Detailed view for Tb927.3.830

Basic information

TDR Targets ID: 17448
Trypanosoma brucei, flap endonuclease-1 (FEN-1), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.82 | Length (AA): 393 | MW (Da): 44363 | Paralog Number: 0

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

Druggability Group : DG4

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

PF00752   XPG N-terminal domain
PF00867   XPG I-region

Gene Ontology

Mouse over links to read term descriptions.
GO:0016788   hydrolase activity, acting on ester bonds  
GO:0004518   nuclease activity  
GO:0003824   catalytic activity  
GO:0003677   DNA binding  
GO:0006281   DNA repair  

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
1 341 3ory (A) 1 339 36.00 0 1 1.32248 -0.95
2 360 1ul1 (X) 2 356 51.00 0 1 1.39289 -0.3
78 358 3g64 (A) 2 275 24.00 0.0000015 1 1.10562 -0.37
94 352 1xx4 (A) 33 285 40.00 0 1 1.32826 -1.59

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 Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_127472)

Species Accession Gene Product
Arabidopsis thaliana AT5G26680   flap endonuclease-1
Babesia bovis BBOV_I000370   XPG N-terminal domain and XPG I-region domain containing protein
Brugia malayi Bm1_49605   Flap endonuclease-1
Caenorhabditis elegans CELE_Y47G6A.8   Protein CRN-1
Cryptosporidium hominis Chro.70245   flap endonuclease 1
Cryptosporidium parvum cgd7_2140   flap endonuclease 1
Dictyostelium discoideum DDB_G0284987   flap structure specific endonuclease 1
Drosophila melanogaster Dmel_CG8648   Flap endonuclease 1
Echinococcus granulosus EgrG_000632800   flap endonuclease 1
Entamoeba histolytica EHI_099740   Flap nuclease, putative
Echinococcus multilocularis EmuJ_000632800   flap endonuclease 1
Giardia lamblia GL50803_16953   Flap structure-specific endonuclease
Homo sapiens ENSG00000168496   flap structure-specific endonuclease 1
Leishmania braziliensis LbrM.27.0270   flap endonuclease-1 (FEN-1), putative
Leishmania donovani LdBPK_270260.1   flap endonuclease-1 (FEN-1), putative
Leishmania infantum LinJ.27.0260   flap endonuclease-1 (FEN-1), putative
Leishmania major LmjF.27.0250   flap endonuclease-1 (FEN-1), putative
Leishmania mexicana LmxM.27.0250   flap endonuclease-1 (FEN-1), putative
Loa Loa (eye worm) LOAG_07847   flap endonuclease-1
Mus musculus ENSMUSG00000024742   flap structure specific endonuclease 1
Neospora caninum NCLIV_066700   flap endonuclease-1, putative
Oryza sativa 4339464   Os05g0540100
Plasmodium berghei PBANKA_1006100   flap endonuclease 1, putative
Plasmodium falciparum PF3D7_0408500   flap endonuclease 1
Plasmodium knowlesi PKNH_0306500   flap endonuclease 1, putative
Plasmodium vivax PVX_000820   flap endonuclease 1, putative
Plasmodium yoelii PY02238   flap endonuclease-1-related
Saccharomyces cerevisiae YKL113C   multifunctional nuclease RAD27
Schistosoma japonicum Sjp_0302700   ko:K04799 flap endonuclease-1, putative
Schistosoma mansoni Smp_186980   flap endonuclease-1
Schmidtea mediterranea mk4.000776.02   Putative flap endonuclease-1
Trypanosoma brucei gambiense Tbg972.3.460   flap endonuclease-1 (FEN-1), putative
Trypanosoma brucei Tb927.3.830   flap endonuclease-1 (FEN-1), putative
Trypanosoma congolense TcIL3000_0_10230   flap endonuclease-1 (FEN-1), putative
Trypanosoma cruzi TcCLB.511867.110   flap endonuclease-1 (FEN-1), putative
Toxoplasma gondii TGME49_251620   flap structure-specific endonuclease 1, putative
Theileria parva TP02_0912   flap endonuclease 1, putative
Trichomonas vaginalis TVAG_001380   flap endonuclease-1, putative

Essentiality

Tb927.3.830 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.830 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.830 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.830 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.3.830 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y47G6A.8 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y47G6A.8 Caenorhabditis elegans slow growth wormbase
PBANKA_1006100 Plasmodium berghei Slow plasmo
TGME49_251620 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in procyclic forms . References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

Druggability index (range: 0 to 1): 0.8

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
Homo sapiens flap structure-specific endonuclease 1 Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0031 0.4619 1
0.0031 1 1
0.0274 0.2735 0.9832
0.0026 0.2946 1
0.0029 0.3022 0.4209
0.0031 0.4024 1
0.0031 0.4827 0.4544
0.0058 0.3968 1
0.0026 1 1
0.0031 0.6762 1
0.0026 0.5413 1
0.0031 0.3574 1
0.0026 1 1
0.0031 0.517 0.517
0.0104 0.4202 1
0.0031 0.4279 1
0.0031 1 1
0.0031 0.4024 1
0.0031 0.4024 1
0.0031 0.4024 1
0.0231 0.34 0.4743
0.0026 0.296 1
0.0031 0.3013 0.5
0.0038 0.5467 0.5
0.0031 1 1
0.0031 0.4672 0.3673
0.0038 0.5143 0
0.0038 0.2613 0.5
0.0027 0.6762 1
0.0028 0.3882 1
0.043 0.3403 0.5081
0.0031 0.5413 1
0.0031 0.469 1
0.0031 0.7221 0
0.0026 0.2946 1
0.0351 0.2638 0.2609
0.0031 0.5413 1
0.0031 1 1
0.0026 0.6762 0.7594
0.0026 0.5413 1
0.0031 0.513 1
0.0038 0.6997 0.5
0.0031 0.5392 0.9788
0.00756172 0.944437 1
0.0203 0.4024 1
0.0031 0.3938 1
0.0038 0.4204 0.5
0.0031 0.4024 1
0.0032 0.2612 0.2335
0.0201 0.4024 1
0.0025 1 1
0.013 0.5143 0.5
0.0034 0.8145 1
0.0032 0.845 1
0.0031 0.3013 0.5
0.0031 0.3013 0.5
0.0031 0.4024 1
0.0025 0.513 1
0.0031 0.4024 1
0.0381 0.3419 0.5435
0.0031 0.4024 1
0.0031 0.3013 1
0.0038 0.5143 0.5
0.00377953 1 1
0.0185 0.3337 0.3854
0.0031 0.5413 1
0.0304 0.2705 0.5471
0.0025 0.4024 0.914
0.0028 0.5413 1
0.0025 0.4024 0.914
0.0038 0.8145 1
0.0065 0.5143 0.5
0.0188 0.4264 1
0.0078 0.4024 1
0.0025 1 1
0.0026 0.2946 1
0.0202 0.4337 1
0.0031 0.4024 1
0.0028 0.5444 1
0.0025 0.3013 1
0.0027 0.5413 1
0.0031 0.4024 1
0.0031 1 1
0.0031 1 1
0.0026 0.3292 0.3292
0.0231 0.34 0.4743
0.0025 0.3535 1
0.0023 0.3013 1
0.0031 0.4024 1
0.0031 0.4024 1
0.0031 0.4024 1
0.0031 0.3308 0.3308
0.0275 0.2672 0.9587
0.0031 0.4657 1
0.0029 1 1
0.00383429 0.410623 1
0.0031 0.4024 1
0.0026 0.4206 1
0.0025 0.4827 0.4544
0.0026 0.5303 1
0.0031 0.6762 1
0.0089 0.8501 0.8501
0.0031 1 1
0.0031 0.5641 0.5167
0.0031 1 1
0.0026 0.3343 0
0.0031 1 1
0.0038 0.7682 0.5
0.0028 0.3536 0.6632
0.0128 0.3019 0.4069
0.0027 0.312 0.1907
0.0038 0.5143 0.5
0.0031 1 0.5
0.0025 1 1
0.0031 1 1
0.0031 0.2548 0.5
0.0031 1 1
0.0031 0.4571 1
0.0199 0.4264 1
0.0031 0.3484 1
0.0031 0.4024 1
0.0088 0.5008 1
0.0025 0.3535 1
0.003 0.3394 1
0.0026 1 1
0.0038 0.5143 0.5
0.0025 0.4827 0.4544
0.0038 0.7482 0.5
0.0027 0.3825 0.3825
0.0025 0.7382 0.7594
0.0031 1 1
0.0027 1 0.5
0.006 0.3901 1
0.0027 0.3013 0.5
0.0031 1 1
0.0038 0.5143 0.5
0.0031 1 1
0.0055 0.3119 0.3119
0.0329 0.2582 0.78
0.0038 0.3009 0.5
0.0031 0.3013 0.5
0.0031 0.4024 1
0.0173 0.9988 1
0.0118 0.2693 0
0.0088 1 1
0.0038 0.5143 1
0.0026 0.4024 1
0.0031 0.2684 1

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

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 Tb927.3.830 (Trypanosoma brucei), flap endonuclease-1 (FEN-1), putative
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