Detailed view for Bm1_01850

Basic information

TDR Targets ID: 238651
Brugia malayi, Hypothetical RING finger protein R06F6.2 in chromosome II
Source Database / ID:  GenBank

pI: 5.7111 | Length (AA): 900 | MW (Da): 101562 | Paralog Number: 0

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

Druggability Group : DG2

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

PF00637   Region in Clathrin and VPS

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0016192   vesicle-mediated transport  
GO:0006886   intracellular protein transport  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
348 659 1b89 (A) 1216 1509 17.00 0 1 0.405867 0.47
463 608 3zhp (A) 191 311 32.00 0.0094 0.52 0.277322 0.27
516 899 3vyc (A) 656 1055 11.00 0 0.21 0.439867 -0.05
738 786 4lad (B) 341 580 38.00 0.16 0.8 0.429544 0.55

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_128321)

Species Accession Gene Product
Arabidopsis thaliana AT2G05170   vacuolar protein sorting 11 protein
Babesia bovis BBOV_I004240   conserved hypothetical protein
Brugia malayi Bm1_01850   Hypothetical RING finger protein R06F6.2 in chromosome II
Candida albicans CaO19.4403   Vacuolar peripheral membrane protein similar to S. cerevisiae PEP5 (YMR231W)
Candida albicans CaO19.11881   Vacuolar peripheral membrane protein similar to S. cerevisiae PEP5 (YMR231W)
Caenorhabditis elegans CELE_R06F6.2   Protein VPS-11
Cryptosporidium hominis Chro.40458   vacuolar protein sorting 11
Cryptosporidium parvum cgd4_4010   hypothetical protein
Dictyostelium discoideum DDB_G0278141   7-fold repeat in clathrin and VPS proteins repeat-containing protein
Drosophila melanogaster Dmel_CG32350   CG32350 gene product from transcript CG32350-RA
Echinococcus granulosus EgrG_000735100   vacuolar protein sorting associated protein 11
Echinococcus multilocularis EmuJ_000735100   vacuolar protein sorting associated protein 11
Homo sapiens ENSG00000160695   vacuolar protein sorting 11 homolog (S. cerevisiae)
Leishmania braziliensis LbrM.31.3250   hypothetical protein, conserved
Leishmania donovani LdBPK_312990.1   Region in Clathrin and VPS, putative
Leishmania infantum LinJ.31.2990   hypothetical protein, conserved
Leishmania major LmjF.31.2890   hypothetical protein, conserved
Leishmania mexicana LmxM.30.2890   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06449   hypothetical protein
Mus musculus ENSMUSG00000032127   vacuolar protein sorting 11 (yeast)
Neospora caninum NCLIV_030870   hypothetical protein, conserved
Oryza sativa 4335642   Os04g0382700
Plasmodium berghei PBANKA_1101800   vacuolar protein sorting-associated protein 11, putative
Plasmodium falciparum PF3D7_0502000   vacuolar protein sorting-associated protein 11, putative
Plasmodium knowlesi PKNH_1031900   vacuolar protein sorting-associated protein 11, putative
Plasmodium vivax PVX_097605   vacuolar protein sorting-associated protein 11, putative
Plasmodium yoelii PY04374   expressed protein
Saccharomyces cerevisiae YMR231W   Pep5p
Schistosoma japonicum Sjp_0014720   Vacuolar protein sorting-associated protein 11 homolog, putative
Schistosoma mansoni Smp_194370   vacuolar membrane protein pep11
Schmidtea mediterranea mk4.020878.00   Vacuolar protein sorting-associated protein 11 homolog
Trypanosoma brucei gambiense Tbg972.8.7460   hypothetical protein, conserved
Trypanosoma brucei Tb927.8.7200   Region in Clathrin and VPS, putative
Trypanosoma congolense TcIL3000_8_7270   hypothetical protein, conserved
Trypanosoma congolense TcIL3000_0_55580   Region in Clathrin and VPS, putative
Trypanosoma cruzi TcCLB.510597.30   Region in Clathrin and VPS, putative
Trypanosoma cruzi TcCLB.506419.40   hypothetical protein, conserved
Toxoplasma gondii TGME49_230220   hypothetical protein
Theileria parva TP02_0730   hypothetical protein
Trichomonas vaginalis TVAG_372020   vacuolar membrane protein pep11, putative
Trichomonas vaginalis TVAG_003890   vacuolar membrane protein pep11, putative
Trichomonas vaginalis TVAG_080700   vacuolar membrane protein pep11, putative

Essentiality

Bm1_01850 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.7200 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.7200 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.7200 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.7200 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_R06F6.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_R06F6.2 Caenorhabditis elegans larval arrest wormbase
CELE_R06F6.2 Caenorhabditis elegans larval lethal wormbase
CELE_R06F6.2 Caenorhabditis elegans slow growth wormbase
CELE_R06F6.2 Caenorhabditis elegans sterile wormbase
TGME49_230220 Toxoplasma gondii Probably essential sidik
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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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.
  • 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.
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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 Bm1_01850 (Brugia malayi), Hypothetical RING finger protein R06F6.2 in chromosome II
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