246   DnaJ (Hsp40) homolog, subfamily C, member 13
Leishmania braziliensis LbrM.30.2160   endosomal trafficking protein RME-8, putative
Leishmania donovani LdBPK_302220.1   endosomal trafficking protein RME-8, putative
Leishmania infantum LinJ.30.2220   endosomal trafficking protein RME-8, putative
Leishmania major LmjF.30.2210   endosomal trafficking protein RME-8, putative
Leishmania mexicana LmxM.29.2210   endosomal trafficking protein RME-8, putative
Loa Loa (eye worm) LOAG_05007   hypothetical protein
Loa Loa (eye worm) LOAG_05008   hypothetical protein
Mus musculus ENSMUSG00000032560   DnaJ (Hsp40) homolog, subfamily C, member 13
Oryza sativa 4349486   Os10g0575200
Schistosoma japonicum Sjp_0002640   ko:K09533 DnaJ homolog, subfamily C, member 13, putative
Schistosoma mansoni Smp_175760   endosomal trafficking protein
Schmidtea mediterranea mk4.000044.16  
Schmidtea mediterranea mk4.000044.14   DnaJ homolog subfamily C member 13
Schmidtea mediterranea mk4.000044.12   DnaJ homolog subfamily C member 13
Schmidtea mediterranea mk4.000044.13   DnaJ homolog subfamily C member 13
Schmidtea mediterranea mk4.000044.15   DnaJ homolog subfamily C member 13
Trypanosoma brucei gambiense Tbg972.6.3250   endosomal trafficking protein RME-8, putative
Trypanosoma brucei Tb927.6.3500   endosomal trafficking protein RME-8, putative
Trypanosoma congolense TcIL3000_6_3040   endosomal trafficking protein RME-8, putative
Trypanosoma cruzi TcCLB.511511.10   endosomal trafficking protein RME-8, putative
Trypanosoma cruzi TcCLB.506941.9   endosomal trafficking protein RME-8, putative

Essentiality

Smp_175760 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.3500 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.3500 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.3500 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.6.3500 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F18C12.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_F18C12.2 Caenorhabditis elegans larval arrest wormbase
CELE_F18C12.2 Caenorhabditis elegans larval lethal wormbase
CELE_F18C12.2 Caenorhabditis elegans slow growth wormbase
CELE_F18C12.2 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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

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_175760 (Schistosoma mansoni), endosomal trafficking protein
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