Detailed view for LmjF.36.3410

Basic information

TDR Targets ID: 23601
Leishmania major, short chain dehydrogenase-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.1477 | Length (AA): 376 | MW (Da): 40735 | Paralog Number: 0

Signal peptide: N | 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

PF00106   short chain dehydrogenase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016491   oxidoreductase activity  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 7 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
89 375 1xu9 (A) 21 288 24.00 0 1 0.99 -0.7
96 354 1xu9 (A) 27 269 26.00 0 1 1.04 -1.08
98 350 2ae2 (A) 4 256 23.00 0 1 1 -1.33
59 183 2eer (A) 134 240 40.00 0.17 0.4 0.439847 0.92
102 147 4k28 (A) 124 169 30.00 0.23 0.41 0.36894 0.25
103 204 1w6u (A) 59 152 32.00 0.00044 1 0.691677 -0.91
104 373 3svt (A) 8 276 23.00 0 1 0.915685 -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

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile amastigotes. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile 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_130166)

Species Accession Gene Product
Brugia malayi Bm1_09265   Dehydrogenases, short chain protein 30
Caenorhabditis elegans CELE_T25G12.7   Protein DHS-30
Caenorhabditis elegans CELE_T25G12.13   Protein T25G12.13
Caenorhabditis elegans CELE_T25G12.2   Protein T25G12.2
Drosophila melanogaster Dmel_CG7601   CG7601 gene product from transcript CG7601-RA
Giardia lamblia GL50803_8382   Short-chain dehydrogenase, putative
Homo sapiens ENSG00000109016   dehydrogenase/reductase (SDR family) member 7B
Leishmania braziliensis LbrM.35.3640   short chain dehydrogenase-like protein
Leishmania donovani LdBPK_363570.1   short chain dehydrogenase-like protein
Leishmania infantum LinJ.36.3570   short chain dehydrogenase-like protein
Leishmania major LmjF.36.3410   short chain dehydrogenase-like protein
Leishmania mexicana LmxM.36.3410   short chain dehydrogenase-like protein
Loa Loa (eye worm) LOAG_13677   dehydrogenase
Loa Loa (eye worm) LOAG_12558   hypothetical protein
Mus musculus ENSMUSG00000042569   dehydrogenase/reductase (SDR family) member 7B
Mycobacterium tuberculosis Rv3391   Possible multi-functional enzyme with acyl-CoA-reductase activity AcrA1
Mycobacterium tuberculosis Rv0945   Probable short-chain type dehydrogenase/reductase
Mycobacterium tuberculosis Rv1050   Probable oxidoreductase
Mycobacterium ulcerans MUL_4417   short chain dehydrogenase
Mycobacterium ulcerans MUL_4346   multi-functional enzyme with acyl-CoA-reductase activity AcrA1
Mycobacterium ulcerans MUL_0918   short chain dehydrogenase
Mycobacterium ulcerans MUL_3139   short-chain dehydrogenase
Oryza sativa 4329454   Os02g0511400
Oryza sativa 4350557   Os11g0499600
Schmidtea mediterranea mk4.005667.01  
Schmidtea mediterranea mk4.010259.00  
Trypanosoma brucei gambiense Tbg972.11.11250   short-chain dehydrogenase, putative
Trypanosoma brucei Tb927.11.10020   short-chain dehydrogenase, putative
Trypanosoma congolense TcIL3000_0_45550   short-chain dehydrogenase, putative
Trypanosoma congolense TcIL3000.11.10540   short-chain dehydrogenase, putative
Trypanosoma cruzi TcCLB.509749.39   short-chain dehydrogenase, putative
Trypanosoma cruzi TcCLB.510719.20   short-chain dehydrogenase, putative

Essentiality

LmjF.36.3410 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu3451 Mycobacterium tuberculosis non-essential nmpdr
Tb11.01.1780 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.1780 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.1780 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.1780 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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): 0.4

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
Species Target Length Identity Alignment span Linked Drugs Reference
Macaca mulatta Hydroxysteroid 11-beta dehydrogenase 1 140 aa 26.9% 156 aa Compounds References
Canis lupus familiaris 11-beta-hydroxysteroid dehydrogenase type 1 293 aa 25.6% 242 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0004 0.5 0.5
0.0058 1 1
0.0019 0.4322 1
0.0108 0.5 0.5
0.0106 1 1
0.0053 1 1
0.0196 0.8679 0.5
0.0012 0.5 0.5
0.0087 0.5 0.5
0.0032 1 1
0.0088 0.6544 1
0.004 0.5 0.5
0.0016 0.5 0.5
0.0114 1 1
0.0066 0.3586 0.5
0.016 0.577 1
0.0089 0.5 0.5
0.0027 0.5 0.5
0.0009 1 0.5
0.0045 1 1
0.0004 0.5 0.5
0.0157 0.5 0.5
0.0165 1 1
0.007 0.2916 1
0.0089 0.5 0.5
0.0027 0.5 0.5
0.0119 0.2746 1
0.0068 0.2585 0.5
0.0073 0.4546 1
0.0082 1 0.5
0.0071 0.3141 0
0.0408 0.5144 1
0.0005 0.5 0.5
0.0004 0.5 0.5
0.0009 0.5 0.5
0.0106 0.2872 1
0.0106 1 0.5
0.0093 0.5 0.5
0.0009 0.7374 0.5
0.0131 0.5 0.5
0.0132 0.3658 1
0.0102 0.7451 0.5
0.0196 0.8679 0.5
0.008 0.5 0.5
0.0058 0.3931 1
0.0009 0.5 0.5
0.0068 1 1
0.0039 1 1
0.0196 0.8679 0.5
0.0021 0.3321 0.5
0.0097 1 1
0.0085 1 1
0.0218 0.5 0.5
0.0408 0.5144 1
0.0123 0.5 0.5
0.0026 0.5 0.5
0.0064 0.3508 0.5
0.0021 0.5 0.5
0.0113 1 1
0.0004 0.5 0.5
0.0073 0.3811 1
0.007 0.2916 1
0.0004 0.5 0.5
0.0009 0.5 0.5
0.0171 0.4063 0.5
0.007 1 1
0.0021 0.3321 0.5
0.0162 1 1
0.0114 1 1
0.0088 1 1
0.0106 0.5 0.5
0.0053 1 1
0.0004 0.5 0.5
0.0222 0.5 0.5
0.0097 0.4304 1
0.0073 0.3141 1
0.0056 0.875 1
0.0004 0.5 0.5
0.0056 1 1
0.0084 0.4283 0.4047
0.0067 0.3468 1
0.0013 1 0.5
0.0009 0.5 0.5
0.0171 0.4063 0.5
0.0402 1 1
0.007 1 1
0.011 0.3568 0.5973
0.0073 0.3811 1
0.0012 0.5 0.5
0.007 0.2916 1
0.0009 0.5 0.5
0.0118 1 1
0.0057 0.284 0.6352
0.0073 0.2873 0.4086
0.007 1 1
0.0005 0.5 0.5
0.0009 0.5 0.5
0.0046 0.3082 0
0.0408 0.5144 1
0.0068 1 1
0.0009 0.5 0.5
0.0013 0.5 0.5
0.0009 0.5 0.5
0.0035 1 1
0.016 0.577 1
0.0076 1 1

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.

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Gene identifier LmjF.36.3410 (Leishmania major), short chain dehydrogenase-like protein
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