Detailed view for Smp_136970

Basic information

TDR Targets ID: 283130
Schistosoma mansoni, chondroitin sulfate proteoglycan
Source Database / ID:  GeneDB

pI: 6.5663 | Length (AA): 1234 | MW (Da): 143753 | 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

PF02463   RecF/RecN/SMC N terminal domain
PF06470   SMC proteins Flexible Hinge Domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005694   chromosome  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0051276   chromosome organization and biogenesis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
150 1231 5xh6 (A) 92 1125 12.00 0 1 0.583823 1.84
160 944 5kk5 (A) 196 1036 14.00 0 1 0.396143 1.61
322 514 3edu (A) 1691 1888 12.00 0 0.22 0.219402 -1.23
503 680 2wd5 (A) 499 674 65.00 0 1 0.968246 -1.12
1048 1228 1w1w (B) 181 1223 44.00 0 1 0.633677 -0.05
1122 1207 1e69 (A) 1066 1150 45.00 0.0000013 0.66 0.514692 0.43

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_127449)

Species Accession Gene Product
Arabidopsis thaliana AT3G54670   structural maintenance of chromosomes 1
Babesia bovis BBOV_IV004610   structural maintenance of chromosome 1-like protein, putative
Brugia malayi Bm1_12960   SMC family, C-terminal domain containing protein
Candida albicans CaO19.11845   potential SMC chromosomal ATPase similar to S. cerevisiae SMC1 (YFL008W) nuclear cohesin complex ATPase
Candida albicans CaO19.4367   potential SMC chromosomal ATPase similar to S. cerevisiae SMC1 (YFL008W) nuclear cohesin complex ATPase
Caenorhabditis elegans CELE_F28B3.7   Protein HIM-1, isoform B
Cryptosporidium hominis Chro.20291   Xenopus 14s cohesin smc1 subunit
Cryptosporidium parvum cgd2_2750   SMC1 structural maintenance of chromosomes 1
Dictyostelium discoideum DDB_G0291752   structural maintenance of chromosome protein
Drosophila melanogaster Dmel_CG6057   CG6057 gene product from transcript CG6057-RA
Echinococcus granulosus EgrG_000802900   expressed protein
Echinococcus granulosus EgrG_000803000   structural maintenance of chromosomes protein
Entamoeba histolytica EHI_050790   structural maintenance of chromosomes protein
Echinococcus multilocularis EmuJ_000803000   structural maintenance of chromosomes protein
Echinococcus multilocularis EmuJ_000802900   expressed protein
Giardia lamblia GL50803_16188   SMC1 beta-like protein
Homo sapiens ENSG00000077935   structural maintenance of chromosomes 1B
Homo sapiens ENSG00000072501   structural maintenance of chromosomes 1A
Leishmania braziliensis LbrM.34.3440   structural maintenance of chromosome (SMC) family protein, putative
Leishmania donovani LdBPK_353560.1   structural maintenance of chromosome (SMC) family protein, putative
Leishmania infantum LinJ.35.3560   structural maintenance of chromosome (SMC) family protein, putative
Leishmania major LmjF.35.3510   structural maintenance of chromosome (SMC) family protein, putative
Leishmania mexicana LmxM.34.3510   structural maintenance of chromosome (SMC) family protein, putative
Loa Loa (eye worm) LOAG_05552   hypothetical protein
Mus musculus ENSMUSG00000022432   structural maintenance of chromosomes 1B
Mus musculus ENSMUSG00000041133   structural maintenance of chromosomes 1A
Neospora caninum NCLIV_041160   Xenopus 14s cohesin smc1 subunit, related
Oryza sativa 4352932   Os12g0641500
Plasmodium berghei PBANKA_0917500   structural maintenance of chromosomes protein 1, putative
Plasmodium falciparum PF3D7_1130700   structural maintenance of chromosomes protein 1, putative
Plasmodium knowlesi PKNH_0928800   structural maintenance of chromosomes protein 1, putative
Plasmodium vivax PVX_092140   structural maintenance of chromosome protein, putative
Plasmodium yoelii PY00653   chromosome segregation protein smc1
Saccharomyces cerevisiae YFL008W   cohesin subunit SMC1
Schistosoma japonicum Sjp_0015150   ko:K06636 structural maintenance of chromosome 1, putative
Schistosoma mansoni Smp_136970   chondroitin sulfate proteoglycan
Schmidtea mediterranea mk4.004021.04   Structural maintenance of chromosomes protein 1B
Schmidtea mediterranea mk4.009253.01  
Schmidtea mediterranea mk4.004021.02   Structural maintenance of chromosomes protein 1B
Schmidtea mediterranea mk4.004021.01  
Trypanosoma brucei gambiense Tbg972.9.7140   structural maintenance of chromosome 1, putative
Trypanosoma brucei Tb927.9.11850   structural maintenance of chromosome 1, putative
Trypanosoma congolense TcIL3000_9_4840   structural maintenance of chromosome 1, putative
Trypanosoma cruzi TcCLB.507011.60   structural maintenance of chromosome (SMC) family protein, putative
Trypanosoma cruzi TcCLB.507005.60   structural maintenance of chromosome (SMC) family protein, putative
Toxoplasma gondii TGME49_288700   RecF/RecN/SMC N terminal domain-containing protein
Theileria parva TP01_0286   SMC protein, putative
Trichomonas vaginalis TVAG_162180   cohesin subunit Smc1
Trichomonas vaginalis TVAG_266830   cohesin subunit Smc1

Essentiality

Smp_136970 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.2970 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.211.2970 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.2970 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.2970 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F28B3.7 Caenorhabditis elegans embryonic lethal wormbase
CELE_F28B3.7 Caenorhabditis elegans larval arrest wormbase
CELE_F28B3.7 Caenorhabditis elegans larval lethal wormbase
CELE_F28B3.7 Caenorhabditis elegans sterile wormbase
YFL008W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0917500 Plasmodium berghei Essential plasmo
TGME49_288700 Toxoplasma gondii Probably essential sidik
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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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
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 Smp_136970 (Schistosoma mansoni), chondroitin sulfate proteoglycan
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