Detailed view for Bm1_41630

Basic information

TDR Targets ID: 238402
Brugia malayi, Programmed cell death protein 2, C-terminal domain containing protein
Source Database / ID:  GenBank

pI: 5.0816 | Length (AA): 407 | MW (Da): 46561 | 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

PF01753   MYND finger
PF04194   Programmed cell death protein 2, C-terminal putative domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0008270   zinc ion binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
154 193 3qww (A) 50 90 43.00 0.087 0.68 0.53988 -0.23
156 202 2d8q (A) 18 62 40.00 0.0000081 0.81 0.557079 -0.1

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_129167)

Species Accession Gene Product
Arabidopsis thaliana AT4G02220   MYND type zinc finger and programmed cell death 2 C-terminal domain-containing protein
Babesia bovis BBOV_IV003300   programmed cell death protein 2, putative
Brugia malayi Bm1_41630   Programmed cell death protein 2, C-terminal domain containing protein
Caenorhabditis elegans CELE_R07E5.10   Protein PDCD-2, isoform A
Cryptosporidium hominis Chro.20362   programmed cell death 2
Cryptosporidium parvum cgd2_3420   programmed cell death 2, putative
Dictyostelium discoideum DDB_G0284069   hypothetical protein
Drosophila melanogaster Dmel_CG3260   Zinc finger protein RP-8
Echinococcus granulosus EgrG_000599000   programmed cell death protein 2
Entamoeba histolytica EHI_062760   programmed cell death protein 2, putative
Echinococcus multilocularis EmuJ_000917400   pcdc2:rp 8 (programmed cell death protein 2)
Echinococcus multilocularis EmuJ_000599000   programmed cell death protein 2
Homo sapiens ENSG00000071994   programmed cell death 2
Leishmania braziliensis LbrM.21.1180   hypothetical protein, conserved
Leishmania donovani LdBPK_211190.1   Programmed cell death protein 2, C-terminal putative domain containing protein, putative
Leishmania infantum LinJ.21.1190   hypothetical protein, conserved
Leishmania major LmjF.21.0950   hypothetical protein, conserved
Leishmania mexicana LmxM.21.0950   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06102   programmed cell death protein 2 domain-containing protein
Mus musculus ENSMUSG00000014771   programmed cell death 2
Oryza sativa 4332566   Os03g0300200
Plasmodium berghei PBANKA_0613900   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_0716200   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_0310800   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_000615   hypothetical protein, conserved
Plasmodium yoelii PY01026   Homo sapiens dJ191N21.1-related
Schistosoma japonicum Sjp_0032660   DNA excision repair protein haywire, putative
Schistosoma mansoni Smp_165560   pcdc2/rp-8 (programmed cell death protein 2)
Trypanosoma brucei gambiense Tbg972.10.1180   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.1200   Programmed cell death protein 2, C-terminal putative domain containing protein, putative
Trypanosoma congolense TcIL3000_10_1000   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509967.80   Programmed cell death protein 2, C-terminal putative domain containing protein, putative
Trypanosoma cruzi TcCLB.509695.60   Programmed cell death protein 2, C-terminal putative domain containing protein, putative
Theileria parva TP01_1090   hypothetical protein

Essentiality

Bm1_41630 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.1200 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.1200 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.1200 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.1200 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_R07E5.10 Caenorhabditis elegans embryonic lethal wormbase
CELE_R07E5.10 Caenorhabditis elegans larval arrest wormbase
CELE_R07E5.10 Caenorhabditis elegans larval lethal wormbase
CELE_R07E5.10 Caenorhabditis elegans slow growth wormbase
CELE_R07E5.10 Caenorhabditis elegans sterile wormbase
PBANKA_0613900 Plasmodium berghei Essential plasmo
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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.

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_41630 (Brugia malayi), Programmed cell death protein 2, C-terminal domain containing protein
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