Detailed view for Rv1010

Basic information

TDR Targets ID: 981282
Mycobacterium tuberculosis, Probable dimethyladenosine transferase KsgA (S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase) (16S rRNA dimethy
Source Database / ID:  Tuberculist 

pI: 10.3344 | Length (AA): 317 | MW (Da): 34646 | 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

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 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
11 301 4gc5 (A) 10 319 23.00 0.00000000002 1 1.15038 0.21
17 291 3fut (A) 8 266 35.00 0 1 1.29791 -0.58
44 183 2pwy (A) 81 218 19.00 0 0.98 0.70404 -0.49

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_126745)

Species Accession Gene Product
Arabidopsis thaliana AT2G47420   dimethyladenosine transferase
Arabidopsis thaliana AT5G66360   adenosine dimethyl transferase 1B
Arabidopsis thaliana AT1G01860   dimethyladenosine transferase
Babesia bovis BBOV_II001100   dimethyladenosine transferase protein, putative
Babesia bovis BBOV_III002690   dimethyladenosine transferase, putative
Brugia malayi Bm1_09155   ribosomal RNA adenine dimethylase family protein
Brugia malayi Bm1_54155   Probable dimethyladenosine transferase
Candida albicans CaO19.5010   similar to S. cerevisiae DIM1 (YPL266W) essential rRNA processing dimethyladenosine transferase
Candida albicans CaO19.12477   similar to S. cerevisiae DIM1 (YPL266W) essential rRNA processing dimethyladenosine transferase
Caenorhabditis elegans CELE_E02H1.1   Protein E02H1.1
Caenorhabditis elegans CELE_T03F1.7   Protein T03F1.7
Cryptosporidium parvum cgd6_930   Dim1p-like ERMB/KSGA methylase
Chlamydia trachomatis CT_354   rRNA small subunit methyltransferase A
Dictyostelium discoideum DDB_G0286199   hypothetical protein
Dictyostelium discoideum DDB_G0283789   dimethyladenosine transferase
Drosophila melanogaster Dmel_CG42631   Mitochondrial Transcription Factor B1
Drosophila melanogaster Dmel_CG42630   Coiled-coil domain containing 56
Drosophila melanogaster Dmel_CG11837   CG11837 gene product from transcript CG11837-RA
Escherichia coli b0051   16S rRNA m(6)A1518, m(6)A1519 dimethyltransferase, SAM-dependent
Echinococcus granulosus EgrG_000519100   dimethyladenosine transferase
Echinococcus granulosus EgrG_001012400   dimethyladenosine transferase
Entamoeba histolytica EHI_013870   dimethyladenosine transferase, putative
Echinococcus multilocularis EmuJ_001012400   dimethyladenosine transferase
Echinococcus multilocularis EmuJ_000519100   dimethyladenosine transferase
Giardia lamblia GL50803_14842   Dimethyladenosine transferase
Homo sapiens 27292   DIM1 dimethyladenosine transferase 1 homolog (S. cerevisiae)
Homo sapiens 51106   transcription factor B1, mitochondrial
Leishmania braziliensis LbrM.30.0220   ribosomal RNA adenine dimethylase family protein, putative
Leishmania donovani LdBPK_300210.1   ribosomal RNA adenine dimethylase family protein, putative
Leishmania infantum LinJ.30.0210   ribosomal RNA adenine dimethylase family protein, putative
Leishmania major LmjF.30.0210   ribosomal RNA adenine dimethylase family protein, putative
Leishmania mexicana LmxM.29.0210   ribosomal RNA adenine dimethylase family protein, putative
Loa Loa (eye worm) LOAG_13883   hypothetical protein
Loa Loa (eye worm) LOAG_09179   ribosomal RNA adenine dimethylase
Loa Loa (eye worm) LOAG_14757   hypothetical protein
Loa Loa (eye worm) LOAG_09107   hypothetical protein
Mycobacterium leprae ML0241   Probable dimethyladenosine transferase KsgA (S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase) (16S rRNA dimethy
Mus musculus ENSMUSG00000036983   transcription factor B1, mitochondrial
Mus musculus ENSMUSG00000021692   DIM1 dimethyladenosine transferase 1-like (S. cerevisiae)
Mycobacterium tuberculosis Rv1010   Probable dimethyladenosine transferase KsgA (S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase) (16S rRNA dimethy
Mycobacterium ulcerans MUL_4650   dimethyladenosine transferase
Neospora caninum NCLIV_060370   dimethyladenosine synthase, putative
Neospora caninum NCLIV_064190   dimethyladenosine transferase, putative
Neospora caninum NCLIV_060360   hypothetical protein
Oryza sativa 9271200   Os02g0122900
Oryza sativa 4348215   Os10g0183900
Oryza sativa 4343346   Os07g0509600
Onchocerca volvulus OVOC10899   Putative dimethyladenosine transferase
Plasmodium berghei PBANKA_1026900   dimethyladenosine transferase, putative
Plasmodium berghei PBANKA_1462800   apicoplast dimethyladenosine synthase, putative
Plasmodium falciparum PF3D7_1249900   apicoplast dimethyladenosine synthase, putative
Plasmodium falciparum PF3D7_1415800   dimethyladenosine transferase, putative
Plasmodium knowlesi PKNH_1469900   dimethyladenosine transferase, putative
Plasmodium knowlesi PKNH_1342300   dimethyladenosine transferase, putative
Plasmodium vivax PVX_085660   dimethyladenosine transferase, putative
Plasmodium vivax PVX_101390   dimethyladenosine transferase, putative
Plasmodium yoelii PY06971   dimethyladenosine transferase, putative
Plasmodium yoelii PY06281   dimethyladenosine transferase, putative
Saccharomyces cerevisiae YPL266W   Dim1p
Schistosoma japonicum Sjp_0215620   ko:K02528 dimethyladenosine transferase, putative
Schistosoma japonicum Sjp_0072830   ko:K02528 dimethyladenosine transferase, putative
Schistosoma japonicum Sjp_0113020   Probable dimethyladenosine transferase, putative
Schistosoma mansoni Smp_077020   dimethyladenosine transferase
Schistosoma mansoni Smp_162620   dimethyladenosine transferase
Schmidtea mediterranea mk4.001736.04  
Schmidtea mediterranea mk4.002890.00  
Trypanosoma brucei gambiense Tbg972.6.1280   ribosomal RNA adenine dimethylase family protein, conserved, putative
Trypanosoma brucei Tb927.6.1610   ribosomal RNA adenine dimethylase family protein, conserved
Trypanosoma congolense TcIL3000_6_1110   ribosomal RNA adenine dimethylase family protein, conserved, putative
Trypanosoma cruzi TcCLB.505807.220   ribosomal RNA adenine dimethylase family protein, putative
Trypanosoma cruzi TcCLB.507017.70   ribosomal RNA adenine dimethylase family protein, putative
Toxoplasma gondii TGME49_248200   ribosomal RNA (adenine(1779)-N(6)/adenine(1780)-N(6))- dimethyltransferase, putative
Toxoplasma gondii TGME49_300320   dimethyladenosine transferase
Treponema pallidum TP0337   dimethyladenosine transferase
Theileria parva TP04_0074   hypothetical protein
Theileria parva TP04_0475   dimethyladenosine transferase, putative
Trichomonas vaginalis TVAG_299080   dimethyladenosine transferase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0407   dimethyladenosine transferase

Essentiality

Rv1010 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.1610 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.1610 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.1610 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.6.1610 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0051 Escherichia coli non-essential goodall
CELE_E02H1.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_E02H1.1 Caenorhabditis elegans larval arrest wormbase
CELE_E02H1.1 Caenorhabditis elegans slow growth wormbase
CELE_E02H1.1 Caenorhabditis elegans sterile wormbase
YPL266W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1462800 Plasmodium berghei Essential plasmo
TGME49_248200 Toxoplasma gondii Probably essential sidik
TGME49_300320 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.

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Gene identifier Rv1010 (Mycobacterium tuberculosis), Probable dimethyladenosine transferase KsgA (S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase) (16S rRNA dimethy
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