Detailed view for Rv0440

Basic information

TDR Targets ID: 6185
Mycobacterium tuberculosis, 60 kDa chaperonin 2 GroEL2 (protein CPN60-2) (GroEL protein 2) (65 kDa antigen) (heat shock protein 65) (cell wall protein A) (a
Source Database / ID:  Tuberculist 

pI: 4.5593 | Length (AA): 540 | MW (Da): 56727 | 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

PF00118   TCP-1/cpn60 chaperonin family

Gene Ontology

Mouse over links to read term descriptions.
GO:0042026   protein refolding  
GO:0005737   cytoplasm  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0044267   cellular protein metabolic process  
GO:0006457   protein folding  

Metabolic Pathways

RNA degradation (KEGG)
Tuberculosis (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
2 523 5da8 (K) 3 527 58.00 0 1 1.32757 0.92
61 515 3rtk (A) 61 515 99.99 0 1 2.01549 -0.9
190 333 1srv (A) 192 335 71.00 0 1 1.27357 -2.04

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:

PDB tag
  • 1SJP:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3RTK:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

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
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_126788)

Species Accession Gene Product
Arabidopsis thaliana AT3G13470   TCP-1/cpn60 chaperonin family protein
Arabidopsis thaliana AT1G55490   chaperonin 60 subunit beta 1
Arabidopsis thaliana AT3G23990   heat shock protein 60
Arabidopsis thaliana AT1G26230   chaperonin 60 subunit beta 4
Arabidopsis thaliana AT2G33210   heat shock protein 60-2
Arabidopsis thaliana AT3G13860   heat shock protein 60-3A
Arabidopsis thaliana AT5G56500   chaperonin 60 subunit beta 3
Babesia bovis BBOV_IV006790   heat shock protein 60, putative
Brugia malayi Bm1_56580   chaperonine protein HSP60
Candida albicans CaO19.717   similar to S. cerevisiae HSP60 (YLR259C) mitochondrial chaperonin, heat shock protein 60
Candida albicans CaO19.8336   similar to S. cerevisiae HSP60 (YLR259C) mitochondrial chaperonin, heat shock protein 60
Caenorhabditis elegans CELE_Y22D7AL.5   Protein HSP-60, isoform A
Cryptosporidium hominis Chro.60573   Hsp60
Cryptosporidium parvum cgd6_4970   Hsp60; GroEL-like chaperone (ATpase), predicted mitochondrial
Chlamydia trachomatis CT_110   chaperonin GroEL
Dictyostelium discoideum DDB_G0288181   chaperonin 60
Drosophila melanogaster Dmel_CG2830   Heat shock protein 60 related
Drosophila melanogaster Dmel_CG12101   Heat shock protein 60
Drosophila melanogaster Dmel_CG7235   CG7235 gene product from transcript CG7235-RA
Escherichia coli b4143   Cpn60 chaperonin GroEL, large subunit of GroESL
Echinococcus granulosus EgrG_001190900   heat shock protein 60
Entamoeba histolytica EHI_178570   chaperonin 1 60 kDa
Echinococcus multilocularis EmuJ_001190900   heat shock protein 60
Giardia lamblia GL50803_103891   Chaperonin 60
Homo sapiens ENSG00000144381   heat shock 60kDa protein 1 (chaperonin)
Leishmania braziliensis LbrM.35.2240   chaperonin HSP60, mitochondrial precursor
Leishmania braziliensis LbrM.35.2250   chaperonin HSP60, mitochondrial precursor
Leishmania donovani LdBPK_362140.1   chaperonin HSP60, mitochondrial precursor
Leishmania donovani LdBPK_362130.1   chaperonin HSP60, mitochondrial precursor
Leishmania infantum LinJ.36.2130   chaperonin HSP60, mitochondrial precursor
Leishmania infantum LinJ.36.2140   chaperonin HSP60, mitochondrial precursor
Leishmania major LmjF.36.2020   chaperonin HSP60, mitochondrial precursor
Leishmania major LmjF.36.2030   chaperonin HSP60, mitochondrial precursor
Leishmania mexicana LmxM.36.2020   chaperonin HSP60, mitochondrial precursor
Leishmania mexicana LmxM.36.2030   chaperonin HSP60, mitochondrial precursor
Mycobacterium leprae ML0317   65 kDa chaperonin 2 GroEL2 (Protein Cpn60-2) (groEL protein 2) (65 kDa antigen) (Heat shock protein 65) (Cell wall protein A) (A
Mus musculus ENSMUSG00000025980   heat shock protein 1 (chaperonin)
Mus musculus 102641967   60 kDa heat shock protein, mitochondrial-like
Mycobacterium tuberculosis Rv0440   60 kDa chaperonin 2 GroEL2 (protein CPN60-2) (GroEL protein 2) (65 kDa antigen) (heat shock protein 65) (cell wall protein A) (a
Mycobacterium ulcerans MUL_1393   chaperonin GroEL
Neospora caninum NCLIV_065210   KLLA0F09449p, related
Oryza sativa 4327993   Os02g0102900
Oryza sativa 4339910   Os06g0114000
Oryza sativa 4331590   Os03g0143400
Oryza sativa 4339466   Os05g0540300
Oryza sativa 4348824   Os10g0462900
Plasmodium berghei PBANKA_1214000   heat shock protein 60, putative
Plasmodium falciparum PF3D7_1015600   heat shock protein 60
Plasmodium knowlesi PKNH_0815700   heat shock protein 60, putative
Plasmodium vivax PVX_095000   heat shock protein 60, putative
Plasmodium yoelii PY04614   heat shock protein 60
Saccharomyces cerevisiae YLR259C   chaperone ATPase HSP60
Schistosoma japonicum Sjp_0215010   ko:K04077 chaperonin GroEL, putative
Schistosoma mansoni Smp_008545   heat shock protein 60
Schmidtea mediterranea mk4.038932.00   Hsp60
Schmidtea mediterranea mk4.007026.02  
Schmidtea mediterranea mk4.001987.02  
Schmidtea mediterranea mk4.008170.00  
Schmidtea mediterranea mk4.071758.00   Chaperonin homolog Hsp-60, mitochondrial
Schmidtea mediterranea mk4.034498.00   Hsp60
Schmidtea mediterranea mk4.007026.01  
Schmidtea mediterranea mk4.008170.01  
Trypanosoma brucei gambiense Tbg972.10.7820   chaperonin HSP60, mitochondrial precursor, putative
Trypanosoma brucei gambiense Tbg972.10.7960   chaperonin HSP60, mitochondrial precursor
Trypanosoma brucei Tb927.10.6510   chaperonin HSP60, mitochondrial precursor
Trypanosoma brucei Tb927.10.6400   chaperonin HSP60, mitochondrial precursor
Trypanosoma congolense TcIL3000.11.15250   chaperonin HSP60, mitochondrial precursor
Trypanosoma congolense TcIL3000_10_5470   chaperonin HSP60, mitochondrial precursor
Trypanosoma cruzi TcCLB.507641.290   chaperonin HSP60, mitochondrial precursor
Trypanosoma cruzi TcCLB.507641.280   chaperonin HSP60, mitochondrial precursor
Toxoplasma gondii TGME49_247550   heat shock protein HSP60
Treponema pallidum TP0030   chaperonin GroEL
Theileria parva TP04_0066   heat shock protein 60, putative
Trichomonas vaginalis TVAG_203620   rubisco subunit binding-protein alpha subunit, ruba, putative
Trichomonas vaginalis TVAG_167250   chaperonin, putative
Trichomonas vaginalis TVAG_088050   chaperonin, putative
Wolbachia endosymbiont of Brugia malayi Wbm0350   molecular chaperone GroEL

Essentiality

Rv0440 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu443 this record Mycobacterium tuberculosis essential nmpdr
Tb927.10.6510 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.6510 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.6510 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6510 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b4143 Escherichia coli essential goodall
CELE_Y22D7AL.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y22D7AL.5 Caenorhabditis elegans larval arrest wormbase
CELE_Y22D7AL.5 Caenorhabditis elegans slow growth wormbase
CELE_Y22D7AL.5 Caenorhabditis elegans sterile wormbase
YLR259C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1214000 Plasmodium berghei Essential plasmo
TGME49_247550 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • 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
  • 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

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
Macaaca fascicularis T-complex protein 1 subunit beta 535 aa 23.5% 565 aa Compounds References
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

  • Reagent:
  • Target Type Source Notes
    Rv0440 cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Mycobacterium tuberculosis ( 1 )

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 Rv0440 (Mycobacterium tuberculosis), 60 kDa chaperonin 2 GroEL2 (protein CPN60-2) (GroEL protein 2) (65 kDa antigen) (heat shock protein 65) (cell wall protein A) (a
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