Detailed view for Rv1349

Basic information

TDR Targets ID: 7888
Mycobacterium tuberculosis, Iron-regulated transporter IrtB
Source Database / ID:  Tuberculist 

pI: 6.1869 | Length (AA): 579 | MW (Da): 60954 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 5

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

PF00005   ABC transporter

Gene Ontology

Mouse over links to read term descriptions.
GO:0042626   ATPase activity, coupled to transmembrane movement of substances  
GO:0016021   integral to membrane  
GO:0016887   ATPase activity  
GO:0005524   ATP binding  
GO:0000166   nucleotide binding  
GO:0017111   nucleoside-triphosphatase activity  
GO:0006810   transport  
GO:0055085   transmembrane transport  

Metabolic Pathways

ABC transporters (KEGG)

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
1 573 4mrs (A) 20 602 28.00 0 1 1.25794 0.62
3 573 5och (B) 135 716 26.00 0 1 1.27148 0.55
17 571 3wmg (A) 122 690 25.00 0 1 1.19785 0.71
321 567 2ixe (A) 469 719 36.00 0 1 0.964898 -0.98
332 559 1z47 (A) 15 238 41.00 0 1 0.864182 -0.37

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 Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. hasan
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_126733)

Species Accession Gene Product
Arabidopsis thaliana AT4G28620   ABC transporter B family member 24
Arabidopsis thaliana AT4G28630   ABC transporter B family member 23
Arabidopsis thaliana AT5G58270   ABC transporter of the mitochondrion 3
Babesia bovis BBOV_III011170   ABC transporter family protein
Babesia bovis BBOV_III004900   ABC transporter family protein
Brugia malayi Bm1_30435   ABC transporter
Candida albicans CaO19.1077   potential ABC transporter similar to S. cerevisiae inner mitochondrial membrane ATM1 (YMR301C) ABC transporter involved in iron
Caenorhabditis elegans CELE_Y74C10AR.3   Protein ABTM-1
Caenorhabditis elegans CELE_W09D6.6   Protein HMT-1
Cryptosporidium hominis Chro.10157   ABC transporter (1D44)
Cryptosporidium parvum cgd1_1350   ATM1-like ABC transporter with 6 transmembrane domains
Dictyostelium discoideum DDB_G0282931   ABC transporter B family protein
Dictyostelium discoideum DDB_G0292554   ABC transporter B family protein
Drosophila melanogaster Dmel_CG7955   CG7955 gene product from transcript CG7955-RA
Drosophila melanogaster Dmel_CG4225   Heavy metal tolerance factor 1
Echinococcus granulosus EgrG_000713700   ATP binding cassette sub family B
Echinococcus granulosus EgrG_000928300   ATP binding cassette sub family B
Echinococcus multilocularis EmuJ_000928300   ATP binding cassette sub family B
Echinococcus multilocularis EmuJ_000713700   ATP binding cassette sub family B
Echinococcus multilocularis EmuJ_000713900   ATP binding cassette sub family B
Echinococcus multilocularis EmuJ_000713500   ATP binding cassette sub family B
Homo sapiens ENSG00000131269   ATP-binding cassette, sub-family B (MDR/TAP), member 7
Homo sapiens ENSG00000115657   ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Langereis blood group)
Leishmania braziliensis LbrM.32.3380   ABC transporter, putative
Leishmania donovani LdBPK_323280.1   ABC transporter of the mitochondrion, putative
Leishmania infantum LinJ.32.3280   ATP-binding cassette protein subfamily B, member 3, putative
Leishmania major LmjF.32.3080   ATP-binding cassette protein subfamily B, member 3, putative
Leishmania mexicana LmxM.31.3080   ABC transporter, putative
Loa Loa (eye worm) LOAG_12279   ABC transporter
Mus musculus ENSMUSG00000026198   ATP-binding cassette, sub-family B (MDR/TAP), member 6
Mus musculus ENSMUSG00000031333   ATP-binding cassette, sub-family B (MDR/TAP), member 7
Mycobacterium tuberculosis Rv1349   Iron-regulated transporter IrtB
Mycobacterium ulcerans MUL_3901   transmembrane ABC transporter ATP-binding protein
Neospora caninum NCLIV_037350   Abc transporter, related
Oryza sativa 4339984   Os06g0128300
Plasmodium berghei PBANKA_1311700   multidrug resistance protein 2, putative
Plasmodium falciparum PF3D7_1447900   multidrug resistance protein 2
Plasmodium knowlesi PKNH_1234200   multidrug resistance protein 2, putative
Plasmodium vivax PVX_118100   multidrug resistance protein 2, putative
Plasmodium yoelii PY06054   transport protein
Saccharomyces cerevisiae YMR301C   ATP-binding cassette Fe/S cluster precursor transporter ATM1
Schistosoma japonicum Sjp_0128060   Iron-sulfur clusters transporter ATM1, mitochondrial precursor, putative
Schistosoma japonicum Sjp_0007480   ko:K05661 ATP-binding cassette, subfamily B (MDR/TAP), member 6, putative
Schistosoma japonicum Sjp_0035360   ko:K05662 ATP-binding cassette, subfamily B (MDR/TAP), member 7, putative
Schistosoma mansoni Smp_087930   ATP-binding cassette sub-family B member 7 mitochondrial precursor (abc7)
Schmidtea mediterranea mk4.001138.03  
Schmidtea mediterranea mk4.001907.04   ATP-binding cassette sub-family B member 7, mitochondrial
Schmidtea mediterranea mk4.001138.05   Putative atp-binding cassette, sub-family B,member 6,mitochondrial
Schmidtea mediterranea mk4.001054.01  
Schmidtea mediterranea mk4.001138.04  
Schmidtea mediterranea mk4.000581.05  
Trypanosoma brucei gambiense Tbg972.11.19110   ABC transporter, putative
Trypanosoma brucei Tb927.11.16930   ABC transporter of the mitochondrion, putative
Trypanosoma congolense TcIL3000.11.16840   ABC transporter of the mitochondrion, putative
Trypanosoma cruzi TcCLB.511021.70   ABC transporter of the mitochondrion, putative
Toxoplasma gondii TGME49_269000   ABC transporter family protein
Theileria parva TP02_0737   ABC transporter, putative
Theileria parva TP02_0460   ABC transporter, putative
Trichomonas vaginalis TVAG_353200   lipid A export ATP-binding/permease protein msba, putative

Essentiality

Rv1349 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
this record Mycobacterium tuberculosis essential nmpdr
Tb11.01.8700 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.8700 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.8700 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb11.01.8700 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y74C10AR.3 Caenorhabditis elegans embryonic lethal wormbase
YMR301C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1311700 Plasmodium berghei Slow plasmo
TGME49_269000 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
growth (GO:0040007) decreased (PATO:0000468) inferred from in vitro culture assay (ECO:0000182) Mycobacterium tuberculosis No drug identifiers listed for this gene.
Annotator: crowther@u.washington.edu. Comment: 2007-12-11. References: 16385031

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): 0.5

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
Homo sapiens ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Langereis blood group) Compounds References
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

1 literature reference was collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Rv1349 (Mycobacterium tuberculosis), Iron-regulated transporter IrtB
Title for this comment
Comment