Detailed view for Rv3025c

Basic information

TDR Targets ID: 6268
Mycobacterium tuberculosis, Cysteine desulfurase IscS (NIFS protein homolog) (nitrogenase metalloclusters biosynthesis protein NIFS)
Source Database / ID:  Tuberculist 

pI: 5.367 | Length (AA): 393 | MW (Da): 40947 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF00266   Aminotransferase class-V

Gene Ontology

Mouse over links to read term descriptions.
GO:0003824   catalytic activity  
GO:0030170   pyridoxal phosphate binding  
GO:0008152   metabolic process  

Metabolic Pathways

Thiamine metabolism (KEGG)
Global map (KEGG)
Sulfur relay system (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
2 387 4isy (A) 2 387 99.99 0 1 2.14379 -0.91

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
  • 4ISY:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. murphy
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_126959)

Species Accession Gene Product
Arabidopsis thaliana AT5G65720   cysteine desulfurase
Babesia bovis BBOV_I002660   cysteine desulfurase, putative
Brugia malayi Bm1_49825   Cysteine desulfurase, mitochondrial precursor
Candida albicans CaO19_7081   hypothetical protein
Candida albicans CaO19.7081   similar to S. cerevisiae NFS1 (YCL017C) mitochondrial cysteine desulfhydrase involved in biogenesis of Fe/S proteins
Caenorhabditis elegans CELE_B0205.6   Protein B0205.6
Cryptosporidium hominis Chro.40346   NifS-like protein
Cryptosporidium parvum cgd4_3040   NifS-like protein; cysteine desulfurase
Chlamydia trachomatis CT_258   NifS family protein
Dictyostelium discoideum DDB_G0279287   cysteine desulfurase, mitochondrial precursor
Drosophila melanogaster Dmel_CG12264   CG12264 gene product from transcript CG12264-RA
Escherichia coli b2530   cysteine desulfurase (tRNA sulfurtransferase), PLP-dependent
Echinococcus granulosus EgrG_000510400   cysteine desulfurase mitochondrial
Entamoeba histolytica EHI_136380   cysteine desulfurase, putative
Echinococcus multilocularis EmuJ_000510400   cysteine desulfurase, mitochondrial
Giardia lamblia GL50803_14519   Cysteine desulfurase
Homo sapiens ENSG00000244005   NFS1 cysteine desulfurase
Leishmania braziliensis LbrM.27.1150   cysteine desulfurase, putative
Leishmania donovani LdBPK_270930.1   cysteine desulfurase, putative
Leishmania infantum LinJ.27.0930   cysteine desulfurase, putative
Leishmania major LmjF.27.1060   cysteine desulfurase, putative
Leishmania mexicana LmxM.27.1060   cysteine desulfurase, putative
Loa Loa (eye worm) LOAG_03080   NFS1 protein
Mycobacterium leprae ML1708c   PROBABLE CYSTEINE DESULFURASE ISCS (NIFS PROTEIN HOMOLOG) (NITROGENASE METALLOCLUSTERS BIOSYNTHESIS PROTEIN NIFS)
Mus musculus ENSMUSG00000027618   nitrogen fixation gene 1 (S. cerevisiae)
Mycobacterium tuberculosis Rv3025c   Cysteine desulfurase IscS (NIFS protein homolog) (nitrogenase metalloclusters biosynthesis protein NIFS)
Mycobacterium ulcerans MUL_1927   cysteine desulfurase IscS
Neospora caninum NCLIV_011790   Cysteine desulfurase (EC 2.8.1.7), related
Oryza sativa 4346775   Os09g0338400
Onchocerca volvulus OVOC669  
Plasmodium berghei PBANKA_0211300   cysteine desulfurase, putative
Plasmodium falciparum PF3D7_0727200   cysteine desulfurase, putative
Plasmodium knowlesi PKNH_0211800   cysteine desulfurase, putative
Plasmodium yoelii PY02096   cysteine desulfurase
Saccharomyces cerevisiae YCL017C   Nfs1p
Schistosoma japonicum Sjp_0064140   ko:K04487 cysteine desulfurase [EC2.8.1.7], putative
Schistosoma mansoni Smp_075470   cysteine desulfurylase
Schmidtea mediterranea mk4.035919.03  
Schmidtea mediterranea mk4.002860.02   Cysteine desulfurase, mitochondrial
Schmidtea mediterranea mk4.035919.04  
Trypanosoma brucei gambiense Tbg972.11.1780   cysteine desulfurase, putative
Trypanosoma brucei Tb927.11.1670   cysteine desulfurase
Trypanosoma congolense TcIL3000.11.1450   cysteine desulfurase, putative
Trypanosoma cruzi TcCLB.506629.70   cysteine desulfurase, putative
Trypanosoma cruzi TcCLB.509831.10   cysteine desulfurase, putative
Toxoplasma gondii TGME49_211090   aminotransferase, class V superfamily protein
Treponema pallidum TP0863   nitrogen fixation protein (nifS-2)
Theileria parva TP01_0024   cysteine desulfurase, putative
Trichomonas vaginalis TVAG_239660   cysteine desulfurylase, putative
Trichomonas vaginalis TVAG_365590   cysteine desulfurylase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0028   cysteine desulfurase

Essentiality

Rv3025c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3078 this record Mycobacterium tuberculosis essential nmpdr
Tb11.55.0013 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.55.0013 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.55.0013 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.55.0013 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b2530 Escherichia coli essential goodall
CELE_B0205.6 Caenorhabditis elegans embryonic arrest wormbase
CELE_B0205.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_B0205.6 Caenorhabditis elegans larval arrest wormbase
CELE_B0205.6 Caenorhabditis elegans sterile wormbase
YCL017C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0211300 Plasmodium berghei Essential plasmo
TGME49_211090 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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
  • 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.

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 Rv3025c (Mycobacterium tuberculosis), Cysteine desulfurase IscS (NIFS protein homolog) (nitrogenase metalloclusters biosynthesis protein NIFS)
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