Detailed view for TcCLB.508413.50

Basic information

TDR Targets ID: 35085
Trypanosoma cruzi, RNA-binding protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.771 | Length (AA): 276 | MW (Da): 31097 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Gene Ontology

Mouse over links to read term descriptions.
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
20 102 1rk8 (A) 66 150 25.00 0.0000000097 1 0.81 -1.79
25 274 2adc (A) 336 530 19.00 0.000000000011 1 0.78 0.56
1 270 3smz (A) 38 296 15.00 0 0.49 1.07386 0.24
6 108 1x4c (A) 3 95 41.00 0.0000000039 1 0.785088 -0.82
6 143 2dha (A) 145 265 34.00 0.73 1 0.5629 0.17
197 241 2cjk (A) 160 205 36.00 0.79 0.92 0.642944 -0.58
197 272 2do4 (A) 802 877 32.00 0.00000027 1 0.855262 -1.7

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_128158)

Species Accession Gene Product
Arabidopsis thaliana AT2G37220   chloroplast RNA binding protein
Arabidopsis thaliana AT3G53460   chloroplast RNA-binding protein 29
Babesia bovis BBOV_IV006730   single stranded G-strand telomeric DNA-binding protein, putative
Brugia malayi Bm1_04590   hypothetical protein
Candida albicans CaO19_7076   hypothetical protein
Candida albicans CaO19.7076   similar to single-stranded telomeric DNA-binding protein
Caenorhabditis elegans CELE_C25A1.4   Protein C25A1.4
Cryptosporidium hominis Chro.10393   single-stranded G-strand telomeric DNA-binding protein
Cryptosporidium parvum cgd1_3530   Gbp1/Gbp2p-like, putative single stranded G-strand telomeric DNA-binding protein
Drosophila melanogaster Dmel_CG9373   rumpelstiltskin
Echinococcus granulosus EgrG_000264300   rna recognition motif rrm domain containing protein
Echinococcus multilocularis EmuJ_000264300   rna recognition motif (rrm) domain containing protein
Homo sapiens 50804   myelin expression factor 2
Leishmania braziliensis LbrM.34.2130   RNA-binding protein, putative
Leishmania donovani LdBPK_352240.1   RNA-binding protein, putative
Leishmania infantum LinJ.35.2240   RNA-binding protein, putative
Leishmania major LmjF.35.2200   RNA-binding protein, putative
Leishmania mexicana LmxM.34.2200   RNA-binding protein, putative
Loa Loa (eye worm) LOAG_11268   hypothetical protein
Mus musculus ENSMUSG00000027201   myelin basic protein expression factor 2, repressor
Neospora caninum NCLIV_025240   Gbp1p protein, putative
Oryza sativa 4332957   Os03g0376600
Oryza sativa 4344001   Os07g0631900
Onchocerca volvulus OVOC1255  
Plasmodium berghei PBANKA_1205000   single-strand telomeric DNA-binding protein GBP2, putative
Plasmodium falciparum PF3D7_1006800   single-strand telomeric DNA-binding protein GBP2, putative
Plasmodium knowlesi PKNH_0805600   single-strand telomeric DNA-binding protein GBP2, putative
Plasmodium vivax PVX_094535   RNA-binding protein, putative
Plasmodium yoelii PY03354   Gbp1p protein-related
Saccharomyces cerevisiae YCL011C   Gbp2p
Saccharomyces cerevisiae YNL004W   Hrb1p
Schistosoma japonicum Sjp_0038600   Myelin expression factor 2, putative
Schistosoma mansoni Smp_041480.1   rna recognition motif (rrm) domain containing protein
Schistosoma mansoni Smp_041480.2   rna recognition motif (rrm) domain containing protein
Schistosoma mansoni Smp_041480.3   rna recognition motif (rrm) domain containing protein
Schmidtea mediterranea mk4.000429.01  
Trypanosoma brucei gambiense Tbg972.9.8730   RNA-binding protein, putative,DRBD2
Trypanosoma brucei Tb927.9.13990   RNA-binding protein, putative
Trypanosoma cruzi TcCLB.508413.50   RNA-binding protein, putative
Trypanosoma cruzi TcCLB.510755.120   RNA-binding protein, putative
Toxoplasma gondii TGME49_262620   RNA recognition motif-containing protein
Theileria parva TP04_0059   hypothetical protein, conserved

Essentiality

TcCLB.508413.50 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.4540 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.4540 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.4540 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.4540 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1205000 Plasmodium berghei Slow plasmo
TGME49_262620 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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 TcCLB.508413.50 (Trypanosoma cruzi), RNA-binding protein, putative
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