Detailed view for LinJ.28.2000

Basic information

TDR Targets ID: 438077
Leishmania infantum, hypothetical protein, conserved
Source Database / ID: 

pI: 6.966 | Length (AA): 1260 | MW (Da): 139773 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG

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

PF04950   40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal
PF08142   AARP2CN (NUC121) domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0005525   GTP binding  
GO:0042254   ribosome biogenesis and assembly  

Metabolic Pathways

Ribosome biogenesis in eukaryotes (KEGG)

Structural information

Modbase 3D models:

There are 8 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
58 120 5kzf (A) 161 223 37.00 0.31 0.32 0.3302 0.86
84 282 2c78 (A) 9 245 15.00 0.052 0.65 0.152937 -0.07
86 160 2x8a (A) 615 711 35.00 0.76 0.55 0.128724 1.3
89 243 5izk (A) 10 209 25.00 0.01 0.93 0.383216 -0.03
740 1091 5wwn (A) 257 782 20.00 0 1 0.388565 1.25
826 1088 5iw7 (A) 533 779 28.00 0.00000000057 1 0.37093 1.32
1049 1144 4bfm (A) 214 304 30.00 0.64 0.08 0.18239 1.26
1141 1258 5j0l (A) 10 127 14.00 0.9 0.01 0.331651 -1.34

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_127790)

Species Accession Gene Product
Arabidopsis thaliana AT1G06720   BMS1 domain-containing protein
Babesia bovis BBOV_III003460   conserved hypothetical protein
Brugia malayi Bm1_52810   Ribosome biogenesis protein BMS1 homolog
Candida albicans CaO19.2504   bud site selection
Candida albicans CaO19.10040   bud site selection
Caenorhabditis elegans CELE_Y61A9LA.10   Protein Y61A9LA.10
Cryptosporidium hominis Chro.40168   hypothetical protein
Cryptosporidium hominis Chro.40169   hypothetical protein
Cryptosporidium parvum cgd4_1480   BMS1 like GTpase involved in ribosome biogenesis
Dictyostelium discoideum DDB_G0287891   BMS1-like ribosome biogenesis protein
Drosophila melanogaster Dmel_CG7728   CG7728 gene product from transcript CG7728-RA
Echinococcus granulosus EgrG_000954800   ribosome biogenesis protein BMS1
Entamoeba histolytica EHI_196410   Ribosome biogenesis protein BMS1, putative
Echinococcus multilocularis EmuJ_000954800   ribosome biogenesis protein BMS1
Giardia lamblia GL50803_102722   Ribosome biogenesis protein BMS1
Homo sapiens ENSG00000165733   BMS1 ribosome biogenesis factor
Homo sapiens 102724031   ribosome biogenesis protein BMS1 homolog
Homo sapiens 101929959   ribosome biogenesis protein BMS1 homolog
Homo sapiens 102725365   ribosome biogenesis protein BMS1 homolog
Leishmania braziliensis LbrM.28.2050   hypothetical protein, conserved
Leishmania donovani LdBPK_282000.1   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Leishmania infantum LinJ.28.2000   hypothetical protein, conserved
Leishmania major LmjF.28.1880   hypothetical protein, conserved
Leishmania mexicana LmxM.28.1880   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06959   Bms1l protein
Mus musculus ensembl-mmu:ENSMUSG00000030138   BMS1 homolog, ribosome assembly protein (yeast)
Neospora caninum NCLIV_057070   ribosome biogenesis protein BMS1, putative
Oryza sativa 4332742   Os03g0333100
Onchocerca volvulus OVOC6701  
Plasmodium berghei PBANKA_0206600   asparagine and aspartate rich protein 2, putative
Plasmodium falciparum PF3D7_0106700   small ribosomal subunit assembling AARP2 protein
Plasmodium knowlesi PKNH_0206800   aarp2 protein, putative
Plasmodium vivax PVX_081435   ribosome biogenesis protein BMS1, putative
Plasmodium yoelii PY04551   hypothetical protein
Saccharomyces cerevisiae YPL217C   GTPase BMS1
Schistosoma japonicum Sjp_0051420   expressed protein
Schistosoma japonicum Sjp_0051430   Ribosome biogenesis protein BMS1 homolog, putative
Schistosoma mansoni Smp_100030   ribosome biogenesis protein BMS1
Schmidtea mediterranea mk4.007429.01   Bms1l protein
Schmidtea mediterranea mk4.003438.02   Bms1l protein
Trypanosoma brucei gambiense Tbg972.11.10140   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.9080   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Trypanosoma congolense TcIL3000.11.9430   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Trypanosoma cruzi TcCLB.466879.10   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Trypanosoma cruzi TcCLB.510901.10   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Trypanosoma cruzi TcCLB.510899.59   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Trypanosoma cruzi TcCLB.511799.9   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Trypanosoma cruzi TcCLB.507077.9   AARP2CN (NUC121) domain/Protein of unknown function (DUF663), putative
Toxoplasma gondii TGME49_313830   AARP2CN (NUC121) domain-containing protein
Theileria parva TP03_0061   hypothetical protein, conserved
Theileria parva TP03_0062   hypothetical protein, conserved
Trichomonas vaginalis TVAG_296690   ribosome biogenesis protein, putative

Essentiality

LinJ.28.2000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0820 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.0820 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.0820 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.0820 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y61A9LA.10 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y61A9LA.10 Caenorhabditis elegans larval arrest wormbase
CELE_Y61A9LA.10 Caenorhabditis elegans slow growth wormbase
CELE_Y61A9LA.10 Caenorhabditis elegans sterile wormbase
YPL217C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0206600 Plasmodium berghei Essential plasmo
TGME49_313830 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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
  • 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
  • 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.

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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User comments

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Gene identifier LinJ.28.2000 (Leishmania infantum), hypothetical protein, conserved
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