Detailed view for PF3D7_1414700

Basic information

TDR Targets ID: 2478
Plasmodium falciparum, ubiquitin carboxyl-terminal hydrolase, putative

Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.0449 | Length (AA): 1384 | MW (Da): 164385 | Paralog Number: 0

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

Pfam domains

PF00443   Ubiquitin carboxyl-terminal hydrolase

Gene Ontology

Mouse over links to read term descriptions.
GO:0036459   GO:thiol-dependent ubiquitinyl hydrolase activity  

GO:0016579   protein deubiquitination  
GO:0004221   ubiquitin thiolesterase activity  
GO:0006511   ubiquitin-dependent protein catabolic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 16 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
183 854 1j7n (A) 29 726 17.00 0.0000016 0.98 0.52 1.08
692 1044 2f1z (A) 161 525 19.00 0 1 0.35 0.57
718 1037 2gfo (A) 763 1106 21.00 0 1 0.41 -0.2
739 1089 2f1z (A) 222 551 18.00 0 0.89 0.19 0.38
1 259 4o87 (A) 47 315 29.00 0.0011 0.16 0.202839 1.49
80 286 4tql (A) 9 231 16.00 0.00029 0.14 0.247166 -0.32
168 353 4uos (A) 2 183 13.00 0.053 0.08 0.224993 -0.51
612 1037 2f1z (B) 96 525 16.00 0 1 0.425903 0.84
731 995 5cvn (B) 36 311 32.00 0 1 0.352174 0.98
1 258 4o87 (A) 47 315 29.00 0.0038 0.16 0.182951 1.58
12 344 2yk0 (A) 384 715 20.00 0.012 0.7 0.286781 1.26
44 243 4uos (A) 1 184 21.00 0.069 0.29 0.303713 -0.51
153 352 4tql (A) 24 228 15.00 0.44 0.03 0.289613 -0.4
523 1352 1s0f (A) 310 1193 23.00 0.18 0.78 0.484545 2.02
611 1036 2f1z (B) 96 525 16.00 0 1 0.385026 1.15
730 994 5cvn (B) 36 311 32.00 0 1 0.352012 0.98

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 intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, merozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 16 hs, Female Gametocyte, sporozoite, early ring, early trophozoite, late ring. Otto TD Lasonder PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 24 hs, Ring, Sporozoite, gametocyte, late trophozoite. Otto TD Zhanghi PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst, Male Gametocyte, early schizont. Otto TD Zhanghi Lasonder PlasmoDB
Show/Hide expression data references
  • Lasonder Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zhanghi A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB

Orthologs

Ortholog group members (OG5_127816)

Species Accession Gene Product
Arabidopsis thaliana AT5G57990   ubiquitin carboxyl-terminal hydrolase 23
Babesia bovis BBOV_III006180   ubiquitin carboxyl-terminal hydrolase family protein
Brugia malayi Bm1_17830   Ubiquitin carboxyl-terminal hydrolase family protein
Candida albicans CaO19.10877   ubiquitin C-terminal hydrolase
Candida albicans CaO19.10878   ubiquitin-specific protease
Candida albicans CaO19.3370   ubiquitin-specific protease
Caenorhabditis elegans CELE_K09A9.4   Protein USP-33
Cryptosporidium hominis Chro.80498   hypothetical protein
Cryptosporidium parvum cgd8_4340   ubiquitin carboxyl-terminal hydrolase of the cysteine proteinase fold
Dictyostelium discoideum DDB_G0274827   peptidase C19 family protein
Drosophila melanogaster Dmel_CG5505   scrawny
Echinococcus granulosus EgrG_001164900   ubiquitin carboxyl terminal hydrolase 23
Echinococcus granulosus EgrG_000167900   ubiquitin carboxyl terminal hydrolase 36
Entamoeba histolytica EHI_199610   ubiquitin carboxyl-terminal hydrolase domain containing protein
Echinococcus multilocularis EmuJ_000167900   ubiquitin carboxyl terminal hydrolase 36
Echinococcus multilocularis EmuJ_001164900   ubiquitin specific peptidase 42 (C19 family)
Homo sapiens ENSG00000106346   ubiquitin specific peptidase 42
Homo sapiens ENSG00000055483   ubiquitin specific peptidase 36
Leishmania braziliensis LbrM.24.0630   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania donovani LdBPK_240630.1   ubiquitin carboxyl-terminal hydrolase, putative
Leishmania infantum LinJ.24.0630   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania major LmjF.24.0620   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania mexicana LmxM.24.0620   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Mus musculus ENSMUSG00000033909   ubiquitin specific peptidase 36
Mus musculus ENSMUSG00000051306   ubiquitin specific peptidase 42
Neospora caninum NCLIV_046080   hypothetical protein
Oryza sativa 4331000   Os02g0795000
Oryza sativa 4340327   Os06g0184300
Plasmodium berghei PBANKA_1028000   ubiquitin carboxyl-terminal hydrolase, putative
Plasmodium falciparum PF3D7_1414700 this record   ubiquitin carboxyl-terminal hydrolase, putative
Plasmodium knowlesi PKNH_1343400   ubiquitin carboxyl-terminal hydrolase, putative
Plasmodium vivax PVX_085715   hypothetical protein, conserved
Plasmodium yoelii PY05772   Putative Hydrolase
Saccharomyces cerevisiae YNL186W   Ubp10p
Schistosoma mansoni Smp_046430   ubiquitin-specific peptidase 42 (C19 family)
Schmidtea mediterranea mk4.035672.00  
Schmidtea mediterranea mk4.010331.02  
Schmidtea mediterranea mk4.002105.07  
Schmidtea mediterranea mk4.010264.01  
Schmidtea mediterranea mk4.000297.01  
Schmidtea mediterranea mk4.000311.00  
Trypanosoma brucei gambiense Tbg972.11.5950   ubiquitin carboxyl-terminal hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Trypanosoma brucei Tb927.11.5270   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma congolense TcIL3000.11.5520   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma cruzi TcCLB.504131.170   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma cruzi TcCLB.504125.30   ubiquitin carboxyl-terminal hydrolase, putative
Toxoplasma gondii TGME49_226940   ubiquitin carboxyl-terminal hydrolase
Theileria parva TP02_0344   hypothetical protein
Trichomonas vaginalis TVAG_310100   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_170060   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase

Essentiality

PF3D7_1414700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.2940 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.2940 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.02.2940 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.2940 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_226940 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

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 log in using your TDR Targets username and password and send them to us using the corresponding form in this page (only visible to registered users) or contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Druggability index (range: 0 to 1): 0.5


Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Leishmania major ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative Compounds References
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 PF3D7_1414700 (Plasmodium falciparum), ubiquitin carboxyl-terminal hydrolase, putative
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