Detailed view for LmjF.19.0280

Basic information

TDR Targets ID: 28464
Leishmania major, sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.8912 | Length (AA): 633 | MW (Da): 69135 | Paralog Number: 1

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

Druggability Group : DG2

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

PF00350   Dynamin family
PF16880   N-terminal EH-domain containing protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0005525   GTP binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
43 335 2aka (B) 6 303 14.00 0 0.29 0.56 -0.52
67 278 2cxx (A) 3 180 15.00 0.00000015 0.92 0.21 -0.39
28 467 2qpt (A) 21 479 32.00 0 1 1.0358 -0.16
62 228 2j69 (A) 65 241 22.00 0 0.52 0.328523 0.02
68 180 2j69 (A) 72 201 31.00 0.8 0.13 0.263215 0.48
128 345 1txg (A) 105 283 28.00 0.55 1 0.361092 1.13

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
Mid 40-60% 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_127350)

Species Accession Gene Product
Arabidopsis thaliana AT3G20290   EPS15 homology domain 1 protein
Arabidopsis thaliana AT4G05520   EPS15 homology domain 2 protein
Brugia malayi Bm1_25225   EH-domain containing protein 3
Caenorhabditis elegans CELE_W06H8.1   Protein RME-1, isoform F
Dictyostelium discoideum DDB_G0282233   hypothetical protein
Drosophila melanogaster Dmel_CG6148   Putative Achaete Scute Target 1
Echinococcus granulosus EgrG_000851900   Receptor Mediated Endocytosis family member
Entamoeba histolytica EHI_052870   ENTH domain protein, putative
Entamoeba histolytica EHI_152680   EH-domain containing protein, putative
Entamoeba histolytica EHI_105270   Receptor mediated endocytosis protein, putative
Echinococcus multilocularis EmuJ_000851900   Receptor Mediated Endocytosis family member
Homo sapiens ENSG00000110047   EH-domain containing 1
Homo sapiens ENSG00000024422   EH-domain containing 2
Homo sapiens 30845   EH-domain containing 3
Homo sapiens 30844   EH-domain containing 4
Leishmania braziliensis LbrM.19.0590   sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
Leishmania braziliensis LbrM.20.1770   hypothetical protein, conserved
Leishmania donovani LdBPK_190270.1   Sarcalumenin, putative
Leishmania donovani LdBPK_342040.1   Dynamin family, putative
Leishmania infantum LinJ.34.2040   hypothetical protein, conserved
Leishmania infantum LinJ.19.0270   sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
Leishmania major LmjF.19.0280   sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
Leishmania major LmjF.34.2270   hypothetical protein, conserved
Leishmania mexicana LmxM.19.0280   sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
Leishmania mexicana LmxM.33.2270   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_11153   EH-domain-containing protein 3
Loa Loa (eye worm) LOAG_01942   hypothetical protein
Loa Loa (eye worm) LOAG_12119   hypothetical protein
Loa Loa (eye worm) LOAG_13090   hypothetical protein
Mus musculus 259300   EH-domain containing 2
Mus musculus ENSMUSG00000027293   EH-domain containing 4
Mus musculus ENSMUSG00000024065   EH-domain containing 3
Mus musculus ENSMUSG00000024772   EH-domain containing 1
Neospora caninum NCLIV_031580   GA19392, related
Oryza sativa 4341894   Os06g0687800
Oryza sativa 4328363   Os02g0158100
Oryza sativa 4337342   Os04g0669300
Onchocerca volvulus OVOC8114  
Onchocerca volvulus OVOC9312  
Plasmodium berghei PBANKA_0402800   EH domain-containing protein, putative
Plasmodium falciparum PF3D7_0304200   EH domain-containing protein
Plasmodium knowlesi PKNH_0838900   EH domain-containing protein, putative
Plasmodium vivax PVX_119335   EH (for Eps15 Homology) domain containing protein
Plasmodium yoelii PY03528   Plasmodium vivax PV1H14130_P
Schistosoma japonicum Sjp_0301270   EH domain-containing protein 1, putative
Schistosoma japonicum Sjp_0002850   EH domain-containing protein 1, putative
Schistosoma mansoni Smp_065180   eh domain containing/past-1-related
Schistosoma mansoni Smp_019100   eh domain containing/past-1-related
Schmidtea mediterranea mk4.002630.01  
Schmidtea mediterranea mk4.009408.00  
Schmidtea mediterranea mk4.000000.55  
Schmidtea mediterranea mk4.003056.05  
Trypanosoma brucei gambiense Tbg972.4.2340   sarcoplasmic reticulum glycoprotein, putative
Trypanosoma brucei gambiense Tbg972.10.18120   sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
Trypanosoma brucei Tb927.10.14910   Sarcalumenin, putative
Trypanosoma brucei Tb927.4.2380   sarcoplasmic reticulum glycoprotein, putative
Trypanosoma congolense TcIL3000_10_12790   Sarcalumenin, putative
Trypanosoma cruzi TcCLB.506559.270   sarcoplasmic reticulum glycoprotein, putative
Trypanosoma cruzi TcCLB.506211.100   Sarcalumenin, putative
Trypanosoma cruzi TcCLB.508895.30   Sarcalumenin, putative
Toxoplasma gondii TGME49_231210   sarcalumenin/eps15 family protein

Essentiality

LmjF.19.0280 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.14910 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.14910 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.14910 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.14910 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.4.2380 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.2380 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.2380 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2380 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_W06H8.1 Caenorhabditis elegans embryonic lethal wormbase
PBANKA_0402800 Plasmodium berghei Dispensable plasmo
TGME49_231210 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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.19.0280 (Leishmania major), sarcoplasmic reticulum glycoprotein, putative,sarcalumenin precursor, putative
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