Detailed view for ML2235c

Basic information

TDR Targets ID: 255731
Mycobacterium leprae, PROBABLE PHOSPHORIBOSYLAMINE--GLYCINE LIGASE PURD (GARS) (GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE) (PHOSPHORIBOSYLGLYCINAMIDE SYNT
Source Database / ID:  Leproma 

pI: 5.466 | Length (AA): 422 | MW (Da): 43952 | Paralog Number: 1

Signal peptide: N | GPI Anchor: | 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

PF01071   Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain
PF02843   Phosphoribosylglycinamide synthetase, C domain
PF02844   Phosphoribosylglycinamide synthetase, N domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0046872   metal ion binding  
GO:0005524   ATP binding  
GO:0004637   phosphoribosylamine-glycine ligase activity  
GO:0009113   purine base biosynthetic 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
1 112 3ip3 (A) 2 116 13.00 0 0.8 0.478703 -0.73
1 419 3mjf (A) 1 428 42.00 0 1 1.50349 -0.52
1 417 2xcl (A) 1 418 43.00 0 1 1.50675 -0.5
1 416 2ip4 (A) 1 412 44.00 0 1 1.49978 -0.19
1 412 3lp8 (A) 1 417 38.00 0 1 1.4679 -0.63

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_126894)

Species Accession Gene Product
Arabidopsis thaliana AT1G09830   phosphoribosylamine--glycine ligase
Arabidopsis thaliana AT3G55010   phosphoribosylformylglycinamidine cyclo-ligase
Candida albicans CaO19.12528   ADE5,7 bifunctional ligase
Candida albicans CaO19.5062   N terminus of ADE5,7 bifunctional ligase
Candida albicans CaO19.5061   purine biosynthesis
Caenorhabditis elegans CELE_F38B6.4   Protein F38B6.4
Dictyostelium discoideum DDB_G0290121   phosphoribosylamine-glycine ligase
Drosophila melanogaster Dmel_CG31628   adenosine 3
Escherichia coli b2499   phosphoribosylaminoimidazole synthetase
Escherichia coli b4005   phosphoribosylglycinamide synthetase phosphoribosylamine-glycine ligase
Homo sapiens ENSG00000159131   phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase
Mycobacterium leprae ML2205c   PROBABLE PHOSPHORIBOSYLFORMYLGLYCINAMIDINE CYCLO-LIGASE PURM (AIRS) (PHOSPHORIBOSYL-AMINOIMIDAZOLE SYNTHETASE) (AIR SYNTHASE)
Mycobacterium leprae ML2235c   PROBABLE PHOSPHORIBOSYLAMINE--GLYCINE LIGASE PURD (GARS) (GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE) (PHOSPHORIBOSYLGLYCINAMIDE SYNT
Mus musculus ENSMUSG00000022962   phosphoribosylglycinamide formyltransferase
Mycobacterium tuberculosis Rv0809   Probable phosphoribosylformylglycinamidine CYCLO-ligase PurM (AIRS) (phosphoribosyl-aminoimidazole synthetase) (air synthase)
Mycobacterium tuberculosis Rv0772   Probable phosphoribosylamine--glycine ligase PurD (GARS) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synt
Mycobacterium ulcerans MUL_0481   phosphoribosylamine--glycine ligase
Mycobacterium ulcerans MUL_0418   phosphoribosylaminoimidazole synthetase
Oryza sativa 4344854   Os08g0191200
Oryza sativa 4334671   Os03g0831500
Oryza sativa 4351721   Os12g0197100
Onchocerca volvulus OVOC1142  
Onchocerca volvulus OVOC12839  
Saccharomyces cerevisiae YGL234W   bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase
Schmidtea mediterranea mk4.006776.02   Adenosine 3
Schmidtea mediterranea mk4.017493.02   Adenosine 3
Schmidtea mediterranea mk4.017150.01  
Schmidtea mediterranea mk4.007425.00   Trifunctional purine biosynthetic protein adenosine-3
Wolbachia endosymbiont of Brugia malayi Wbm0226   phosphoribosylaminoimidazole synthetase
Wolbachia endosymbiont of Brugia malayi Wbm0465   phosphoribosylamine--glycine ligase

Essentiality

ML2235c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu825 Mycobacterium tuberculosis non-essential nmpdr
b2499 Escherichia coli non-essential goodall
b4005 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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.
  • 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)

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
Species Known druggable target Linked compounds Reference
Mus musculus phosphoribosylglycinamide formyltransferase Compounds References
Homo sapiens phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase 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
0.018 0.2743 1
0.0325 0.2988 0.4964
0.0328 0.3245 1
0.1177 0.8069 0.7922
0.1065 0.8631 0.8631
0.018 0.3117 1
0.018 0.9947 1
0.1146 0.8274 0.8139
0.018 0.3492 1
0.0301 0.7138 1
0.018 0.5978 0.8343
0.111 0.4209 1
0.0456 0.9302 1
0.0359 0.4705 1
0.1065 0.8631 0.8631
0.0593 0.3379 1
0.0317 0.6881 1
0.1007 0.7014 0.6819
0.018 0.4535 1
0.1462 0.4934 1
0.0892 0.3232 0.743
0.0359 0.4705 1
0.018 0.6834 1
0.018 0.2743 1
0.0172 0.4116 1
0.026 0.4386 1
0.0359 0.4166 1
0.0351 0.3447 1
0.0679 0.3385 0.6578
0.0302 0.5047 0.5006
0.0899 0.61 0.5987
0.0317 0.6881 1
0.0359 0.5246 1
0.0172 0.4116 1
0.1589 0.5536 0.6497
0.0916 0.6906 1
0.0703 0.6778 0.6575
0.095 0.3266 1
0.018 0.4535 1
0.0317 0.6881 1
0.018 0.3484 1
0.0317 0.6881 1
0.0663 0.779 1
0.0317 0.6881 1
0.0892 0.3232 0.743
0.0593 0.3379 1
0.1589 0.5536 0.6497
0.0359 0.8058 1
0.0359 0.3738 1
0.1249 0.7052 0.6858
0.3596 0.4653 0.4653
0.0878 0.4088 0.4953
0.0359 0.4166 1
0.018 0.3144 1
0.0763 0.5455 1
0.0593 0.3379 1
0.1194 0.4299 0.57
0.018 0.8419 0.8343
0.0593 0.3379 1
0.1158 0.8285 0.8151
0.15162 1 1
0.0359 0.3738 1
0.1804 0.4592 0.4478
0.3596 0.4653 0.4653
0.0754 0.4034 1
0.0343 0.2959 0.2772
0.0351 0.3447 1
0.0359 0.7083 1
0.018 0.4351 1
0.1033 0.4227 1
0.0168 0.3843 0.3712
0.0359 0.3637 1
0.0963 0.4111 1
0.0317 0.6881 1
0.0831 0.8113 0.8085
0.0359 0.4166 1
0.018 0.541 1
0.1804 0.4592 0.4478
0.018 0.3144 1
0.1575 0.2745 0.4919
0.0322 0.3833 1
0.0291 0.272 0.3115
0.018 0.4006 0.3872
0.0626 0.9189 1
0.111 0.4209 1
0.0293 0.3205 1
0.3743 0.4713 0.4713
0.018 0.3144 1
0.018 0.3341 1
0.1109 0.3742 1
0.018 0.7901 1
0.033 0.6558 0.9801
0.0438 0.53 1
0.0892 0.3232 0.743
0.018 0.3947 0.3731
0.1184 0.9616 0.957
0.0754 0.4034 1
0.0593 0.3379 1
0.0593 0.3379 1
0.1883 0.2733 0.3112
0.0963 0.4111 1
0.0144 0.5664 0.5526
0.0892 0.3232 0.743
0.111 0.4209 1
0.0595 0.4244 1
0.0317 0.6881 1
0.018 0.3144 1
0.1184 0.9616 0.957
0.0302 0.5047 0.5006
0.1206 0.2592 0.3373
0.0175 0.3362 1
0.0305 0.4309 1
0.123 0.2514 1
0.111 0.4209 1
0.0593 0.3379 1
0.1832 0.4004 0.5208
0.0735 0.3277 0.4171
0.00959154 0.843091 1
0.0152 0.2546 0.2441
0.0145 0.2671 0.2563
0.0319 0.6296 1
0.0735 0.3277 0.4171
0.1233 0.3343 0.671
0.0359 0.5246 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.

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Gene identifier ML2235c (Mycobacterium leprae), PROBABLE PHOSPHORIBOSYLAMINE--GLYCINE LIGASE PURD (GARS) (GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE) (PHOSPHORIBOSYLGLYCINAMIDE SYNT
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