Detailed view for Rv1348

Basic information

TDR Targets ID: 7887
Mycobacterium tuberculosis, Iron-regulated transporter IrtA

Source Database / ID:  Tuberculist 

pI: 7.3785 | Length (AA): 859 | MW (Da): 92966 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 6

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

PF00005   ABC transporter
PF00664   ABC transporter transmembrane region
PF04954   Siderophore-interacting protein
PF08021   Siderophore-interacting FAD-binding domain

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:0017111   nucleoside-triphosphatase activity  
GO:0016887   ATPase activity  
GO:0016491   oxidoreductase activity  
GO:0009055   electron carrier activity  
GO:0005524   ATP binding  
GO:0000166   nucleotide binding  
GO:0006810   transport  
GO:0055114   oxidation reduction  
GO:0055085   transmembrane transport  

Metabolic Pathways

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
18 260 2gpj (A) 8 248 25.00 0 1 0.583987 -0.57
254 859 4f4c (A) 49 717 25.00 0 1 0.895571 0.67
268 846 4q4h (B) 14 592 27.00 0 1 1.00154 0.34
595 843 5idv (A) 24 274 48.00 0 1 0.989372 -1.28
603 846 2ghi (A) 11 256 39.00 0 1 0.888551 -1.33

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, Dormant phase. hasan murphy
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_141126)

Species Accession Gene Product
Mycobacterium tuberculosis Rv1348   Iron-regulated transporter IrtA
Mycobacterium ulcerans MUL_3902   transmembrane ABC transporter ATP-binding protein

Essentiality

Rv1348 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1371 this record Mycobacterium tuberculosis essential nmpdr
Show/Hide essentiality data references
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.

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 animal model system (ECO:0000179) 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
Non orthologous druggable targets
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
0.0096 0.2671 0
0.0129 0.2892 0.2327
0.0117 0.2749 0
0.0088 0.2555 0.2093
0.0053 0.2821 0.2474
0.0029 0.2983 0.279
0.0199 0.2537 0.2994
0.0105 0.2629 0.2132
0.0126 0.2956 0
0.0178 0.289 0.5652
0.0068 0.2504 0
0.0055 0.2884 0.2884
0.0254 0.2524 0.2783
0.003 0.2602 0
0.0103 0.2692 0
0.0053 0.2821 0.2474
0.0064 0.2606 0.2093
0.0032 0.2584 0
0.0271 0.2507 0.2507
0.0063 0.3239 0.3239
0.0126 0.3471 0
0.0029 0.2983 0.279
0.0102 0.2778 0
0.0107 0.2591 0.1284
0.009 0.2658 0
0.0199 0.2537 0.2994
0.0065 0.2573 0
0.0086 0.2819 0
0.0029 0.2983 0.279
0.0204 0.2853 0.2999
0.0105 0.2581 0.2347
0.0161 0.2787 0.2841
0.0029 0.2983 0.279
0.0113 0.2726 0
0.005 0.2958 0
0.0101 0.297 0.297
0.01 0.2539 0
0.0055 0.2531 0
0.0086 0.2639 0
0.0133 0.2951 0.2925
0.0123 0.2787 0
0.0101 0.297 0.297
0.0061 0.2824 0.404
0.0212 0.2836 0.2335
0.0117 0.2589 0.2805
0.0119 0.2763 0
0.0088 0.2555 0.2093
0.0146 0.2695 0.3464
0.0109 0.2892 0.2892
0.0177 0.2919 0.431
0.0077 0.2708 0
0.0206 0.2785 0.2732
0.0087 0.2619 0
0.0091 0.286 0.286
0.0086 0.2635 0
0.0157 0.2814 0.5099
0.0099 0.2891 0.278
0.0079 0.2588 0
0.0206 0.2586 0.2286
0.0074 0.2584 0.1804
0.0136 0.2913 0.2264
0.0038 0.2684 0
0.0226 0.2574 0.2421
0.0054 0.2631 0
0.0133 0.2801 0
0.0113 0.283 0
0.0038 0.2684 0
0.0124 0.2765 0
0.0117 0.2609 0
0.0074 0.2596 0.246
0.0101 0.2856 0.1142
0.0107 0.2982 0.2976
0.0082 0.2995 0
0.0122 0.2698 0.2328
0.01 0.2525 0
0.0137 0.2918 0.2179
0.0065 0.2748 0
0.0074 0.2621 0.2491
0.0074 0.2667 0.2495
0.0064 0.2602 0.2351
0.011 0.2652 0.2093
0.013 0.28 0
0.0038 0.2692 0
0.0042 0.2624 0
0.0097 0.2874 0.2874
0.0086 0.2826 0
0.0085 0.2691 0
0.0125 0.2942 0
0.0087 0.2825 0
0.0068 0.2634 0
0.0101 0.3024 0.228
0.0089 0.2637 0
0.0177 0.2919 0.431
0.0057 0.2538 0.2443
0.0038 0.2692 0
0.0226 0.2607 0.2473
0.0068 0.2634 0

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.

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Gene identifier Rv1348 (Mycobacterium tuberculosis), Iron-regulated transporter IrtA
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