Detailed view for Rv3028c

Basic information

TDR Targets ID: 6079
Mycobacterium tuberculosis, Probable electron transfer flavoprotein (alpha-subunit) FixB (alpha-ETF) (electron transfer flavoprotein large subunit) (ETFLS)
Source Database / ID:  Tuberculist 

pI: 4.4266 | Length (AA): 318 | MW (Da): 31691 | 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

PF00766   Electron transfer flavoprotein FAD-binding domain
PF01012   Electron transfer flavoprotein domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0050660   FAD binding  
GO:0009055   electron carrier activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
1 318 5ol2 (A) 1 331 34.00 0 1 1.3754 0.09
2 173 1o94 (D) 1 176 32.00 0.000017 1 0.90318 -0.36
4 313 1efp (A) 3 308 45.00 0 1 1.48774 -0.05

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
Lower 0-20% 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_127844)

Species Accession Gene Product
Arabidopsis thaliana AT1G50940   electron transfer flavoprotein subunit alpha
Brugia malayi Bm1_41810   electron-transfer-flavoprotein, alpha polypeptide, putative
Candida albicans CaO19.9697   electron transfer flavoprotein alpha subunit
Candida albicans CaO19.2150   electron transfer flavoprotein alpha subunit
Caenorhabditis elegans CELE_F27D4.1   Protein F27D4.1
Dictyostelium discoideum DDB_G0290927   electron transfer flavoprotein alpha subunit
Drosophila melanogaster Dmel_CG8996   walrus
Escherichia coli b0042   putative electron transfer flavoprotein, NAD/FAD-binding domain and ETFP adenine nucleotide-binding domain-like protein
Escherichia coli b1698   putative electron transfer flavoprotein, FAD-binding subunit
Homo sapiens ENSG00000140374   electron-transfer-flavoprotein, alpha polypeptide
Leishmania braziliensis LbrM.28.1220   electron-transfer-flavoprotein, alpha polypeptide, putative
Leishmania donovani LdBPK_281240.1   electron-transfer-flavoprotein, alpha polypeptide, putative
Leishmania infantum LinJ.28.1240   electron-transfer-flavoprotein, alpha polypeptide, putative
Leishmania major LmjF.28.1140   electron-transfer-flavoprotein, alpha polypeptide, putative
Leishmania mexicana LmxM.28.1140   electron-transfer-flavoprotein, alpha polypeptide, putative
Loa Loa (eye worm) LOAG_05651   electron-transfer-flavoprotein
Mycobacterium leprae ML1711c   PROBABLE ELECTRON TRANSFER FLAVOPROTEIN (ALPHA-SUBUNIT) FIXB (ALPHA-ETF) (ELECTRON TRANSFER FLAVOPROTEIN LARGE SUBUNIT) (ETFLS)
Mus musculus ENSMUSG00000032314   electron transferring flavoprotein, alpha polypeptide
Mycobacterium tuberculosis Rv3028c   Probable electron transfer flavoprotein (alpha-subunit) FixB (alpha-ETF) (electron transfer flavoprotein large subunit) (ETFLS)
Mycobacterium ulcerans MUL_1923   electron transfer flavoprotein FixB
Oryza sativa 4334698   Os03g0835400
Onchocerca volvulus OVOC1578   Putative electron transfer flavoprotein subunit alpha, mitochondrial
Saccharomyces cerevisiae YPR004C   Aim45p
Schmidtea mediterranea mk4.012797.00   Probable electron transfer flavoprotein subunit alpha, mitochondrial
Schmidtea mediterranea mk4.012797.01   Electron transfer flavoprotein subunit alpha, mitochondrial
Schmidtea mediterranea mk4.012040.00   Electron transfer flavoprotein subunit alpha, mitochondrial
Trypanosoma brucei gambiense Tbg972.11.8730   electron-transfer-flavoprotein, alpha polypeptide, putative
Trypanosoma brucei Tb927.11.7540   electron-transfer-flavoprotein, alpha polypeptide, putative
Trypanosoma congolense TcIL3000_0_14770   electron-transfer-flavoprotein, alpha polypeptide, putative
Trypanosoma congolense TcIL3000.11.8140   electron-transfer-flavoprotein, alpha polypeptide, putative
Trypanosoma cruzi TcCLB.503559.109   electron-transfer-flavoprotein, alpha polypeptide, putative
Trypanosoma cruzi TcCLB.511693.90   electron-transfer-flavoprotein, alpha polypeptide, putative
Toxoplasma gondii TGME49_207250   electron-transfer-flavoprotein, alpha polypeptide

Essentiality

Rv3028c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.5530 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.5530 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.02.5530 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.5530 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0042 Escherichia coli non-essential goodall
b1698 Escherichia coli non-essential goodall
CELE_F27D4.1 Caenorhabditis elegans embryonic lethal wormbase
TGME49_207250 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • 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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User comments

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Gene identifier Rv3028c (Mycobacterium tuberculosis), Probable electron transfer flavoprotein (alpha-subunit) FixB (alpha-ETF) (electron transfer flavoprotein large subunit) (ETFLS)
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