Detailed view for LmjF.35.2190

Basic information

TDR Targets ID: 23216
Leishmania major, 60S ribosomal protein L12, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.583 | Length (AA): 164 | MW (Da): 17538 | Paralog Number: 1

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

PF00298   Ribosomal protein L11, RNA binding domain
PF03946   Ribosomal protein L11, N-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0005840   ribosome  
GO:0003735   structural constituent of ribosome  
GO:0006412   translation  

Metabolic Pathways

Ribosome (KEGG)

Structural information

Modbase 3D models:

There are 7 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
7 145 1nkw (G) 2 140 21.00 0 1 1.03 0.99
7 144 2aw4 (I) 2 140 23.00 0 1 1.18 -0.39
74 143 1mms (B) 72 139 28.00 0 1 0.83 -1.51
1 84 1wib (A) 1 84 54.00 0 1 1.0416 0.75
9 161 5col (A) 1 154 30.00 0 1 1.25613 -0.33
69 144 1hc8 (A) 2 75 23.00 0 0.83 0.829615 -0.93
74 144 1vq8 (I) 72 140 20.00 0 0.93 0.688327 -0.88

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

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_127022)

Species Accession Gene Product
Arabidopsis thaliana AT3G53430   60S ribosomal protein L12-2
Arabidopsis thaliana AT2G37190   ribosomal protein L11 family protein
Arabidopsis thaliana AT5G60670   60S ribosomal protein L12-3
Babesia bovis BBOV_II003110   60S ribosomal protein L12 protein, putative
Brugia malayi Bm1_07030   60S ribosomal protein L12
Candida albicans CaO19.9203   similar to S. cerevisiae RPL12B (YDR418W) and RPL12A (YEL054C) genes for cytosolic large subunit ribosomal protein L12
Candida albicans CaO19.1635   similar to S. cerevisiae RPL12B (YDR418W) and RPL12A (YEL054C) genes for cytosolic large subunit ribosomal protein L12
Caenorhabditis elegans CELE_JC8.3   Protein RPL-12, isoform A
Cryptosporidium hominis Chro.30162   60S ribosomal protein l12
Cryptosporidium parvum cgd3_1300   60S ribosomal protein L12
Dictyostelium discoideum DDB_G0288295   S60 ribosomal protein L12
Drosophila melanogaster Dmel_CG3195   Ribosomal protein L12
Echinococcus granulosus EgrG_001089800   ribosomal protein L12
Entamoeba histolytica EHI_030710   60S ribosomal protein L12, putative
Entamoeba histolytica EHI_048680   60S ribosomal protein L12, putative
Entamoeba histolytica EHI_191750   60S ribosomal protein L12, putative
Echinococcus multilocularis EmuJ_001089800   ribosomal protein L12
Giardia lamblia GL50803_14938   Ribosomal protein L12
Homo sapiens ENSG00000197958   ribosomal protein L12
Leishmania braziliensis LbrM.34.2120   60S ribosomal protein L12, putative
Leishmania braziliensis LbrM.24.2290   60S ribosomal protein L12, putative
Leishmania donovani LdBPK_352230.1   60S ribosomal protein L12, putative
Leishmania infantum LinJ.24.2300   60S ribosomal protein L12, putative
Leishmania infantum LinJ.35.2230   60S ribosomal protein L12, putative
Leishmania major LmjF.24.2210   60S ribosomal protein L12, putative
Leishmania major LmjF.35.2190   60S ribosomal protein L12, putative
Leishmania mexicana LmxM.24.2210   60S ribosomal protein L12, putative
Loa Loa (eye worm) LOAG_04269   ribosomal protein L12
Mus musculus 102640707   predicted gene 15793
Mus musculus 269261   ribosomal protein L12
Mus musculus 102635048   60S ribosomal protein L12-like
Mus musculus 102638498   predicted gene 15732
Mus musculus 102641574   60S ribosomal protein L12-like
Neospora caninum NCLIV_008730   hypothetical protein
Oryza sativa 4336856   Os04g0598200
Oryza sativa 4330425   Os02g0699600
Plasmodium berghei PBANKA_1231800   60S ribosomal protein L12, putative
Plasmodium falciparum PF3D7_0517000   60S ribosomal protein L12, putative
Plasmodium knowlesi PKNH_1016300   60S ribosomal protein L12, putative
Plasmodium vivax PVX_080400   60S ribosomal protein L12, putative
Plasmodium yoelii PY04344   probable 60s ribosomal protein l12
Saccharomyces cerevisiae YEL054C   ribosomal 60S subunit protein L12A
Saccharomyces cerevisiae YDR418W   ribosomal 60S subunit protein L12B
Schistosoma japonicum Sjp_0113150   ko:K02870 large subunit ribosomal protein L12e, putative
Schistosoma mansoni Smp_012750   60S ribosomal protein L12
Schmidtea mediterranea mk4.008606.01   60S ribosomal protein L12
Schmidtea mediterranea mk4.002876.00   60S ribosomal protein L12
Trypanosoma brucei gambiense Tbg972.9.8740   60S ribosomal protein L12, putative
Trypanosoma brucei gambiense Tbg972.8.6050   60S ribosomal protein L12, putative
Trypanosoma brucei Tb427tmp.211.4550   60S ribosomal protein L12, putative
Trypanosoma brucei Tb927.9.14000   60S ribosomal protein L12, putative
Trypanosoma congolense TcIL3000_8_5800   60S ribosomal protein L12, putative
Trypanosoma congolense TcIL3000_9_5960   60S ribosomal protein L12, putative
Trypanosoma cruzi TcCLB.510755.129   60S ribosomal protein L12, putative
Trypanosoma cruzi TcCLB.511071.171   60S ribosomal protein L12, putative
Trypanosoma cruzi TcCLB.504037.30   60S ribosomal protein L12, putative
Trypanosoma cruzi TcCLB.508413.44   60S ribosomal protein L12, putative
Toxoplasma gondii TGME49_254440   ribosomal protein RPL12
Theileria parva TP04_0282   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_015780   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_014160   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_378180   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_254840   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_388550   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_155060   60S ribosomal protein L12, putative
Trichomonas vaginalis TVAG_228300   60S ribosomal protein L12, putative

Essentiality

LmjF.35.2190 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.6030 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.6030 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.6030 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.6030 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb09.211.4550 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.211.4550 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.4550 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.4550 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_JC8.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_JC8.3 Caenorhabditis elegans larval lethal wormbase
CELE_JC8.3 Caenorhabditis elegans slow growth wormbase
CELE_JC8.3 Caenorhabditis elegans sterile wormbase
PBANKA_1231800 Plasmodium berghei Essential plasmo
TGME49_254440 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.

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Gene identifier LmjF.35.2190 (Leishmania major), 60S ribosomal protein L12, putative
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