Detailed view for Tb927.9.9820

Basic information

TDR Targets ID: 19867
Trypanosoma brucei, glyceraldehyde-3-phosphate dehydrogenase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.7294 | Length (AA): 355 | MW (Da): 38802 | 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

PF00044   Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain
PF02800   Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016620   oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor  
GO:0005575   cellular_component  
GO:0004365   glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) activity  
GO:0051287   NAD binding  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0055114   oxidation reduction  
GO:0008152   metabolic process  
GO:0006096   glycolysis  
GO:0006006   glucose metabolic process  

Structural information

Modbase 3D models:

There are 5 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
13 353 2duu (A) 1 337 24.00 0 1 1.24116 -0.54
14 351 3h9e (O) 75 409 29.00 0 1 1.42071 -1.12
15 345 5c7i (O) 108 435 31.00 0 1 1.36749 -0.85
15 351 3gnq (A) 2 335 25.00 0 1 1.3029 -0.62
16 350 1dss (G) 2 333 28.00 0 1 1.41766 -1.16

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_151842)

Species Accession Gene Product
Leishmania braziliensis LbrM.34.4710   glyceraldehyde-3-phosphate dehydrogenase-like protein
Leishmania donovani LdBPK_354810.1   glyceraldehyde-3-phosphate dehydrogenase-like protein
Leishmania infantum LinJ.35.4810   glyceraldehyde-3-phosphate dehydrogenase-like protein
Leishmania major LmjF.35.4750   glyceraldehyde-3-phosphate dehydrogenase-like protein
Leishmania mexicana LmxM.34.4750   glyceraldehyde-3-phosphate dehydrogenase-like protein
Trypanosoma brucei gambiense Tbg972.9.5650   glyceraldehyde-3-phosphate dehydrogenase, putative
Trypanosoma brucei Tb927.9.9820   glyceraldehyde-3-phosphate dehydrogenase, putative
Trypanosoma cruzi TcCLB.506885.413   glyceraldehyde-3-phosphate dehydrogenase, putative
Trypanosoma cruzi TcCLB.503687.20   glyceraldehyde-3-phosphate dehydrogenase, putative

Essentiality

Tb927.9.9820 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.1370 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.211.1370 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.1370 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb09.211.1370 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • 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
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss 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): 0.3

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
Trypanosoma cruzi glyceraldehyde-3-phosphate dehydrogenase, putative Compounds References
Trypanosoma cruzi glyceraldehyde-3-phosphate dehydrogenase, putative Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Plasmodium falciparum glyceraldehyde-3-phosphate dehydrogenase 337 aa 27.1% 328 aa Compounds References
Oryctolagus cuniculus Glyceraldehyde-3-phosphate dehydrogenase 333 aa 27.4% 332 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0202 0.4724 0
0.2487 1 1
0.0262 0.3259 0.6447
0.0173 0.3337 0.3337
0.11101 0.304664 0.304664
0.0331315 0.576399 0.567069
0.2224 1 1
0.2263 0.2828 1
0.0185 0.4996 0
0.015 0.4084 0
0.0271 0.3219 0.5461
0.2546 0.2529 1
0.2789 1 1
0.0265 0.3286 0.6448
0.0281 0.3234 0.3457
0.2318 1 1
0.0279 0.3055 0.3032
0.0142 0.3197 0.6217
0.0279 0.2726 0.2706
0.0138 0.2905 0
0.0261 0.3286 0.6448
0.2546 0.2529 1
0.0683 0.4132 1
0.0138 0.4067 0
0.2546 0.2529 1
0.11101 0.304664 0.304664
0.0236 0.2848 0.6435
0.0555 0.8252 1
0.0161 0.2988 0.2988
0.2626 1 1
0.0279 0.314 0.4499
0.265 1 1
0.0287 0.2753 0.2753
0.1037 1 1
0.2928 1 1
0.0089 0.4724 0
0.1847 0.4926 0.921
0.2546 0.2529 1
0.1762 0.9188 0
0.0191 0.6036 0.5008
0.2263 0.2828 1
0.0285 0.3027 0.3006
0.0548 0.9014 1
0.222 1 1
0.0298 0.6101 0.561
0.2435 1 1
0.0183 0.6352 0.6352
0.2263 0.2828 1
0.0206 0.4724 0
0.026088 0.301105 0
0.2487 1 1
0.0287 0.2642 0.2622
0.2331 1 1
0.2546 0.2529 1
0.0107 0.4996 0
0.0191 0.6036 0.5008
0.254 1 1
0.0285 0.2528 0.2505
0.0264 0.3288 0.6448
0.00915871 0.394281 0
0.2546 0.2529 1
0.2318 1 1
0.0263 0.2885 0.2865
0.2546 0.2529 1
0.0331315 0.576399 0.567069
0.0119 0.3191 0.6344
0.0285 0.302 0.2999
0.2435 1 1
0.1847 0.4926 0.921
0.2104 1 1
0.0073 0.3606 0.6099
0.1607 0.8746 1
0.0093 0.4724 0
0.00823969 0.256203 0.226268
0.2439 1 1
0.0281 0.2737 0.2718
0.0832 1 1
0.0191 0.6107 0.632
0.11101 0.304664 0.304664
0.1607 0.8746 1
0.0187 0.4724 0
0.2463 0.5308 1
0.11101 0.304664 0.304664
0.0133 0.4728 0.3955
0.2546 0.2529 1
0.0261 0.3132 0.6448
0.008 0.4728 0
0.0154 0.4902 0
0.1959 1 1
0.00829298 0.394281 0
0.2287 1 1
0.15 1 1
0.0206 0.4724 0
0.0844 0.9039 0.8983
0.2529 1 1
0.2104 1 1
0.0279 0.2925 0.2993
0.0142 0.4724 0
0.1034 0.4996 0
0.11101 0.304664 0.304664
0.0135 0.4728 0
0.2318 1 1
0.0185 0.4996 0
0.0191 0.4728 0
0.0091 0.4424 0
0.2961 1 1
0.0281 0.2745 0.2737
0.0279 0.2744 0.2724
0.0281 0.3 0.2997
0.0093 0.4509 0
0.2546 0.2529 1
0.0146 0.4724 0
0.0138 0.4728 0
0.0287 0.2624 0.2613
0.0288 0.2632 0.2629
0.0281 0.307 0.3041
0.0322445 0.5689 0.5689
0.0291 0.6011 0
0.2142 1 1
0.0187 0.6334 0
0.2263 0.2828 1
0.0278 0.3254 0.3351
0.0143 0.4666 0
0.0279 0.3252 0.3456
0.2251 1 1
0.1847 0.4926 0.921
0.2546 0.2529 1
0.0281 0.2744 0.2724
0.0265 0.324 0.4173
0.009 0.4724 0
0.0192 0.4724 0
0.0283 0.2519 0.2479
0.3015 1 1
0.11101 0.304664 0.304664
0.11101 0.304664 0.304664
0.0278 0.273 0.2711
0.0099 0.3118 0.4488
0.0278 0.3238 0.3909
0.0243 0.2844 0.6435
0.205 1 1
0.2546 0.2529 1
0.1607 0.8746 1
0.0191 0.6036 0.5008
0.2124 0.4999 1
0.224 1 1
0.2449 1 1
0.0676 1 1
0.1807 0.9159 0
0.0091 0.5602 0.5004
0.1986 0.9063 0
0.2263 0.2828 1
0.2602 1 1
0.0105 0.3331 0
0.1838 0.8178 0.8177
0.1982 1 1
0.2235 1 1
0.0276 0.2688 0.2669
0.0266 0.4724 0
0.0107 0.4724 0
0.122147 0.47714 0.61508
0.0844 0.9039 0.8983
0.0186 0.4335 0
0.014 0.4724 0
0.1668 0.4991 0.8183
0.0883 1 1
0.0143 0.2774 0
0.0188 0.4728 0
0.009 0.4724 0
0.0268 0.3206 0.6411
0.0304 0.4724 0
0.0172 0.3272 0.6131
0.0283 0.2542 0.2536
0.0173 0.5609 0
0.0096 0.274 0.6223
0.0822 1 1
0.0288 0.2629 0.2609
0.0278 0.2739 0.2717
0.0285 0.2528 0.2505
0.2546 0.2529 1
0.2626 1 1
0.0278 0.2736 0.2717
0.0094 0.5977 0.5894
0.0207 0.5991 0
0.0066 0.3929 0.6173
0.1904 1 1
0.0844 0.9039 0.8983
0.0191 0.6036 0.5008
0.0844 0.9039 0.8983
0.0233 0.2854 0.6435
0.11101 0.304664 0.304664
0.0261 0.4006 0.6017
0.0154 0.4724 0
0.0285 0.2707 0.2687
0.0217677 0.394281 0
0.11101 0.304664 0.304664
0.2247 1 1
0.0239957 0.468043 0
0.0295 0.2589 0.2589
0.01 0.4246 0
0.0283 0.3255 0.3463
0.252 1 1
0.0155 0.4724 0
0.205 1 1
0.0101 0.4724 0
0.0939 0.9588 1
0.0123 0.2683 0.1846
0.026 0.3287 0.6008
0.2124 0.4999 1
0.0286 0.2533 0.2514
0.0073 0.3606 0.6099
0.0175 0.4487 0.5617
0.0189 0.6316 0
0.2207 1 1
0.11101 0.304664 0.304664
0.2263 0.2828 1
0.2229 1 1
0.0066 0.3929 0.6173
0.2546 0.2529 1
0.212 1 1
0.0132 0.5895 0
0.2546 0.2529 1
0.122147 0.47714 0.61508
0.0262 0.3251 0.6448
0.0161 0.2988 0.2988
0.2546 0.2529 1
0.0161 0.2988 0.2988
0.2546 0.2529 1
0.3015 1 1
0.0281 0.2705 0.2685
0.0273 0.272 0.365
0.2546 0.2529 1
0.0122 0.5609 0
0.0278 0.3267 0.4426
0.2104 1 1
0.2492 1 1
0.2546 0.2529 1
0.2487 1 1
0.0129 0.4724 0
0.2226 1 1
0.0144 0.4724 0.0053
0.0278 0.2736 0.2717
0.0091 0.251 0.6229
0.0092 0.251 0.6229
0.1323 0.807 1
0.0278 0.2763 0.2743
0.11101 0.304664 0.304664
0.2457 1 1
0.2263 0.2828 1
0.0064 0.2723 0.4217
0.11101 0.304664 0.304664
0.0106 0.5757 0.5987
0.2124 0.4999 1
0.0322445 0.5689 0.5689
0.1982 1 1
0.0174838 0.435373 0
0.2487 1 1
0.0086 0.251 0.6229
0.0267 0.3286 0.6448
0.11101 0.304664 0.304664
0.2263 0.2828 1
0.038 0.3735 1
0.0815 0.3194 1
0.0105 0.3331 0
0.2524 0.8602 0.8602
0.2341 1 1
0.2487 1 1
0.0101 0.4724 0

Assayability

Assay information

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Trypanosoma brucei ( 6 )

Reagent availability

  • Tbru018901AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tbru018901; Recombinant protein: full-length; Source: T brucei; glyceraldehyde-3-phosphate dehydrogenase, putative ;
  • Reagent:
  • Target Type Source Notes
    Tb927.9.9820 cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Trypanosoma brucei ( 1 )

Bibliographic References

63 literature references were collected for this gene.

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Gene identifier Tb927.9.9820 (Trypanosoma brucei), glyceraldehyde-3-phosphate dehydrogenase, putative
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