Detailed view for Smp_166430

Basic information

TDR Targets ID: 283612
Schistosoma mansoni, nuclear cap binding protein
Source Database / ID:  GeneDB

pI: 6.8898 | Length (AA): 149 | MW (Da): 17521 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0045292   nuclear mRNA cis splicing, via spliceosome  
GO:0005846   nuclear cap binding complex  
GO:0000339   RNA cap binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

RNA transport (KEGG)
mRNA surveillance pathway (KEGG)
Spliceosome (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
10 141 1h2t (Z) 10 150 63.00 0 1 1.56271 -0.17
38 109 1h6k (X) 38 118 65.00 0 1 1.13692 -0.06
65 106 2ghp (A) 243 286 24.00 0 0.09 0.393679 0.9

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_127988)

Species Accession Gene Product
Arabidopsis thaliana AT5G44200   nuclear cap-binding protein subunit 20
Babesia bovis BBOV_IV008110   nuclear cap-binding protein, putative
Brugia malayi Bm1_02935   nuclear cap binding protein subunit 2
Candida albicans CaO19.763   Nuclear mRNA cap binding protein, spliceosome
Candida albicans CaO19.8383   Nuclear mRNA cap binding protein, spliceosome
Caenorhabditis elegans CELE_F26A3.2   Protein NCBP-2, isoform C
Cryptosporidium hominis Chro.60207   nuclear cap-binding protein
Cryptosporidium parvum cgd6_1700   RRM domain containing protein
Dictyostelium discoideum DDB_G0287197   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG12357   cap binding protein 20
Echinococcus granulosus EgrG_000389400   Nuclear cap binding protein subunit 2
Entamoeba histolytica EHI_156270   RNA recognition motif domain containing protein
Echinococcus multilocularis EmuJ_000389400   Nuclear cap binding protein subunit 2
Leishmania braziliensis LbrM.30.0620   nuclear cap binding protein, putative
Leishmania donovani LdBPK_300560.1   nuclear cap binding protein, putative
Leishmania infantum LinJ.30.0560   nuclear cap binding protein, putative
Leishmania major LmjF.30.0540   nuclear cap binding protein, putative
Leishmania mexicana LmxM.29.0540   nuclear cap binding protein, putative
Loa Loa (eye worm) LOAG_03270   nuclear cap binding protein subunit 2
Mus musculus ENSMUSG00000022774   nuclear cap binding protein subunit 2
Neospora caninum NCLIV_041810   nuclear cap-binding protein, putative
Oryza sativa 4329963   Os02g0612300
Plasmodium berghei PBANKA_0717500   nuclear cap-binding protein subunit 2, putative
Plasmodium falciparum PF3D7_0415500   nuclear cap-binding protein subunit 2, putative
Plasmodium knowlesi PKNH_0507100   nuclear cap-binding protein subunit 2, putative
Plasmodium vivax PVX_089730   nuclear cap-binding protein, putative
Plasmodium yoelii PY02814   RNA recognition motif, putative
Saccharomyces cerevisiae YPL178W   Cbc2p
Schistosoma japonicum Sjp_0201400   Nuclear cap-binding protein subunit 2, putative
Schistosoma mansoni Smp_166430   nuclear cap binding protein
Schmidtea mediterranea mk4.010828.01   Nuclear cap-binding protein subunit 2
Schmidtea mediterranea mk4.003895.02   Nuclear cap-binding protein subunit 2
Trypanosoma brucei gambiense Tbg972.6.1690   nuclear cap binding protein, putative
Trypanosoma brucei Tb927.6.1970   nuclear cap binding protein, putative
Trypanosoma congolense TcIL3000_0_33890   nuclear cap binding protein, putative
Trypanosoma cruzi TcCLB.504071.80   nuclear cap binding protein, putative
Toxoplasma gondii TGME49_289560   RNA recognition motif-containing protein
Theileria parva TP01_0963   nuclear cap-binding protein, putative
Trichomonas vaginalis TVAG_345370   20 kD nuclear cap binding protein, putative

Essentiality

Smp_166430 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.1970 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.1970 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.1970 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.6.1970 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F26A3.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_F26A3.2 Caenorhabditis elegans larval arrest wormbase
CELE_F26A3.2 Caenorhabditis elegans slow growth wormbase
CELE_F26A3.2 Caenorhabditis elegans sterile wormbase
PBANKA_0717500 Plasmodium berghei Dispensable plasmo
TGME49_289560 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • 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.

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_166430 (Schistosoma mansoni), nuclear cap binding protein
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