Detailed view for Smp_001960

Basic information

TDR Targets ID: 285197
Schistosoma mansoni, 50S ribosomal protein L1
Source Database / ID:  GeneDB

pI: 6.92 | Length (AA): 400 | MW (Da): 45973 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  
GO:0006396   RNA processing  

Metabolic Pathways

Ribosome (KEGG)

Structural information

Modbase 3D models:

There are 5 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
61 162 3hy5 (A) 38 140 30.00 0.47 0.17 0.1732 0.69
112 365 3qoy (A) 1 242 22.00 0 1 0.8734 0.01
122 337 4reo (A) 10 211 30.00 0.000000046 1 0.8232 -0.03
129 356 3qoy (A) 19 233 25.00 0 1 0.8637 -0.48
301 395 3nqo (A) 66 183 33.00 0.37 0.03 0.2857 0.95

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_127255)

Species Accession Gene Product
Arabidopsis thaliana AT2G42710   ribosomal protein L1p/L10e family protein
Arabidopsis thaliana AT3G63490   50S ribosomal protein L1
Babesia bovis BBOV_IV010190   ribosomal protein L1, putative
Brugia malayi Bm1_24175   L1P family of ribosomal proteins containing protein
Candida albicans CaO19.5698   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPL1 (YDR116C) mitochondrial ribosome large subunit protein L1
Caenorhabditis elegans CELE_F33D4.5   Protein F33D4.5
Chlamydia trachomatis CT_318   50S ribosomal protein L1
Drosophila melanogaster Dmel_CG7494   mitochondrial ribosomal protein L1
Escherichia coli b3984   50S ribosomal subunit protein L1
Echinococcus granulosus EgrG_000043600   50S ribosomal protein L1
Echinococcus multilocularis EmuJ_000043600   50S ribosomal protein L1
Homo sapiens ENSG00000169288   mitochondrial ribosomal protein L1
Loa Loa (eye worm) LOAG_04857   hypothetical protein
Mycobacterium leprae ML1904c   PROBABLE 50S RIBOSOMAL PROTEIN L1 RPLA
Mus musculus ENSMUSG00000029486   mitochondrial ribosomal protein L1
Mycobacterium tuberculosis Rv0641   50S ribosomal protein L1 RplA
Mycobacterium ulcerans MUL_0727   50S ribosomal protein L1
Neospora caninum NCLIV_007370   Ribosomal protein L1, related
Neospora caninum NCLIV_019130   hypothetical protein
Oryza sativa 4338667   Os05g0388500
Oryza sativa 4341246   Os06g0546400
Onchocerca volvulus OVOC12122   39S ribosomal protein L1, mitochondrial homolog
Plasmodium berghei PBANKA_0608400   50S ribosomal protein L1, apicoplast, putative
Plasmodium berghei PBANKA_1221500   50S ribosomal protein L1, mitochondrial, putative
Plasmodium falciparum PF3D7_1210000   50S ribosomal protein L1, apicoplast, putative
Plasmodium falciparum PF3D7_0710900   50S ribosomal protein L1, mitochondrial, putative
Plasmodium knowlesi PKNH_0109600   50S ribosomal protein L1, mitochondrial, putative
Plasmodium knowlesi PKNH_1310000   50S ribosomal protein L1, apicoplast, putative
Plasmodium vivax PVX_088080   50S ribosomal protein L1, mitochondrial, putative
Plasmodium yoelii PY05786   L1P family of ribosomal proteins, putative
Plasmodium yoelii PY03485   L1P family of ribosomal proteins, putative
Saccharomyces cerevisiae YDR116C   mitochondrial 54S ribosomal protein MRPL1
Schistosoma japonicum Sjp_0316730   expressed protein
Schistosoma japonicum Sjp_0206910   IPR002143,Ribosomal protein L1,domain-containing
Schistosoma mansoni Smp_001960   50S ribosomal protein L1
Schmidtea mediterranea mk4.007388.01   39S ribosomal protein L1, mitochondrial
Trypanosoma congolense TcIL3000_0_51340   ribosomal protein L1, putative
Toxoplasma gondii TGME49_244580   L1P family of ribosomal protein
Toxoplasma gondii TGME49_252270   L1P family of ribosomal protein
Treponema pallidum TP0238   50S ribosomal protein L1
Theileria parva TP01_0654   60S ribosomal protein L1, putative
Theileria parva TP01_1119   ribosomal protein L1, putative
Wolbachia endosymbiont of Brugia malayi Wbm0650   50S ribosomal protein L1

Essentiality

Smp_001960 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu653 Mycobacterium tuberculosis non-essential nmpdr
b3984 Escherichia coli essential goodall
CELE_F33D4.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_F33D4.5 Caenorhabditis elegans larval arrest wormbase
CELE_F33D4.5 Caenorhabditis elegans slow growth wormbase
PBANKA_0608400 Plasmodium berghei Essential plasmo
PBANKA_1221500 Plasmodium berghei Essential plasmo
TGME49_244580 Toxoplasma gondii Probably essential sidik
TGME49_252270 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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

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

Enter your comment

User ()
Gene identifier Smp_001960 (Schistosoma mansoni), 50S ribosomal protein L1
Title for this comment
Comment