Detailed view for LmjF.36.6230

Basic information

TDR Targets ID: 27041
Leishmania major, ADP ribosylation factor 3, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.0388 | Length (AA): 178 | MW (Da): 20004 | 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

PF00025   ADP-ribosylation factor family

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0005525   GTP binding  
GO:0007264   small GTPase mediated signal transduction  
GO:0006886   intracellular protein transport  

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
2 178 1moz (A) 7 180 44.00 0 1 1.64 -1.63
2 176 1fzq (A) 2 177 55.00 0 1 1.82 -2.08
19 177 1zd9 (A) 22 181 31.00 0 1 1.5 -2.09
2 176 1fzq (A) 2 177 55.00 0 1 1.79255 -1.67
2 178 3doe (A) 2 178 46.00 0 1 1.64878 -1.2
3 177 1zj6 (A) 4 177 39.00 0 1 1.55855 -1.4
17 178 5de3 (A) 17 178 58.00 0 1 1.71051 -1.46

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile amastigotes. 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_130091)

Species Accession Gene Product
Brugia malayi Bm1_39945   ADP-ribosylation factor-like protein 3
Caenorhabditis elegans CELE_F19H8.3   Protein ARL-3
Drosophila melanogaster Dmel_CG6560   dead end
Giardia lamblia GL50803_13478   ARL1
Homo sapiens ENSG00000138175   ADP-ribosylation factor-like 3
Leishmania braziliensis LbrM.35.6550   ADP ribosylation factor 3, putative
Leishmania braziliensis LbrM.29.0940   ADP ribosylation factor 3, putative
Leishmania donovani LdBPK_366490.1   ADP-ribosylation factor-like protein 3b, putative
Leishmania donovani LdBPK_290950.1   ADP-ribosylation factor-like protein 3A, putative
Leishmania infantum LinJ.36.6490   ADP ribosylation factor 3, putative
Leishmania infantum LinJ.29.0950   ADP ribosylation factor 3, putative
Leishmania major LmjF.36.6230   ADP ribosylation factor 3, putative
Leishmania major LmjF.29.0880   ADP ribosylation factor 3, putative
Leishmania mexicana LmxM.08_29.0880   ADP ribosylation factor 3, putative
Leishmania mexicana LmxM.36.6230   ADP ribosylation factor 3, putative
Loa Loa (eye worm) LOAG_11439   hypothetical protein
Loa Loa (eye worm) LOAG_04492   hypothetical protein
Mus musculus ENSMUSG00000025035   ADP-ribosylation factor-like 3
Schistosoma japonicum Sjp_0060570   ko:K07944 ADP-ribosylation factor-like 3, putative
Schistosoma mansoni Smp_159930   ADP-ribosylation factor-like 3 arl3
Schmidtea mediterranea mk4.004973.00   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.001485.00   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.000672.03   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.001865.01   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.002854.06   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.007512.00   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.018954.01   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.000074.11   ADP-ribosylation factor-like protein 3
Schmidtea mediterranea mk4.003897.01   ADP-ribosylation factor-like protein 3
Trypanosoma brucei gambiense Tbg972.3.3690   ADP-ribosylation factor-like protein 3A, putative
Trypanosoma brucei Tb927.3.3450   ADP-ribosylation factor-like protein 3, putative
Trypanosoma congolense TcIL3000_3_2160   ADP-ribosylation factor-like protein 3, putative
Trypanosoma cruzi TcCLB.507951.170   ADP-ribosylation factor-like protein 3, putative
Trypanosoma cruzi TcCLB.504433.10   ADP-ribosylation factor-like protein 3, putative
Trichomonas vaginalis TVAG_433430   ADP-ribosylation factor, arf, putative
Trichomonas vaginalis TVAG_120630   ADP-ribosylation factor, arf, putative

Essentiality

LmjF.36.6230 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.3450 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.3450 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.3450 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.3.3450 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell motility (GO:0006928) decreased (PATO:0000468) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from over expression (ECO:0000120) Leishmania amazonensis No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 10806117
cell motility (GO:0006928) decreased (PATO:0000468) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania amazonensis No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 10806117
growth (GO:0040007) decreased time (PATO:0000716) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from over expression (ECO:0000120) Leishmania amazonensis No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 10806117
growth (GO:0040007) decreased time (PATO:0000716) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania amazonensis No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 10806117
viability (PATO:0000169) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from loss-of-function mutant phenotype (ECO:0000016) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 12969377 15582509
viability (PATO:0000169) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 12969377 15582509
growth (GO:0040007) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from loss-of-function mutant phenotype (ECO:0000016) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 12969377 15582509
growth (GO:0040007) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 12969377 15582509
flagellum (GO:0019861) absent (PATO:0000462) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from loss-of-function mutant phenotype (ECO:0000016) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 12969377 15582509
flagellum (GO:0019861) absent (PATO:0000462) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from visible phenotype (ECO:0000176) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 12969377
viability (PATO:0000169) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from loss-of-function mutant phenotype (ECO:0000016) Leishmania major No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509
viability (PATO:0000169) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania major No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509
growth (GO:0040007) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from loss-of-function mutant phenotype (ECO:0000016) Leishmania major No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509
growth (GO:0040007) normal (PATO:0000461) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania major No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509
flagellum (GO:0019861) absent (PATO:0000462) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania donovani No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509
flagellum (GO:0019861) absent (PATO:0000462) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from loss-of-function mutant phenotype (ECO:0000016) Leishmania major No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509
flagellum (GO:0019861) absent (PATO:0000462) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania major No drug identifiers listed for this gene.
Annotator: aaronjr@u.washington.edu. Comment: overexpression or mutant phenotypes lead to loss of motilty or absence of flagellum in promastigotes; still viable as amastigotes. References: 15582509

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): 0.2

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.

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Gene identifier LmjF.36.6230 (Leishmania major), ADP ribosylation factor 3, putative
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