Detailed view for LmjF.06.0120

Basic information

TDR Targets ID: 24202
Leishmania major, cyclophilin 2
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.9691 | Length (AA): 187 | MW (Da): 20326 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: N | 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

PF00160   Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD

Gene Ontology

Mouse over links to read term descriptions.
GO:0000413   protein peptidyl-prolyl isomerization  
GO:0003755   peptidyl-prolyl cis-trans isomerase activity  
GO:0006457   protein folding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
10 187 1z81 (A) 25 210 48.00 0 1 1.51 -1.2
22 187 2haq (A) 22 187 96.00 0 1 2.06 -2.06
22 187 2haq (A) 22 187 96.00 0 1 2.1375 -1.98

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
  • 2HAQ:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3BT8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3EOV:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_127452)

Species Accession Gene Product
Arabidopsis thaliana AT2G29960   peptidyl-prolyl cis-trans isomerase CYP19-4
Arabidopsis thaliana AT5G58710   cyclophilin ROC7
Arabidopsis thaliana AT5G13120   peptidyl-prolyl cis-trans isomerase CYP20-2
Arabidopsis thaliana AT3G62030   peptidyl-prolyl cis-trans isomerase CYP20-3
Babesia bovis BBOV_I000280   peptidylprolyl isomerase, putative
Brugia malayi Bm1_24035   cyclophilin-type peptidyl-prolyl cis-trans isomerase-15, Bmcyp-5
Brugia malayi Bm1_49715   cyclophilin-type peptidyl-prolyl cis-trans isomerase-6, Bmcyp-6
Brugia malayi Bm1_19855   cyclophilin-type peptidyl-prolyl cis-trans isomerase-18, Bmcyp-18
Candida albicans CaO19.7421   likely cyclophilin type peptidyl-prolyl cis-trans isomerase similar to E.nidulans cypB and to S. cerevisiae CPR5 (YDR304C)
Caenorhabditis elegans CELE_F31C3.1   Protein CYN-5
Caenorhabditis elegans CELE_F42G9.2   Protein CYN-6
Dictyostelium discoideum DDB_G0269120   cyclophilin B
Drosophila melanogaster Dmel_CG2852   CG2852 gene product from transcript CG2852-RD
Echinococcus granulosus EgrG_001015600   peptidyl prolyl cis trans isomerase B
Entamoeba histolytica EHI_128100   peptidyl-prolyl cis-trans isomerase, putative
Echinococcus multilocularis EmuJ_001015600   peptidyl prolyl cis trans isomerase B
Giardia lamblia GL50803_17163   Peptidyl-prolyl cis-trans isomerase B precursor
Homo sapiens ENSG00000166794   peptidylprolyl isomerase B (cyclophilin B)
Leishmania braziliensis LbrM.06.0100   cyclophilin 2
Leishmania donovani LdBPK_060120.1   cyclophilin
Leishmania infantum LinJ.06.0120   cyclophilin 2
Leishmania major LmjF.06.0120   cyclophilin 2
Leishmania mexicana LmxM.06.0120   cyclophilin
Loa Loa (eye worm) LOAG_00140   CYN-5 protein
Loa Loa (eye worm) LOAG_13609   cyclophilin-type peptidyl-prolyl cis-trans isomerase-18
Loa Loa (eye worm) LOAG_00699   cyclophilin-type peptidyl-prolyl cis-trans isomerase-15
Mus musculus ENSMUSG00000032383   peptidylprolyl isomerase B
Oryza sativa 4337539   Os05g0103200
Oryza sativa 4327912   Os01g0284700
Oryza sativa 4342022   Os06g0708500
Onchocerca volvulus OVOC1727  
Plasmodium berghei PBANKA_0932200   peptidyl-prolyl cis-trans isomerase, putative
Plasmodium falciparum PF3D7_1115600   peptidyl-prolyl cis-trans isomerase
Plasmodium knowlesi PKNH_0913200   peptidylprolyl isomerase precursor, putative
Plasmodium vivax PVX_091425   peptidyl-prolyl cis-trans isomerase 11, putative
Plasmodium yoelii PY00781   peptidyl-prolyl cis-trans isomerase, cyclophilin-type
Saccharomyces cerevisiae YHR057C   peptidylprolyl isomerase CPR2
Saccharomyces cerevisiae YDR304C   peptidylprolyl isomerase family protein CPR5
Schistosoma japonicum Sjp_0206950   ko:K03768 peptidyl-prolyl cis-trans isomerase B (cyclophilin B), putative
Schistosoma mansoni Smp_040790   cyclophilin B
Schmidtea mediterranea mk4.026224.00   Peptidyl-prolyl cis-trans isomerase, rhodopsin-specific isozyme
Schmidtea mediterranea mk4.007569.01   Peptidyl-prolyl cis-trans isomerase
Schmidtea mediterranea mk4.002772.00   Peptidyl-prolyl cis-trans isomerase, rhodopsin-specific isozyme
Schmidtea mediterranea mk4.000140.03   Peptidyl-prolyl cis-trans isomerase, rhodopsin-specific isozyme
Schmidtea mediterranea mk4.002453.00   Peptidyl-prolyl cis-trans isomerase, rhodopsin-specific isozyme
Trypanosoma brucei gambiense Tbg972.7.5450   cyclophilin-type peptidyl-prolyl cis-trans isomerase, putative
Trypanosoma brucei Tb11.v5.0160   cyclophilin-type peptidyl-prolyl cis-trans isomerase, putative
Trypanosoma brucei Tb927.7.4770   cyclophilin-type peptidyl-prolyl cis-trans isomerase, putative
Trypanosoma congolense TcIL3000_7_3940   cyclophilin-type peptidyl-prolyl cis-trans isomerase, putative
Trypanosoma cruzi TcCLB.507521.70   cyclophilin, putative
Trypanosoma cruzi TcCLB.508577.140   cyclophilin, putative
Trichomonas vaginalis TVAG_038810   peptidyl-prolyl cis-trans isomerase D, ppid, putative
Trichomonas vaginalis TVAG_062520   cyclophilin, putative

Essentiality

LmjF.06.0120 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.4770 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.4770 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.4770 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.4770 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
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.
  • 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
  • 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
  • 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
  • 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
  • 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

Druggability index (range: 0 to 1): 0.6

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 peptidylprolyl isomerase B (cyclophilin B) Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Cyclophilin A 164 aa 59.8% 164 aa Compounds References
Plasmodium falciparum peptidyl-prolyl cis-trans isomerase 171 aa 59.2% 152 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0503 0.2609 0.6597
0.0025 0.5 0.5
0.0026 0.5 0.5
0.0503 0.2611 0.6599
0.0519 0.288 0.9681
0.0559 0.2868 0.9679
0.0255 0.2658 0.7282
0.0067 0.3088 1
0.0461 0.275 0.8594
0.0258 0.2582 0.7081
0.0024 0.5 0.5
0.007 0.3254 1
0.0484 0.261 0.6599
0.0484 0.261 0.6599
0.0025 0.5 0.5
0.0465 0.2744 0.947
0.0462 0.262 0.6623
0.0489 0.2676 0.8994
0.0252 0.2593 0.7111
0.0496 0.2607 0.6594
0.0503 0.2609 0.6597
0.0503 0.2609 0.6597
0.0236 0.7343 1
0.0559 0.2868 0.9679
0.0465 0.2744 0.947
0.0025 0.5 0.5
0.0027 0.5 0.5
0.0491 0.2607 0.6594
0.0491 0.2607 0.6594
0.0599157 1 1
0.0559 0.2868 0.9679
0.0462 0.262 0.6623
0.0503 0.2611 0.6599
0.0559 0.2868 0.9679
0.0024 0.5 0.5
0.0503 0.2609 0.6597
0.0067 0.2705 1
0.0489 0.2676 0.8994

Assayability

Assay information

  • Assay for FK-Binding Protein Peptidyl-Prolyl Isomerase Activity (5.2.1.8 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

5 literature references were collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier LmjF.06.0120 (Leishmania major), cyclophilin 2
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