Detailed view for LmjF.12.0530

Basic information

TDR Targets ID: 28371
Leishmania major, glucose-6-phosphate isomerase
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6714 | Length (AA): 605 | MW (Da): 67169 | Paralog Number: 0

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

PF00342   Phosphoglucose isomerase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004347   glucose-6-phosphate isomerase activity  
GO:0006096   glycolysis  
GO:0006094   gluconeogenesis  

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
48 604 1hm5 (A) 1 553 59.00 0 1 1.67 -1.91
49 604 1t10 (A) 49 604 95.00 0 1 2.18 -2.2
2 604 4qfh (A) 3 607 70.00 0 1 1.90529 -1.43
49 604 1t10 (A) 49 604 95.00 0 1 2.11161 -1.53

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:

PDB tag
  • 1Q50:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 1T10:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% 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_126980)

Species Accession Gene Product
Arabidopsis thaliana AT4G24620   phosphoglucose isomerase 1
Arabidopsis thaliana AT5G42740   glucose-6-phosphate isomerase
Babesia bovis BBOV_II000240   glucose-6-phosphate isomerase protein
Brugia malayi Bm1_47625   glucose phosphate isomerase a
Candida albicans CaO19.11369   phosphoglucose isomerase
Candida albicans CaO19.3888   phosphoglucose isomerase
Caenorhabditis elegans CELE_Y87G2A.8   Protein GPI-1, isoform A
Cryptosporidium hominis Chro.20336   glucose-6-phosphate isomerase
Cryptosporidium parvum cgd2_3200   glucose-6-phosphate isomerase, cytosolic (GPI) (phosphoglucose isomerase) (PGI) (phosphohexose isomerase) (PHI)
Chlamydia trachomatis CT_378   glucose-6-phosphate isomerase
Dictyostelium discoideum DDB_G0283673   glucose-6-phosphate isomerase
Drosophila melanogaster Dmel_CG8251   Phosphoglucose isomerase
Escherichia coli b4025   glucosephosphate isomerase
Echinococcus granulosus EgrG_000626300   glucose 6 phosphate isomerase
Entamoeba histolytica EHI_047730   glucose-6-phosphate isomerase, putative
Echinococcus multilocularis EmuJ_000626300   glucose 6 phosphate isomerase
Giardia lamblia GL50803_9115   Glucose-6-phosphate isomerase
Homo sapiens ENSG00000105220   glucose-6-phosphate isomerase
Leishmania braziliensis LbrM.12.0490   glucose-6-phosphate isomerase
Leishmania donovani LdBPK_120490.1   glucose-6-phosphate isomerase
Leishmania infantum LinJ.12.0490   glucose-6-phosphate isomerase
Leishmania major LmjF.12.0530   glucose-6-phosphate isomerase
Leishmania mexicana LmxM.12.0530   glucose-6-phosphate isomerase
Loa Loa (eye worm) LOAG_05350   hypothetical protein
Loa Loa (eye worm) LOAG_01688   phosphoglucose isomerase
Loa Loa (eye worm) LOAG_01687   hypothetical protein
Mycobacterium leprae ML0150c   Probable glucose-6-phosphate isomerase Pgi (phosphoglucose isomerase) (phosphohexose isomerase) (PHI)
Mus musculus 14751   glucose phosphate isomerase 1
Mycobacterium tuberculosis Rv0946c   Probable glucose-6-phosphate isomerase Pgi (GPI) (phosphoglucose isomerase) (phosphohexose isomerase) (phi)
Mycobacterium ulcerans MUL_4416   glucose-6-phosphate isomerase
Neospora caninum NCLIV_028830   Glucose-6-phosphate isomerase (EC 5.3.1.9), related
Oryza sativa 4347311   Os09g0465600
Oryza sativa 4345842   Os08g0478800
Oryza sativa 4334290   Os03g0776000
Oryza sativa 4340677   Os06g0256500
Plasmodium berghei PBANKA_1008800   glucose-6-phosphate isomerase, putative
Plasmodium falciparum PF3D7_1436000   glucose-6-phosphate isomerase
Plasmodium knowlesi PKNH_0422600   glucose-6-phosphate isomerase
Plasmodium vivax PVX_084735   glucose-6-phosphate isomerase, putative
Plasmodium yoelii PY00618   Phosphoglucose isomerase
Saccharomyces cerevisiae YBR196C   glucose-6-phosphate isomerase
Schistosoma japonicum Sjp_0301250   ko:K01810 glucose-6-phosphate isomerase [EC5.3.1.9], putative
Schistosoma mansoni Smp_022400   glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.003023.02   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.012801.01  
Schmidtea mediterranea mk4.012801.00   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.021570.00   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.021501.00   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.015732.00   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.004297.00   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.059617.00   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.001664.04   Glucose-6-phosphate isomerase
Schmidtea mediterranea mk4.021570.01  
Schmidtea mediterranea mk4.035731.02   Glucose-6-phosphate isomerase
Trypanosoma brucei gambiense Tbg972.1.2390   glucose-6-phosphate isomerase, glycosomal
Trypanosoma brucei Tb927.1.3830   glucose-6-phosphate isomerase, glycosomal
Trypanosoma congolense TcIL3000_0_29570   glucose-6-phosphate isomerase, glycosomal
Trypanosoma cruzi TcCLB.510889.221   glucose-6-phosphate isomerase, glycosomal, putative
Trypanosoma cruzi TcCLB.506529.508   glucose-6-phosphate isomerase, glycosomal, putative
Toxoplasma gondii TGME49_283780   glucose-6-phosphate isomerase GPI
Treponema pallidum TP0475   glucose-6-phosphate isomerase
Theileria parva TP03_0346   glucose-6-phosphate isomerase, putative
Trichomonas vaginalis TVAG_061930   glucose-6-phosphate isomerase, putative
Trichomonas vaginalis TVAG_389760   glucose-6-phosphate isomerase, putative

Essentiality

LmjF.12.0530 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu962 Mycobacterium tuberculosis essential nmpdr
Tb927.1.3830 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.1.3830 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.1.3830 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.1.3830 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b4025 Escherichia coli non-essential goodall
CELE_Y87G2A.8 Caenorhabditis elegans embryonic lethal wormbase
YBR196C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1008800 Plasmodium berghei Essential plasmo
TGME49_283780 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
catalytic activity (GO:0003824) decreased (PATO:0000468) in vitro (MI:0492) inferred from specific protein inhibition (ECO:0000020) Leishmania mexicana 570975  
Annotator: aaronjr@u.washington.edu. Comment: Drug: 219946-61-9; Drug: 249603-36-9; Drug: 304859-94-7. chemical inhibition with PGI inhibitors leads to reduced enzyme activity in vitro; . References: 15103138

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

  • Validation: inhibited in cell-free system
  • annotated by: aaronjr@u.washington.edu.
  • References: 15103138

Associated compounds / Druggability

Druggability index (range: 0 to 1): 0.2

Known modulators for this target

Compound Source Reference
Curated by TDRTargets References

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Oryctolagus cuniculus Glucose-6-phosphate isomerase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

No enough druggable targets predicted through repurposing network model to make a plot

Putative Drugs List

Compound Raw Global Species
0.0092 0.2906 0.2174

Assayability

Assay information

  • Assay for Phosphoglucose Isomerase (5.3.1.9 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.
  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in An enzyme with this EC number or name or sequence has been assayed in Leishmania mexicana mexicana ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    LmjF.12.0530 purified protein BRENDA A protein with this EC number or name or sequence has been purified from A protein with this EC number or name or sequence has been purified from Leishmania mexicana mexicana ( 1 )

Bibliographic References

23 literature references were collected for this gene.

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Gene identifier LmjF.12.0530 (Leishmania major), glucose-6-phosphate isomerase
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