Detailed view for Rv2948c

Basic information

TDR Targets ID: 6000
Mycobacterium tuberculosis, P-hydroxybenzoyl-AMP ligase FadD22

Source Database / ID:  Tuberculist 

pI: 4.858 | Length (AA): 705 | MW (Da): 75198 | Paralog Number: 0

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

PF00501   AMP-binding enzyme
PF00550   Phosphopantetheine attachment site
PF13193   AMP-binding enzyme C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0031177   phosphopantetheine binding  
GO:0048037   cofactor binding  
GO:0003824   catalytic activity  
GO:0000036   acyl carrier activity  
GO:0008152   metabolic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
3 705 5u89 (A) 456 1144 24.00 0 1 1.09476 0.64
3 643 4zxh (A) 478 1069 25.00 0 1 1.09482 0.26
527 619 2ju1 (A) 1 94 45.00 0.00000000051 1 0.756915 -0.99
541 619 4hkg (A) 3 80 31.00 0 1 0.632857 -1.49
546 620 2qnw (A) 8 82 19.00 0.96 1 0.488983 -1.21

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


Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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.


Ortholog group members (OG5_168583)

Species Accession Gene Product
Mycobacterium tuberculosis Rv2948c   P-hydroxybenzoyl-AMP ligase FadD22
Mycobacterium ulcerans MUL_2004   acyl-CoA synthetase


Rv2948c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2997 this record Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site,, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Photuris pennsylvanica Luciferin 4-monooxygenase 545 aa 19.5% 488 aa Compounds References
Photuris pennsylvanica Luciferase 552 aa 23.5% 493 aa Compounds References
Yersinia pestis AMP-binding enzyme family protein 525 aa 26.2% 484 aa Compounds References
Photinus pyralis Luciferin 4-monooxygenase 550 aa 22.1% 493 aa Compounds References
Mycobacterium tuberculosis Bifunctional enzyme MbtA: salicyl-AMP ligase (SAL-AMP ligase) + salicyl-S-ArCP synthetase 565 aa 27.2% 475 aa Compounds References
Luciola lateralis Luciferase 548 aa 21.9% 503 aa Compounds References
Mycobacterium tuberculosis Fatty-acid-AMP ligase FadD28 (fatty-acid-AMP synthetase) (fatty-acid-AMP synthase) 580 aa 23.5% 544 aa Compounds References

Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0088 0.2627 0.0546
0.0021 0.2636 0.2636
0.0193 0.2636 0.2636
0.0193 0.2636 0.2636


Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

12 literature references were collected for this gene.

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

User comments

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Gene identifier Rv2948c (Mycobacterium tuberculosis), P-hydroxybenzoyl-AMP ligase FadD22
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