Detailed view for LbrM.08.0840

Basic information

TDR Targets ID: 432520
Leishmania braziliensis, histone deacetylase, putative
Source Database / ID: 

pI: 7.3564 | Length (AA): 615 | MW (Da): 67064 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG

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

PF00850   Histone deacetylase domain

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 6 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
25 554 5g0j (A) 365 806 24.00 0 1 0.947087 0.32
186 597 5td7 (A) 38 465 25.00 0 1 0.889368 0.05
256 507 5ji5 (A) 83 305 39.00 0 1 0.737142 -0.31
257 545 5edu (B) 582 835 40.00 0 1 0.813198 -0.16
270 552 2vqj (A) 124 395 35.00 0 1 0.819297 -0.52
276 585 5g0i (A) 164 477 36.00 0 1 0.788851 -0.17

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_126654)

Species Accession Gene Product
Arabidopsis thaliana AT5G61060   histone deacetylase 5
Arabidopsis thaliana AT1G08460   histone deacetylase 8
Arabidopsis thaliana AT3G18520   histone deacetylase 15
Arabidopsis thaliana AT5G61070   histone deacetylase 18
Arabidopsis thaliana AT4G33470   histone deacetylase 14
Babesia bovis BBOV_IV001800   histone deacetylase, putative
Brugia malayi Bm1_04175   Histone deacetylase family protein
Brugia malayi Bm1_29305   Histone deacetylase family protein
Candida albicans CaO19.2606   strong similarity to S. cerevisiae HDA1 (YNL021W) class II histone deacetylase HDA1 complex subunit
Candida albicans CaO19.10137   strong similarity to S. cerevisiae HDA1 (YNL021W) class II histone deacetylase HDA1 complex subunit
Caenorhabditis elegans CELE_C10E2.3   Protein HDA-4, isoform B
Caenorhabditis elegans CELE_F41H10.6   Protein HDA-6, isoform D
Cryptosporidium hominis Chro.80061   hypothetical protein
Cryptosporidium parvum cgd8_480   histone deactylase of possible bacterial origin with ankyrin repeats at the N-terminus
Dictyostelium discoideum DDB_G0280195   FYVE-type zinc finger-containing protein
Drosophila melanogaster Dmel_CG6170   CG6170 gene product from transcript CG6170-RA
Drosophila melanogaster Dmel_CG1770   CG1770 gene product from transcript CG1770-RG
Echinococcus granulosus EgrG_000971000   histone deacetylase 6
Echinococcus granulosus EgrG_000970900   histone deacetylase 6
Echinococcus granulosus EgrG_000970800   histone deacetylase 6
Echinococcus granulosus EgrG_000831600   histone deacetylase 7
Echinococcus granulosus EgrG_000527350   histone deacetylase
Echinococcus multilocularis EmuJ_000970800   histone deacetylase 6
Echinococcus multilocularis EmuJ_000970900   histone deacetylase 6
Echinococcus multilocularis EmuJ_000527350   histone deacetylase
Echinococcus multilocularis EmuJ_000831600   histone deacetylase 7
Echinococcus multilocularis EmuJ_000971000   histone deacetylase 6
Homo sapiens ENSG00000094631   histone deacetylase 6
Homo sapiens ENSG00000048052   histone deacetylase 9
Homo sapiens ENSG00000068024   histone deacetylase 4
Homo sapiens ENSG00000061273   histone deacetylase 7
Homo sapiens ENSG00000100429   histone deacetylase 10
Homo sapiens ENSG00000108840   histone deacetylase 5
Leishmania braziliensis LbrM.08.0840   histone deacetylase, putative
Leishmania braziliensis LbrM.33.0940   histone deacetylase, putative
Leishmania donovani LdBPK_081300.1   histone deacetylase, putative
Leishmania donovani LdBPK_081000.1   histone deacetylase, putative
Leishmania infantum LinJ.08.1300   histone deacetylase, putative
Leishmania infantum LinJ.08.1000   histone deacetylase, putative
Leishmania major LmjF.08.1090   histone deacetylase, putative
Leishmania major LmjF.21.1870   histone deacetylase, putative
Leishmania mexicana LmxM.08.1090   histone deacetylase, putative
Leishmania mexicana LmxM.21.1870   histone deacetylase, putative
Loa Loa (eye worm) LOAG_12874   histone deacetylase 7A
Loa Loa (eye worm) LOAG_08981   hypothetical protein
Loa Loa (eye worm) LOAG_12935   histone deacetylase
Loa Loa (eye worm) LOAG_02425   hypothetical protein
Mus musculus ENSMUSG00000062906   histone deacetylase 10
Mus musculus ENSMUSG00000008855   histone deacetylase 5
Mus musculus ENSMUSG00000004698   histone deacetylase 9
Mus musculus ENSMUSG00000022475   histone deacetylase 7
Mus musculus ENSMUSG00000031161   histone deacetylase 6
Mus musculus ENSMUSG00000026313   histone deacetylase 4
Neospora caninum NCLIV_023370   hypothetical protein
Oryza sativa 4351682   Os12g0182700
Oryza sativa 4342472   Os07g0164100
Oryza sativa 4338920   Os05g0440100
Oryza sativa 4343829   Os07g0602200
Plasmodium berghei PBANKA_1206200   histone deacetylase 2, putative
Plasmodium berghei PBANKA_1335400   histone deacetylase, putative
Plasmodium falciparum PF3D7_1008000   histone deacetylase 2
Plasmodium falciparum PF3D7_1472200   histone deacetylase, putative
Plasmodium knowlesi PKNH_0807000   histone deacetylase 2, putative
Plasmodium knowlesi PKNH_1208800   histone deacetylase, putative
Plasmodium vivax PVX_116870   histone deacetylase, putative
Plasmodium vivax PVX_094595   histone deacetylase 2, putative
Plasmodium yoelii PY05395   hypothetical protein
Plasmodium yoelii PY07179   Histone deacetylase family, putative
Saccharomyces cerevisiae YNL021W   Hda1p
Schistosoma japonicum Sjp_0055900   Histone deacetylase 10, putative
Schistosoma japonicum Sjp_0055920   Histone deacetylase 10, putative
Schistosoma japonicum Sjp_0002050   Histone deacetylase 4, putative
Schistosoma japonicum Sjp_0036460   Histone deacetylase 4, putative
Schistosoma japonicum Sjp_0109880   IPR000286,Histone deacetylase superfamily;IPR013838,Beta tubulin, autoregulation binding site,domain-containing
Schistosoma japonicum Sjp_0311640   Histone deacetylase 6, putative
Schistosoma japonicum Sjp_0130630   hypothetical protein
Schistosoma japonicum Sjp_0055910   Histone deacetylase 6, putative
Schistosoma mansoni Smp_191310   histone deacetylase 4 5
Schistosoma mansoni Smp_069380   histone deacetylase 4 5
Schistosoma mansoni Smp_138770   histone deacetylase hda2
Schmidtea mediterranea mk4.000224.06   Histone deacetylase 10
Schmidtea mediterranea mk4.003136.00   Histone deacetylase 4
Trypanosoma brucei gambiense Tbg.972.2.760   histone deacetylase, putative
Trypanosoma brucei Tb927.2.2190   histone deacetylase 3
Trypanosoma brucei Tb11.v5.0660   histone deacetylase, putative
Trypanosoma brucei Tb927.5.2900   histone deacetylase 4
Trypanosoma congolense TcIL3000_0_22870   histone deacetylase 4
Trypanosoma congolense TcIL3000_5_3160   histone deacetylase 4
Trypanosoma congolense TcIL3000_0_22520   histone deacetylase, putative
Trypanosoma cruzi TcCLB.509395.120   histone deacetylase, putative
Trypanosoma cruzi TcCLB.503653.50   histone deacetylase, putative
Trypanosoma cruzi TcCLB.507063.270   histone deacetylase, putative
Toxoplasma gondii TGME49_281420   histone deacetylase HDAC1
Theileria parva TP03_0788   hypothetical protein
Theileria parva TP03_0613   hypothetical protein
Theileria parva TP03_0612   histone deacetylase, putative

Essentiality

LbrM.08.0840 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.2190 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.2.2190 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.2.2190 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.2.2190 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.5.2900 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.5.2900 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.2900 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.5.2900 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C10E2.3 Caenorhabditis elegans slow growth wormbase
PBANKA_1206200 Plasmodium berghei Essential plasmo
TGME49_281420 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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
Species Known druggable target Linked compounds Reference
Homo sapiens histone deacetylase 7 Compounds References
Mus musculus histone deacetylase 10 Compounds References
Mus musculus histone deacetylase 9 Compounds References
Rattus norvegicus Histone deacetylase 6 Compounds References
Mus musculus histone deacetylase 7 Compounds References
Mus musculus histone deacetylase 6 Compounds References
Alcaligenes sp. (strain DSM 11172) (Bordetella sp. (strain FB188)) Histone deacetylase-like amidohydrolase Compounds References
Homo sapiens histone deacetylase 10 Compounds References
Homo sapiens histone deacetylase 6 Compounds References
Mus musculus histone deacetylase 5 Compounds References
Homo sapiens histone deacetylase 9 Compounds References
Homo sapiens histone deacetylase 4 Compounds References
Homo sapiens histone deacetylase 5 Compounds References
Mus musculus histone deacetylase 4 Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Histone deacetylase 328 aa 30.3% 284 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

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 LbrM.08.0840 (Leishmania braziliensis), histone deacetylase, putative
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