Detailed view for TGME49_214850

Basic information

TDR Targets ID: 257403
Toxoplasma gondii, 1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Source Database / ID:  ToxoDB 

pI: 7.6503 | Length (AA): 632 | MW (Da): 68924 | Paralog Number: 0

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

Druggability Group : DG5

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

PF02670   1-deoxy-D-xylulose 5-phosphate reductoisomerase
PF08436   1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal
PF13288   DXP reductoisomerase C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0070402   GO:NADPH binding  

GO:0046872   metal ion binding  
GO:0030604   1-deoxy-D-xylulose-5-phosphate reductoisomerase activity  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0055114   oxidation reduction  
GO:0008299   isoprenoid biosynthetic process  
GO:0008152   metabolic process  

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
1 378 1q0q (A) 17 395 40.00 0 1 1.34 -0.8
8 374 2c82 (A) 30 384 41.00 0 1 1.48 -0.75
183 631 5dul (A) 0 395 41.00 0 1 0.970543 -0.09
186 631 3au8 (A) 77 484 40.00 0 1 1.0238 -0.37
186 631 1ono (A) 1 395 42.00 0 1 1.0218 -0.05
188 630 4a03 (A) 14 387 44.00 0 1 1.07705 -0.35

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 ME49 Oocyst. Fritz HM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite, ME49 Bradyzoite. Gregory Hehl AB Sibley/Greg
Show/Hide expression data references
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Hehl AB Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within feline enterocytes.
  • Gregory ToxoDB

Orthologs

Ortholog group members (OG5_130462)

Species Accession Gene Product
Arabidopsis thaliana AT5G62790   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Babesia bovis BBOV_III010740   1-deoxy-D-xylulose 5-phosphate reductoisomerase family protein
Chlamydia trachomatis CT_071   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Escherichia coli b0173   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Mycobacterium leprae ML1583c   PROBABLE 1-DEOXY-D-XYLULOSE 5-PHOSPHATE REDUCTOISOMERASE DXR (DXP REDUCTOISOMERASE) (1-DEOXYXYLULOSE-5-PHOSPHATE REDUCTOISOMERAS
Mycobacterium tuberculosis Rv2870c   Probable 1-deoxy-D-xylulose 5-phosphate reductoisomerase Dxr (DXP reductoisomerase) (1-deoxyxylulose-5-phosphate reductoisomeras
Mycobacterium ulcerans MUL_2085   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Neospora caninum NCLIV_051900   1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Oryza sativa 4326153   Os01g0106900
Plasmodium berghei PBANKA_1330600   1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Plasmodium falciparum PF3D7_1467300   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Plasmodium knowlesi PKNH_1214000   1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Plasmodium vivax PVX_117100   1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Plasmodium yoelii PY05578   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Toxoplasma gondii TGME49_214850   1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Treponema pallidum TP0601   1-deoxy-D-xylulose 5-phosphate reductoisomerase
Theileria parva TP02_0073   1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0179   1-deoxy-D-xylulose 5-phosphate reductoisomerase

Essentiality

TGME49_214850 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
b0173 Escherichia coli essential goodall
PBANKA_1330600 Plasmodium berghei Essential plasmo
TGME49_214850 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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

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

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
Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase Compounds References
Plasmodium falciparum 1-deoxy-D-xylulose 5-phosphate reductoisomerase Compounds References
Synechocystis sp. (strain PCC 6803 / Kazusa) 1-deoxyxylulose-5-phosphate reductoisomerase Compounds References
Escherichia coli 1-deoxy-D-xylulose 5-phosphate reductoisomerase Compounds References
Mycobacterium tuberculosis Probable 1-deoxy-D-xylulose 5-phosphate reductoisomerase Dxr (DXP reductoisomerase) (1-deoxyxylulose-5-phosphate reductoisomeras Compounds References
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) 1-deoxy-D-xylulose 5-phosphate reductoisomerase 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
0.052 0.5843 1
0.2521 1 0.5
0.5225 1 0.5
0.0899 0.3021 0.4972
0.4514 1 1
0.6842 1 0.5
0.052 0.6082 1
0.052 1 1
0.052 0.312 1
2.5678 1 1
0.0899 0.3021 0.4972
2.5678 1 1
0.7481 1 1
0.0452 0.3063 1
0.086 0.5 0.5
0.0885 0.5698 0.5
0.3515 0.5 0.5
0.052 0.6077 1
0.1676 0.5 0.5
0.102 0.5 0.5
0.052 0.2966 1
0.052 0.3004 1
0.0449 0.6488 1
0.1467 1 1
0.1746 0.7634 1
0.2215 1 1
0.4517 1 0.5
0.0857 0.2887 1
0.5352 1 0.5
0.0488 0.2967 1
0.0886 1 0.5
0.0846 0.616 1
1.0606 0.6346 1
0.4385 1 1
0.3019 1 1
0.6418 0.5 0.5
0.1279 1 1
0.101974 0.5 0.5
0.052 0.6453 1
0.2496 1 1
0.0449 0.6488 1
0.2563 1 0.5
0.3579 1 1
0.225729 0.5 0.5
2.3657 1 1
0.2803 1 1
0.05 1 0.5
1.5763 0.8325 1
0.052 0.2747 1
0.0431 0.3109 1
0.143 1 0.5
0.0421 1 0.5
0.2199 1 0.5
0.6464 1 1
1.5123 1 1
0.102 0.5 0.5
0.0519737 1 1
0.052 0.3076 1
0.135 1 1
0.0433 0.4316 1
1.5763 0.8325 1
0.4514 1 1
0.5352 0.8174 1
0.2988 1 1
2.1901 1 1
0.0873 1 0.5
0.052 0.6401 1
0.052 1 0.5
0.2423 1 1
0.1279 1 1
0.052 0.6453 1
0.052 0.3794 1
0.0448 0.4496 1
1.7089 1 1
2.3657 1 1
0.312 0.3795 1
0.052 0.2578 1
0.052 0.5513 1
0.5258 1 1
0.3723 1 1
0.101974 0.5 0.5
0.5352 0.8174 1
0.1008 1 1
0.0519737 1 1
0.2743 1 1
0.1177 0.2895 1
0.101974 1 1
0.0923 0.5 0.5
0.0983 1 0.5
0.052 0.4726 1
0.052 0.312 1
1.1192 1 1
0.052 0.6077 1
0.1762 0.5 0.5
0.1739 1 1
0.0427 0.6236 1
0.0444 1 1
0.0469 0.3191 1
0.0446 0.4753 1
0.4514 1 1
0.2641 0.2763 1
0.1287 0.9357 1
0.052 0.3076 1
0.8376 0.8305 1
0.179 0.8522 1
2.0201 1 1
0.4058 1 1
0.052 0.3955 1
0.044 0.5339 1
0.0267 1 1
0.0837 1 0.5
0.05 0.3076 1
0.052 1 1
0.052 0.5843 1
0.052 1 1
0.089 0.9067 1
0.052 0.3076 1
0.0375 1 0.5
0.05 0.3803 0.5495
0.1807 0.5 0.5
0.0416 0.4235 1
2.5678 1 1
0.3092 1 0.5
0.0938918 1 0.5
0.0971 1 1
0.6464 1 1
0.05 1 1
0.1385 1 1
0.3165 1 0.5
0.1118 1 1
0.1818 1 0.5
0.0907 1 1
0.3099 1 0.5
0.3579 1 1
0.1682 1 0.5
0.1242 0.8096 1
1.4565 1 1
0.0452 0.652 1
0.1242 0.8096 1
0.5352 0.8174 1
0.0836 0.3741 1
0.4514 1 1
0.0896 1 0.5
0.0416 0.4235 1
0.044 0.2958 1
0.0519737 0.5 0.5
2.5678 1 1
0.05 1 0.5
0.0519737 1 1
1.8917 1 1
0.1394 1 1
0.3125 0.5 0.5
0.052 1 1
0.2641 0.2763 1
0.089 0.9067 1
0.4035 1 1
1.5763 0.8325 1
0.0437 0.5571 1
1.0505 1 1
0.1351 0.4753 0
0.0953 0.5 0.5
0.0445 0.2608 1
0.1907 1 1
0.0971 1 1
1.5123 1 1
0.0449 0.2706 1
0.1541 1 1
0.2679 1 1
0.0331 0.3487 0.3449
0.0418 0.518 1
0.5268 0.5 0.5
0.101974 1 0.5
0.8128 0.8305 1
0.134 1 1
0.05 1 1
0.2743 1 1
0.2743 1 1
0.172 0.5 0.5
0.7882 1 1
0.052 0.4747 1
0.102 0.5 0.5
0.086 1 1
0.052 1 1
0.0249 0.972 0.5
0.0971 1 1
0.0519737 0.5 0.5
0.1373 1 0.5
0.0698 0.5801 1
0.1265 1 0.5
0.1467 0.3483 1
0.3165 1 0.5
0.0443 0.5404 1
0.052 0.5037 1
0.2496 1 1
0.4093 1 1
0.052 1 1
0.0906 1 0.5
0.1292 0.5 0.5
0.052 0.6082 1
0.2795 0.5 0.5
0.052 0.6401 1
0.1738 1 0.5
0.042 0.2719 1
0.052 0.5037 1
0.0487 0.3203 1
0.05 1 1
0.225 1 1
0.4566 0.5874 0.5874
0.0168 0.4528 0.943
0.0606 0.3545 1
0.0971 1 1
0.052 0.4287 1
0.045 0.3051 1
0.3099 1 0.5
0.0426543 0.5 0.5
0.101974 0.5 0.5
0.0519821 1 0.5
0.3723 1 1
0.0519737 1 0.5
0.052 0.4287 1
0.0425 0.573 1
0.0496 1 1
0.4514 1 1
0.052 0.3004 1
0.2276 1 1
0.0519737 1 0.5
0.052 0.3794 1
0.4514 1 1
0.101974 0.5 0.5
0.052 1 1
0.1539 1 1
0.3534 0.5 0.5
0.0476 1 1
0.4517 1 0.5
0.1394 1 1
0.089 0.9069 1
0.2286 1 0.5
0.1778 0.5 0.5
0.5352 0.8174 1
0.052 0.3815 0.5
0.052 1 1
0.1351 0.5 0.5
0.052 0.6122 1
0.052 0.6082 1
0.1394 1 1
0.102 0.5 0.5
0.1265 1 0.5
1.0988 0.517 0.9832
0.1796 0.5 0.5
0.3866 1 0.5
0.0364 1 1
1.0606 0.6346 1
0.2304 1 1
0.052 1 1
0.052 0.2966 1
0.7907 1 1
0.0366 0.3554 1
0.0519737 1 0.5
0.0833 0.5 0.5
0.0983 1 0.5
0.1299 1 1
0.052 1 1
0.104 0.3216 1
0.1739 1 1
0.0845 0.5 0.5
0.1719 1 1
0.224 1 0.5
0.0888 1 0.5
0.1118 1 1
0.1768 0.6008 1
0.05 0.2984 1
0.05 0.3578 1
1.9715 0.9097 1
0.0923 0.5 0.5
0.6563 0.5 0.5
0.4514 1 1
0.395036 1 1
0.3528 0.5 0.5
0.052 0.2747 1
0.2804 0.3922 1
0.266 1 1
0.5095 0.5 0.5
0.0519737 1 1
0.7907 1 1
0.4379 1 1
0.2655 0.5 0.5
0.083 0.5 0.5
0.3788 1 1
0.0449 0.6488 1
0.1011 0.7261 1
0.102 1 1
0.1424 0.9627 1
0.102 1 1
0.2743 1 1
0.0428 1 1
0.5352 1 0.5
0.0519737 0.5 0.5
0.2641 0.2763 1
0.101974 0.5 0.5
0.4514 1 1
0.0662 1 1
0.052 0.6122 1
0.101974 1 1
0.052 0.3955 1
2.1901 1 1
0.1782 1 0.5
0.5352 0.8174 1
0.089 0.9067 1
0.0431 0.6187 1
0.2159 0.5 0.5
2.3657 1 1
0.0821 0.5 0.5
0.5352 0.8174 1
0.052 0.5513 1
0.0416 1 1
0.1462 1 1
0.1467 0.788 1
0.1007 0.5 0.5
0.052 0.2578 1
0.1861 0.6465 1
0.05 1 1
0.0456 0.6515 1
0.0902 1 0.5
0.0446 0.6447 1
0.0971 1 1
0.052 1 1
0.0971 1 1
0.05 1 0.5
0.101974 0.5 0.5
0.052 1 1
0.1746 0.7634 1

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.

User comments

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Gene identifier TGME49_214850 (Toxoplasma gondii), 1-deoxy-D-xylulose 5-phosphate reductoisomerase, putative
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