Detailed view for TcCLB.503653.60

Basic information

TDR Targets ID: 54304
Trypanosoma cruzi, cytochrome b-domain protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.096 | Length (AA): 314 | MW (Da): 35448 | Paralog Number: 5

Signal peptide: N | GPI Anchor: Y | Predicted trans-membrane segments: 3

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

PF00173   Cytochrome b5-like Heme/Steroid binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0020037   heme binding  

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
88 195 1kbi (A) 2 110 28.00 0 1 0.63 -0.23
96 169 1cxy (A) 9 86 38.00 0.000000018 1 0.88 -2.2
96 173 2ibj (A) 6 83 44.00 0 1 0.863508 -0.83
174 258 4hil (A) 3 83 51.00 0 1 0.888901 -0.54
176 270 1aw3 (A) 5 94 48.00 0 1 0.912748 -0.86
181 267 1aw3 (A) 6 92 43.00 0.00068 1 0.90207 -1.05

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

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile epimastigote. Smircich P
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_126967)

Species Accession Gene Product
Arabidopsis thaliana AT5G53560   cytochrome B5 isoform E
Arabidopsis thaliana AT1G26340   cytochrome B5 isoform A
Arabidopsis thaliana AT5G48810   cytochrome B5 isoform D
Arabidopsis thaliana AT2G32720   cytochrome B5 isoform B
Brugia malayi Bm1_32920   Cytochrome b5-like Heme/Steroid binding domain containing protein
Brugia malayi Bm1_32100   Cytochrome b5-like Heme/Steroid binding domain containing protein
Candida albicans CaO19.1397   similar to cytochrome b5 but contains N and C terminal extensions
Candida albicans CaO19.7049   similar to S. cerevisiae CYB5 (YNL111C) cytochrome b5
Candida albicans CaJ7_0084   hypothetical protein
Candida albicans CaO19.8975   similar to cytochrome b5 but contains N and C terminal extensions
Caenorhabditis elegans CELE_D2023.1   Protein D2023.1, isoform G
Caenorhabditis elegans CELE_C31E10.7   Protein CYTB-5.1
Caenorhabditis elegans CELE_W02D3.1   Protein CYTB-5.2
Dictyostelium discoideum DDB_G0276033   cytochrome b5 A
Dictyostelium discoideum DDB_G0278753   cytochrome b5 C
Dictyostelium discoideum DDB_G0277079   cytochrome b5 B
Drosophila melanogaster Dmel_CG2140   Cytochrome b5
Drosophila melanogaster Dmel_CG3566   CG3566 gene product from transcript CG3566-RB
Echinococcus granulosus EgrG_000701000   cytochrome B5
Echinococcus multilocularis EmuJ_000701000   cytochrome B5
Homo sapiens ENSG00000166347   cytochrome b5 type A (microsomal)
Homo sapiens ENSG00000103018   cytochrome b5 type B (outer mitochondrial membrane)
Leishmania braziliensis LbrM.11.0460   cytochrome b5, putative
Leishmania braziliensis LbrM.09.1550   cytochrome b5-like protein, putative
Leishmania braziliensis LbrM.02.0070   cytochrome b-domain protein, putative
Leishmania donovani LdBPK_110490.1   cytochrome b5, putative
Leishmania donovani LdBPK_020020.1   cytochrome b-domain protein, putative
Leishmania donovani LdBPK_091570.1   cytochrome b5-like, putative
Leishmania donovani LdBPK_091580.1   cytochrome b5-like protein
Leishmania infantum LinJ.11.0490   cytochrome b5, putative
Leishmania infantum LinJ.09.1570   cytochrome b5-like protein, putative
Leishmania infantum LinJ.02.0020   cytochrome b-domain protein, putative
Leishmania infantum LinJ.09.1580   cytochrome b5-like protein
Leishmania major LmjF.11.0580   cytochrome b5, putative
Leishmania major LmjF.02.0050   cytochrome b-domain protein, putative
Leishmania major LmjF.09.1490   cytochrome b5-like protein, putative
Leishmania mexicana LmxM.11.0580   cytochrome b5, putative
Leishmania mexicana LmxM.09.1490   cytochrome b5-like protein, putative
Leishmania mexicana LmxM.02.0050   cytochrome b-domain protein, putative
Loa Loa (eye worm) LOAG_02355   hypothetical protein
Loa Loa (eye worm) LOAG_11399   cytochrome b5
Mus musculus 102641759   cytochrome b5 type B-like
Mus musculus ENSMUSG00000031924   cytochrome b5 type B
Mus musculus 109672   cytochrome b5 type A (microsomal)
Neospora caninum NCLIV_007030   Cytochrome b5, related
Oryza sativa 4330160   Os02g0649800
Oryza sativa 4349127   Os10g0518200
Oryza sativa 4337583   Os05g0108800
Oryza sativa 4351805   Os12g0223300
Plasmodium berghei PBANKA_1447000   cytochrome b5, putative
Plasmodium falciparum PF3D7_1232300   cytochrome b5, putative
Plasmodium knowlesi PKNH_1451800   cytochrome b5, putative
Plasmodium vivax PVX_100560   cytochrome b5, putative
Plasmodium yoelii PY04794   hypothetical protein
Saccharomyces cerevisiae YNL111C   Cyb5p
Schistosoma japonicum Sjp_0026290   Cytochrome b5 type B precursor, putative
Schistosoma mansoni Smp_066010.2   cytochrome B5
Schistosoma mansoni Smp_066010.1   cytochrome B5
Schmidtea mediterranea mk4.004065.02   Putative cytochrome b5
Trypanosoma brucei gambiense Tbg972.11.7510   cytochrome b5, putative
Trypanosoma brucei gambiense Tbg972.11.15240   cytochrome b5, putative
Trypanosoma brucei Tb927.11.13650   cytochrome b5, putative
Trypanosoma brucei Tb927.11.6640   cytochrome b5, putative
Trypanosoma cruzi TcCLB.509395.100   cytochrome b-domain protein, putative
Trypanosoma cruzi TcCLB.503653.60   cytochrome b-domain protein, putative
Trypanosoma cruzi TcCLB.510355.269   cytochrome b5, putative
Trypanosoma cruzi TcCLB.506773.44   cytochrome b5, putative
Trypanosoma cruzi TcCLB.508799.160   cytochrome b5-like protein, putative
Trypanosoma cruzi TcCLB.506753.110   cytochrome b5-like protein, putative
Toxoplasma gondii TGME49_276110   cytochrome b5 family heme/steroid binding domain-containing protein

Essentiality

TcCLB.503653.60 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.5225 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5225 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.5225 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.5225 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb11.02.4485 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.4485 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.4485 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.4485 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C31E10.7 Caenorhabditis elegans embryonic lethal wormbase
CELE_C31E10.7 Caenorhabditis elegans larval arrest wormbase
CELE_C31E10.7 Caenorhabditis elegans larval lethal wormbase
CELE_C31E10.7 Caenorhabditis elegans slow growth wormbase
CELE_W02D3.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_W02D3.1 Caenorhabditis elegans larval arrest wormbase
TGME49_276110 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • 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
  • 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.

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.

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Gene identifier TcCLB.503653.60 (Trypanosoma cruzi), cytochrome b-domain protein, putative
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