Detailed view for Smp_005080.1

Basic information

TDR Targets ID: 295973
Schistosoma mansoni, nucleolar protein nol1/nop2
Source Database / ID:  GeneDB

pI: 9.5651 | Length (AA): 490 | MW (Da): 55408 | Paralog Number: 2

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

PF01189   16S rRNA methyltransferase RsmB/F
PF17125   N-terminal domain of 16S rRNA methyltransferase RsmF

Gene Ontology

Mouse over links to read term descriptions.
GO:0008757   S-adenosylmethionine-dependent methyltransferase activity  
GO:0008168   methyltransferase activity  
GO:0003723   RNA binding  
GO:0006364   rRNA processing  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
34 136 1tzv (A) 5 114 15.00 0.0037 0.1 0.411604 -1.17
34 478 1sqg (A) 8 428 23.00 0 1 1.11356 0.39
61 478 2yxl (A) 43 448 22.00 0.0048 1 1.11746 0
205 479 3ajd (A) 9 274 44.00 0 1 0.941324 0.28

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_126796)

Species Accession Gene Product
Arabidopsis thaliana AT4G26600   S-adenosyl-L-methionine-dependent methyltransferase-like protein
Arabidopsis thaliana AT5G55920   ribosome biogenesis protein OLI2
Arabidopsis thaliana AT3G13180   NOL1/NOP2/sun family protein / antitermination NusB domain-containing protein
Babesia bovis BBOV_II005990   nucleolar protein-like protein with NOL1/NOP2/sun family putative RNA methylase domain
Babesia bovis BBOV_II007520   sun-family protein, putative
Brugia malayi Bm1_29315   NOL1/NOP2/sun family putative RNA methylase containing protein
Candida albicans CaO19.501   nucleolar protein
Candida albicans CaO19.8131   nucleolar protein
Caenorhabditis elegans CELE_W07E6.1   Protein NOL-1
Cryptosporidium hominis Chro.60375   nucleolar protein-like
Cryptosporidium parvum cgd6_3230   Nop2p family of SUN/fmu RNA methylase
Chlamydia trachomatis CT_553   RNA methyltransferase
Dictyostelium discoideum DDB_G0281685   NOL1/NOP2/Sun family protein
Drosophila melanogaster Dmel_CG8545   CG8545 gene product from transcript CG8545-RA
Escherichia coli b3289   16S rRNA m(5)C967 methyltransferase, SAM-dependent
Escherichia coli b1835   16S rRNA m(5)C1407 methyltransferase, SAM-dependent
Echinococcus granulosus EgrG_000218300   nucleolar protein nol1:nop2
Entamoeba histolytica EHI_198880   Proliferating-cell nucleolar antigen p120, putative
Echinococcus multilocularis EmuJ_000218300   nucleolar protein nol1:nop2
Giardia lamblia GL50803_16948   Nucleolar protein NOP2
Homo sapiens ENSG00000111641   NOP2 nucleolar protein
Leishmania braziliensis LbrM.31.0300   nucleolar protein, putative
Leishmania donovani LdBPK_310200.1   nucleolar protein, putative
Leishmania infantum LinJ.31.0200   nucleolar protein, putative
Leishmania major LmjF.31.0190   nucleolar protein, putative
Leishmania mexicana LmxM.30.0190   nucleolar protein, putative
Loa Loa (eye worm) LOAG_09543   nucleolar protein
Mus musculus ENSMUSG00000038279   NOP2 nucleolar protein
Mycobacterium tuberculosis Rv1407   Probable Fmu protein (sun protein)
Mycobacterium ulcerans MUL_1803   Fmu protein
Neospora caninum NCLIV_041000   Ribosomal RNA small subunit methyltransferase F (RRNA(Cytosine-C)), related
Neospora caninum NCLIV_013720   NOL1/NOP2/sun family domain-containing protein, putative
Oryza sativa 4347368   Os09g0477900
Oryza sativa 4330579   Os02g0724600
Oryza sativa 4347787   Os09g0551300
Plasmodium berghei PBANKA_0918800   rRNA (cytosine-C(5))-methyltransferase, putative
Plasmodium berghei PBANKA_1445300   sun-family protein, putative
Plasmodium falciparum PF3D7_1230600   sun-family protein, putative
Plasmodium falciparum PF3D7_1129400   rRNA (cytosine-C(5))-methyltransferase, putative
Plasmodium knowlesi PKNH_1450000   sun-family protein, putative
Plasmodium knowlesi PKNH_0927400   rRNA (cytosine-C(5))-methyltransferase, putative
Plasmodium vivax PVX_124170   sun-family protein, putative
Plasmodium vivax PVX_092085   proliferating-cell nucleolar antigen p120, putative
Plasmodium yoelii PY03774   RNA methyltransferase, putative
Plasmodium yoelii PY05667   hypothetical protein
Saccharomyces cerevisiae YNL061W   Nop2p
Schistosoma japonicum Sjp_0025300   Putative RNA methyltransferase NOL1, putative
Schistosoma japonicum Sjp_0025320   Putative RNA methyltransferase NOL1, putative
Schistosoma mansoni Smp_005080.1   nucleolar protein nol1/nop2
Schistosoma mansoni Smp_005080.2   nucleolar protein nol1/nop2
Schistosoma mansoni Smp_005080.3   nucleolar protein nol1/nop2
Schmidtea mediterranea mk4.006816.03   Putative nucleolar protein nol1/nop2
Schmidtea mediterranea mk4.014144.00   Putative nucleolar protein nol1/nop2
Schmidtea mediterranea mk4.058797.01   Putative nucleolar protein nol1/nop2
Trypanosoma brucei gambiense Tbg972.4.3910   nucleolar protein, putative
Trypanosoma brucei Tb927.4.3840   nucleolar protein, putative
Trypanosoma congolense TcIL3000_4_3390   nucleolar protein, putative
Trypanosoma cruzi TcCLB.507583.20   nucleolar protein, putative
Trypanosoma cruzi TcCLB.509951.10   nucleolar protein, putative
Toxoplasma gondii TGME49_213970   ribosomal RNA small subunit methyltransferase B, putative
Toxoplasma gondii TGME49_288530   NOL1/NOP2/sun family protein
Theileria parva TP02_0204   sun-family protein, putative
Theileria parva TP02_0558   nuclear protein, putative
Trichomonas vaginalis TVAG_115490   ribosomal RNA small subunit methyltransferase B, putative

Essentiality

Smp_005080.1 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu1430 Mycobacterium tuberculosis non-essential nmpdr
Tb927.4.3840 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.3840 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.3840 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.3840 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1835 Escherichia coli non-essential goodall
b3289 Escherichia coli non-essential goodall
CELE_W07E6.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_W07E6.1 Caenorhabditis elegans larval arrest wormbase
CELE_W07E6.1 Caenorhabditis elegans slow growth wormbase
YNL061W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0918800 Plasmodium berghei Essential plasmo
PBANKA_1445300 Plasmodium berghei Essential plasmo
TGME49_213970 Toxoplasma gondii Probably essential sidik
TGME49_288530 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.

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Gene identifier Smp_005080.1 (Schistosoma mansoni), nucleolar protein nol1/nop2
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