TDR Targets

Detailed view for LmjF.34.0150

Basic information

TDR Targets ID: 25327
Leishmania major, malate dehydrogenase, putative
Source Database / ID: TriTrypDB GeneDB

pI: 7.3739 | Length (AA): 331 | MW (Da): 35931 | Paralog Number: 0

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

Druggability Group : DG3

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

Network

Pfam domains

PF00056 lactate/malate dehydrogenase, NAD binding domain
PF02866 lactate/malate dehydrogenase, alpha/beta C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.

GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
GO:0005488 binding
GO:0003824 catalytic activity
GO:0030060 L-malate dehydrogenase activity
GO:0016491 oxidoreductase activity
GO:0006108 malate metabolic process
GO:0006099 tricarboxylic acid cycle
GO:0006096 glycolysis
GO:0005975 carbohydrate metabolic process
GO:0055114 oxidation reduction
GO:0044262 cellular carbohydrate metabolic process
GO:0019752 carboxylic acid metabolic process
GO:0008152 metabolic process

Metabolic Pathways

Citrate cycle (TCA cycle) (KEGG)
Cysteine and methionine metabolism (KEGG)
Pyruvate metabolism (KEGG)
Glyoxylate and dicarboxylate metabolism (KEGG)
Global map (KEGG)
Biosynthesis of secondary metabolites (KEGG)
Biosynthesis of antibiotics (KEGG)
Carbon metabolism (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	Model Score	MPQS	zDope
4	330	7mdh (A)	30	383	17.00	1	1.14	-0.57
9	317	1smk (A)	45	354	45.00	1	1.66	-1.99
10	317	2dfd (A)	8	316	45.00	1	1.66	-2.01
3	317	1pzg (A)	14	331	28.00	1	1.21046	-0.28
8	318	2dfd (A)	6	317	44.00	1	1.58248	-1.29
9	319	3hhp (A)	1	312	45.00	1	1.59448	-1.31
9	318	1smk (A)	45	355	45.00	1	1.58536	-1.44

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 60-80% 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_126911)

Species	Accession	Gene Product
Arabidopsis thaliana	AT4G17260	lactate/malate dehydrogenase family protein
Babesia bovis	BBOV_IV011270	lactate dehydrogenase
Brugia malayi	Bm1_43730	lactate dehydrogenase.
Caenorhabditis elegans	CELE_F13D12.2	Protein LDH-1
Cryptosporidium hominis	Chro.70062	malate dehydrogenase
Cryptosporidium hominis	Chro.70063	lactate dehydrogenase
Cryptosporidium parvum	cgd7_480	lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase
Cryptosporidium parvum	cgd7_470	malate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase
Drosophila melanogaster	Dmel_CG13334	CG13334 gene product from transcript CG13334-RB
Drosophila melanogaster	Dmel_CG10160	Ecdysone-inducible gene L3
Echinococcus granulosus	EgrG_000467700	L lactate dehydrogenase
Echinococcus granulosus	EgrG_000661000	lactate dehydrogenase protein
Echinococcus granulosus	EgrG_000608500	lactate dehydrogenase a
Echinococcus granulosus	EgrG_000634800	L lactate dehydrogenase B chain
Echinococcus granulosus	EgrG_000660800	lactate dehydrogenase a
Entamoeba histolytica	EHI_067860	malate dehydrogenase, putative
Echinococcus multilocularis	EmuJ_000608500	lactate dehydrogenase a
Echinococcus multilocularis	EmuJ_000634800	L lactate dehydrogenase B chain
Echinococcus multilocularis	EmuJ_000660800	lactate dehydrogenase a
Echinococcus multilocularis	EmuJ_000661000	lactate dehydrogenase a
Echinococcus multilocularis	EmuJ_000007100	lactate dehydrogenase protein
Echinococcus multilocularis	EmuJ_000467700	L lactate dehydrogenase
Homo sapiens	ENSG00000111716	lactate dehydrogenase B
Homo sapiens	ENSG00000166800	lactate dehydrogenase A-like 6A
Homo sapiens	ENSG00000134333	lactate dehydrogenase A
Homo sapiens	ENSG00000166796	lactate dehydrogenase C
Leishmania braziliensis	LbrM.20.0020	malate dehydrogenase, putative
Leishmania donovani	LdBPK_340160.1	malate dehydrogenase, putative
Leishmania infantum	LinJ.34.0160	malate dehydrogenase, putative
Leishmania major	LmjF.34.0150	malate dehydrogenase, putative
Leishmania mexicana	LmxM.33.0150	malate dehydrogenase, putative
Loa Loa (eye worm)	LOAG_12271	hypothetical protein
Mus musculus	ENSMUSG00000030246	lactate dehydrogenase B
Mus musculus	ENSMUSG00000030851	lactate dehydrogenase C
Mus musculus	ENSMUSG00000063229	lactate dehydrogenase A
Neospora caninum	NCLIV_011120	Malate dehydrogenase (EC 1.1.1.37), related
Neospora caninum	NCLIV_042910	Malate dehydrogenase (EC 1.1.1.37), related
Neospora caninum	NCLIV_032330	Malate dehydrogenase (NAD) (EC 1.1.1.37) (Precursor), related
Oryza sativa	4339856	Os06g0104900
Oryza sativa	4328012	Os02g0105400
Plasmodium berghei	PBANKA_1117700	malate dehydrogenase, putative
Plasmodium berghei	PBANKA_1340100	L-lactate dehydrogenase
Plasmodium falciparum	PF3D7_1324900	L-lactate dehydrogenase
Plasmodium falciparum	PF3D7_0618500	malate dehydrogenase
Plasmodium knowlesi	PKNH_1131900	malate dehydrogenase, putative
Plasmodium knowlesi	PKNH_1203900	L-lactate dehydrogenase
Plasmodium vivax	PVX_114050	malate dehydrogenase, putative
Plasmodium vivax	PVX_116630	lactate dehydrogenase
Plasmodium yoelii	PY03376	malate dehydrogenase
Plasmodium yoelii	PY03885	l-lactate dehydrogenase
Schistosoma japonicum	Sjp_0117410	L-lactate dehydrogenase B chain, putative
Schistosoma japonicum	Sjp_0054460	ko:K00016 L-lactate dehydrogenase [EC1.1.1.27], putative
Schistosoma japonicum	Sjp_0054470	L-lactate dehydrogenase A chain, putative
Schistosoma japonicum	Sjp_0110090	ko:K00016 L-lactate dehydrogenase [EC1.1.1.27], putative
Schistosoma mansoni	Smp_038960	L-lactate dehydrogenase
Schistosoma mansoni	Smp_038950	malate dehydrogenase
Schmidtea mediterranea	mk4.012266.00	L-lactate dehydrogenase
Schmidtea mediterranea	mk4.001801.04	L-lactate dehydrogenase
Schmidtea mediterranea	mk4.053509.00	L-lactate dehydrogenase
Schmidtea mediterranea	mk4.027145.02	L-lactate dehydrogenase
Schmidtea mediterranea	mk4.005513.02	L-lactate dehydrogenase
Schmidtea mediterranea	mk4.001167.10	L-lactate dehydrogenase
Toxoplasma gondii	TGME49_291040	lactate dehydrogenase LDH2
Toxoplasma gondii	TGME49_318430	malate dehydrogenase MDH
Toxoplasma gondii	TGME49_232350	lactate dehydrogenase LDH1
Theileria parva	TP01_1182	L-lactate dehydrogenase, putative
Wolbachia endosymbiont of Brugia malayi	Wbm0244	malate dehydrogenase

Essentiality

LmjF.34.0150 has one or more orthologs with essentiality data

Gene/Ortholog	Organism	Phenotype	Source Study
PBANKA_1117700	Plasmodium berghei	Slow	plasmo
PBANKA_1340100	Plasmodium berghei	Essential	plasmo
TGME49_232350	Toxoplasma gondii	Probably non-essential	sidik
TGME49_318430	Toxoplasma gondii	Probably non-essential	sidik
TGME49_291040	Toxoplasma gondii	Probably non-essential	sidik

Show/Hide essentiality data references

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

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.

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

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

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

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

Druggability index (range: 0 to 1): 0.8

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	lactate dehydrogenase B	Compounds	References
Homo sapiens	lactate dehydrogenase C	Compounds	References
Plasmodium falciparum	L-lactate dehydrogenase	Compounds	References
Plasmodium falciparum	malate dehydrogenase	Compounds	References

By sequence similarity to non orthologous druggable targets

No additional associated druggable targets

Ranking Plot

Putative Drugs List

Raw	Global	Species
0.054	0.6655	0.6653
0.0135	1	1
0.0833	0.6076	1
0.0919	1	1
0.0843	1	1
0.00518542	1	0.5
0.0341	1	1
0.0634	0.3624	1
0.0585	0.653	0.653
0.0449	0.7241	0.6012
0.0099	1	1
0.0185	1	1
0.0559	0.6159	0.6119
0.04	0.4764	0.4747
0.0812	0.9737	1
0.0767	1	0.5
0.04	0.4764	0.4747
0.0099	1	1
0.0646	0.7726	1
0.0111	1	1
0.0056	1	1
0.0281	1	1
0.1516	1	1
0.0574	1	1
0.0549	0.3471	0.6421
0.0126	0.5984	0.5955
0.195	1	1
0.016	1	0.5
0.098	1	1
0.0544	1	1
0.0099	1	1
0.0099	1	1
0.0596	1	1
0.0154	1	1
0.0717	0.8148	1
0.0539	0.6641	1
0.0631	1	1
0.1689	1	1
0.0364	1	1
0.04	0.4764	0.4747
0.00536163	1	0.5
0.0683	1	1
0.0266	0.3061	0.599
0.0281	1	1
0.0056	1	1
0.0111	0.2545	0.253
0.0597	0.6445	0.6333
0.0099	1	1
0.114	0.6612	1
0.032	0.2952	1
0.0298	0.2816	1
0.0056	1	1
0.0056	0.7494	0.5
0.0111	1	1
0.0093	1	1
0.0639	0.4797	1
0.0099	1	1
0.0832	0.3897	1
0.029	1	1
0.0526	1	1
0.0832	0.3897	1
0.0091	1	1
0.0154	1	1
0.269	1	1
0.0584	1	1
0.0453	0.7124	0.7124
0.0111	1	1
0.1412	1	1
0.1682	1	1
0.0468	1	1
0.0649	1	1
0.0319	0.5451	0.6343
0.0879	0.2756	0.2719
0.0053	0.6345	0.6345
0.0339	1	1
0.0833	0.6076	1
0.0154	1	1
0.0618	1	1
0.0169	1	1
0.0095	1	1
0.0549	0.3471	0.6421
0.0271	1	1
0.1794	1	1
0.009	1	1
0.0453	0.7124	0.7124
0.027	1	1
0.0099	1	1
0.0056	1	1
0.0183	0.5948	0.6079
0.0819	1	1
0.161358	1	1
0.0281	1	1
0.0152	1	1
0.0155	0.305	1
0.0099	1	1
0.0639	0.5	0.5
0.0081	0.4562	1
0.0154	1	1
0.0573	0.5919	0.9432
0.0266	0.3061	0.599
0.0616	1	1
0.0346	1	1
0.0601	0.5179	0.5142
0.1333	1	1
0.044	0.3132	1
0.0463	1	1
0.0833	0.6076	1
0.0111	1	1
0.0056	1	1
0.0111	1	0.5
0.0266	0.3061	0.599
0.0405	1	1
0.0099	1	1
0.0529	1	1
0.0111	1	1
0.0791	1	1
0.0596	1	1
0.0798	1	1
0.0137	0.9354	1
0.0186	1	1
0.0087	1	1
0.0361	1	1
0.0134	0.4209	1
0.0099	1	1
0.0099	1	1
0.0453	0.7124	0.7124
0.0628	0.3888	1
0.0868	1	1
0.0099	1	1
0.0717	0.6889	1
0.0559	0.6159	0.6119
0.0596	1	1
0.0738	1	1
0.0529	1	1
0.0514	1	1
0.0099	1	1
0.0794	1	1
0.0107169	1	0.5
0.0573	0.5919	0.9432
0.0111	1	1
0.1794	1	1
0.0099	1	1
0.0111	1	1
0.2209	1	1
0.0527	0.5275	1
0.0154	0.429	0.9116
0.2312	1	1
0.073	1	1
0.0403	0.7904	1
0.1065	1	1
0.0099	1	1
0.0425	0.2736	0.6324
0.0616	1	1
0.009	1	1
0.027	1	1
0.0192	0.4457	0.5015
0.0197	1	1
0.0473	0.3312	0
0.0056	1	1
0.0111	1	1
0.0449	0.7241	0.6012
0.0879	0.2756	0.2719
0.0504	1	1
0.0141	0.4647	0.5
0.0489	1	1
0.0639	0.4797	1
0.0595	1	1
0.0111	1	1
0.0255	1	1
0.0609	0.6484	0.6484
0.0111	1	1
0.0049	0.3011	0.3011
0.0341	1	1
0.0056	1	1
0.0145	1	1
0.0874	1	1
0.0712	0.5296	1
0.0266	0.3061	0.599
0.0153	1	1
0.0339	1	1
0.0111	1	1
0.009	1	1
0.1043	1	1
0.0095	0.2733	1
0.00640072	0.46482	0.46482
0.0046	0.9126	1
0.017	0.4383	0.8127
0.055	0.646	0.646
0.0089	0.2759	1
0.0742	1	1
0.0105429	1	1
0.0573	0.5919	0.9432
0.0494	0.4942	0.41
0.0638	1	1
0.0833	0.6076	1
0.0453	0.7124	0.7124
0.0099	1	1
0.0635	1	1
0.0459	1	1
0.0418	0.3666	0
0.0099	1	1
0.0485	1	1
0.0154	1	1
0.0053	1	0.5
0.1163	1	1
0.1326	1	1
0.0573	0.3424	0.5
0.0134	0.4209	1
0.0097	0.3315	1
0.00522164	1	0.5
0.0154	1	1
0.0639	0.5	0.5
0.0056	1	1
0.0111	1	1
0.114	0.6612	1
0.0411	1	1
0.0099	1	1
0.0707	1	1
0.0293	0.3063	0.6514
0.063	0.4772	1
0.0573	0.5919	0.9432
0.1939	1	1
0.0624	0.4508	1
0.04	0.4764	0.4747
0.1114	1	1
0.0644	1	1
0.0089	1	1
0.0111	1	1
0.0789	1	1
0.0448	0.7102	0.7102
0.0111	1	1
0.0783	1	1
0.0216	0.2501	0.7117
0.0111	1	1
0.0111	1	1
0.0752	1	1
0.0098	0.3355	1
0.063	0.4772	1
0.0346	1	1
0.0189	0.3717	0
0.0833	0.6076	1
0.045	0.4448	0.7127
0.0315	1	1
0.0839	1	1
0.0099	1	1
0.0099	1	1
0.014	0.5495	1
0.0417	0.3312	0
0.0353	1	1
0.1467	1	1
0.0736	1	1
0.0154	1	1
0.0745	1	1
0.0192	0.4457	0.5015
0.0056	1	1
0.0601	1	1
0.0111	1	1
0.0111	1	1
0.0185	0.2871	0.8289
0.0934	1	1
0.0777	1	0.5
0.0188	0.8143	0.5
0.0183	0.5948	0.6079
0.0413	1	1
0.0099	1	1
0.0053	1	0.5
0.107	1	1
0.1366	1	1
0.0889	1	1
0.0111	1	1
0.009	1	1
0.0322	1	1
0.0833	0.6076	1
0.0056	1	0.5
0.0137	0.3251	1
0.0111	1	1
0.0632	1	1
0.0108965	1	0.5
0.0134	1	1
0.0056	0.4605	0.5
0.0135	0.6383	0.6216
0.0793	1	1
0.0104	0.3056	0.3056
0.0883	0.2722	1
0.0557	1	1
0.0298	0.2816	1
0.1114	1	1
0.0265	0.6234	0.6193
0.014	0.5495	1
0.0103	1	1
0.0463	1	1
0.0099	1	1
0.1516	1	1
0.0183	1	1
0.0097	0.3315	1
0.0579	1	1
0.1103	1	1
0.0099	1	1
0.0573	0.5919	0.9432
0.1477	1	1
0.157803	1	1
0.00523329	1	0.5
0.0839	1	1
0.0177	0.4156	0.4156
0.1056	1	1
0.0099	1	1
0.098	1	1
0.0152	0.3576	1
0.0587	0.3508	1
0.147	1	1
0.1033	1	1
0.0883	0.2722	1
0.0629	0.5011	0.4346
0.0631	1	1
0.157803	1	1
0.1103	1	1
0.064	1	1
0.0093	1	1
0.054	0.6655	0.6653
0.0099	1	1
0.1448	1	1
0.0729	1	1
0.0506	0.8505	1
0.0778	1	1
0.0099	1	1
0.053	1	1
0.0612	0.6616	0.66
0.0624	0.4508	1
0.0552	1	1
0.0919	1	1
0.0247	1	1
0.0154	1	1

Assayability

Assay information

Assay for Malic Dehydrogenase (1.1.1.37 ) Sigma-Aldrich
Automatic link to known assays based on EC numbers.
BRENDA Assay
An enzyme with this EC number or name or sequence has been assayed in Leishmania mexicana ( 1 )

Reagent availability

Reagent:

Target	Type	Source	Notes
LmjF.34.0150	cloned gene	BRENDA	A gene with this EC number or name or sequence has been cloned from Leishmania major ( 1 )

Bibliographic References

30 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.

User comments

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Gene identifier	LmjF.34.0150 (Leishmania major), malate dehydrogenase, putative

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