Detailed view for Rv3573c

Basic information

TDR Targets ID: 980267
Mycobacterium tuberculosis, Probable acyl-CoA dehydrogenase FadE34
Source Database / ID:  Tuberculist 

pI: 4.7635 | Length (AA): 711 | MW (Da): 74546 | Paralog Number: 5

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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 7 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
1 341 1buc (A) 1 375 22.00 0 1 0.548006 0.53
185 707 6es9 (A) 12 550 24.00 0 1 0.896984 0.6
254 301 4x8w (H) 1 307 42.00 0.017 0.06 0.231911 2.53
348 711 4x28 (A) 9 397 34.00 0 1 0.810555 0.34
365 710 2eba (A) 26 383 25.00 0 1 0.726939 -0.1
372 706 4n5f (A) 29 377 26.00 0 1 0.798567 -0.36
438 588 4kto (A) 103 254 33.00 0.0000000057 1 0.633977 -0.69

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_145209)

Species Accession Gene Product
Mycobacterium tuberculosis Rv3573c   Probable acyl-CoA dehydrogenase FadE34
Mycobacterium tuberculosis Rv1934c   Probable acyl-CoA dehydrogenase FadE17
Mycobacterium tuberculosis Rv3061c   Probable acyl-CoA dehydrogenase FadE22
Mycobacterium tuberculosis Rv3560c   Probable acyl-CoA dehydrogenase FadE30
Mycobacterium tuberculosis Rv0271c   Probable acyl-CoA dehydrogenase FadE6
Mycobacterium tuberculosis Rv3562   Probable acyl-CoA dehydrogenase FadE31
Mycobacterium ulcerans MUL_4958   acyl-CoA dehydrogenase FadE6
Mycobacterium ulcerans MUL_3411   acyl-CoA dehydrogenase FadE22
Mycobacterium ulcerans MUL_0322   acyl-CoA dehydrogenase
Mycobacterium ulcerans MUL_4144   acyl-CoA dehydrogenase FadE34
Mycobacterium ulcerans MUL_3842   acyl-CoA dehydrogenase FadE17
Mycobacterium ulcerans MUL_4125   acyl-CoA dehydrogenase FadE30
Mycobacterium ulcerans MUL_3681   acyl-CoA dehydrogenase FadE17
Mycobacterium ulcerans MUL_2757   acyl-CoA dehydrogenase
Mycobacterium ulcerans MUL_0360   acyl-CoA dehydrogenase
Mycobacterium ulcerans MUL_1194   acyl-CoA dehydrogenase FadE6
Mycobacterium ulcerans MUL_4127   acyl-CoA dehydrogenase FadE31
Mycobacterium ulcerans MUL_3874   acyl-CoA dehydrogenase
Mycobacterium ulcerans MUL_3854   acyl-CoA dehydrogenase
Mycobacterium ulcerans MUL_2892   acyl-CoA dehydrogenase FadE17

Essentiality

Rv3573c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu3114 Mycobacterium tuberculosis non-essential nmpdr
mtu3621 Mycobacterium tuberculosis non-essential nmpdr
mtu274 Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
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.

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 Rv3573c (Mycobacterium tuberculosis), Probable acyl-CoA dehydrogenase FadE34
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